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anti-oct4 3/4 n19 polyclonal goat antibody sc-8628  (Santa Cruz Biotechnology)


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    Santa Cruz Biotechnology anti-oct4 3/4 n19 polyclonal goat antibody sc-8628
    Anti Oct4 3/4 N19 Polyclonal Goat Antibody Sc 8628, supplied by Santa Cruz Biotechnology, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/goat+polyclonal+anti-oct4/oct4+antibody/pmc12271868-95-21-29
    Average 90 stars, based on 1 article reviews
    anti-oct4 3/4 n19 polyclonal goat antibody sc-8628 - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    Chromatin Immunoprecipitation:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Mutagenesis:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Standard Deviation:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Two Tailed Test:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Binding Assay:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Expressing:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    RNA Expression:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Stable Transfection:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    FLAG-tag:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Sequencing:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Concentration Assay:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Flow Cytometry:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Magnetic Resonance Imaging:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.

    Staining:

    Article Title: Computer-assisted engineering of hyperstable fibroblast growth factor 2.
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Generation of transgene-free porcine intermediate type induced pluripotent stem cells
    Article Snippet: Primary antibodies used were as follows: Rabbit polyclonal anti-NANOG (1:400; Peprotech, #500-P236, lot 0405M322RB), goat polyclonal anti-OCT4 (1:250; Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA), mouse monoclonal anti-SOX2 (1:50; R&D Systems, Minneapolis, MN, USA), mouse monoclonal SSEA-1 (1:50; Biolegend, #125601, lot B134566), rat monoclonal SSEA-3 (1:100; Biolegend, #330302, lot B117272), mouse monoclonal SSEA-4 (1:200; Biolegend, #330402, lot B134263), mouse monoclonal TRA-1-60 (1:400; Biolegend, #330602, lot B133894), and mouse monoclonal TRA-1-81 (1:100; Biolegend, #330702, lot B1136798).

    Article Title: Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation
    Article Snippet: Antibody , Goat polyclonal Anti-Oct4 , Santa Cruz , Sc-8629 , 7.5 ug/ChIP.

    Article Title: Residual pluripotency is required for inductive germ cell segregation
    Article Snippet: Goat polyclonal anti-OCT4, Santa Cruz, Cat# sc-8628; RRID: AB_653551, 76 times cited on the company website; Goat polyclonal anti-SOX2, Santa Cruz, Cat# sc-17320, RRID:AB_2286684), 119 times cited on the company website; Goat polyclonal anti-SOX2, Neuromics, Cat# GT15098; RRID: AB_2195800, 3 times cited on the company website; Rabbit polyclonal anti-NANOG, Bethyl Laboraboratories, Cat# A300-397A; RRID: AB_386108, 83 times cited on the company website; Goat polyclonal anti-KLF4, R&D Systems, Cat# AF3158; RRID: AB_2130245, 33 times cited on the company website; Mous monoclonal anti-V5 tag, Sigma-Aldrich, Cat# V8012, RRID:AB_261888, 91 times cited on the company website; Goat polyclonal anti-T, Santa Cruz, Cat# sc-17743, RRID:AB_634980, 21 times cited on the company website; Rabbit monoclonal anti-GAPDH, Cell Signaling Technology, Cat# 5014, RRID:AB_10693448, 3261 times cited on the company website; D- Animal Models E- Human Subjects

    Article Title: Retinoic acid accelerates downregulation of the Xist repressor, Oct4, and increases the likelihood of Xist activation when Tsix is deficient
    Article Snippet: ChIP antibodies included goat polyclonal anti-Oct4 (Santa Cruz #sc8628) and normal rabbit IgG (Cell Signaling #2729).

    Article Title: Specification of human germ cell fate with enhanced progression capability supported by hindgut organoids.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-OCT4 Santa Cruz Cat# sc-8628; RRID: AB_653551 Goat polyclonal anti-SOX17 R&D Cat# AF1924; RRID: AB_355060 Rabbit polyclonal anti-NANOG PeproTech Cat# 500-P236; RRID: AB_1268805 Rabbit monoclonal anti-BLIMP1 Cell Signaling Cat# 9115; RRID: AB_2169699 Rabbit monoclonal anti-DAZL Abcam Cat# ab215718; RRID: AB_2893177 Goat polyclonal anti-DDX4 R&D Cat# AF2030; RRID: AB_2277369 Mouse monoclonal anti-5mC Abcam Cat# ab10805; RRID: AB_442823 Rabbit monoclonal anti-FOXA2 Cell Signaling Cat# 8186; RRID: AB_10891055 Rabbit monoclonal anti-CDX2 Abcam Cat# ab76541; RRID:AB_1523334 Mouse monoclonal anti-CDH1 Abcam Cat# ab1416; RRID:AB_300946 Mouse monoclonal anti-H3K9me2 Abcam Cat# ab1220; RRID: AB_449854 Rabbit monoclonal anti-EOMES Abcam Cat# ab216870 Goat polyclonal anti-TBXT R&D Cat# AF2085 RRID: AB_2200235 Rabbit monoclonal anti-TFAP2C Abcam Cat# ab218107; RRID: AB_2891087 Mouse monoclonal anti-OCT4 BD Biosciences Cat# 611203; RRID: AB_398737 Mouse monoclonal anti-RFP (DsRed) Rockland Cat# 200-301-379S; RRID: AB_2611064 Goat polyclonal anti-RFP (DsRed) Rockland Cat# 200-101-379S Mouse monoclonal Alexa Fluor 488 anti-TNAP BD Biosciences Cat# 561495; RRID: AB_10897143 Mouse monoclonal Alexa Fluor 647 anti-TNAP BD Biosciences Cat# 561500; RRID:AB_10717125 Mouse monoclonal Alexa Fluor 647 anti-PDPN Biolegend Cat# 395003 RRID: AB_2783309 Mouse monoclonal APC anti- CD117 Innovative Research Cat# CD11705; RRID:AB_1463361 Biological samples Human embryonic tissue samples Addenbrooke’s Hospital (Cambridge, UK) (REC No: 96/085) Human embryonic tissue samples Human Developmental Biology Resource (HDBR)-UCL (Project 200421) https://www.hdbr.org/ Chemicals, peptides, and recombinant proteins MEKi PD0325901 Tocris Cat# 4192; CAS: 391210-10-9 PKCi Gö6983 Abcam Cat# ab144414; CAS: 133053-19-7 TNKi XAV939 Sigma Cat# X3004; CAS: 284028-89-3 WNTi IWP2 Tocris Cat# 3533; CAS: 686770-61-6 P38i/JNKi BIRB0796 Axon Medchem Cat# 1358; CAS: 285983-48-4 SRCi CGP77675 Axon Medchem Cat# 2097; CAS: 234772-64-6 hLIF Biochemistry Department, University of Cambridge N/A BMP2 Biochemistry Department, University of Cambridge N/A SCF Peprotech Cat# 300–07; Accession Number: P21583 EGF R&D Cat# 2028-EG; Accession Number: NP_034243 FGF4 R&D Cat# 235-F4; Accession Number: P08620 (Continued on next page) Cell Reports 42, 111907, January 31, 2023 17

    Article Title: Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
    Article Snippet: Primary antibodies included goat polyclonal anti-Oct4 (Santa Cruz Biotechnology, USA) and rabbit monoclonal anti-Nanog (Cell Signaling technology, USA).

    Article Title: Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development in mouse
    Article Snippet: Materials & experimental systems n/a Involved in the study Antibodies Eukaryotic cell lines Palaeontology Animals and other organisms Human research participants Clinical data Methods n/a Involved in the study ChIP-seq Flow cytometry MRI-based neuroimaging Antibodies Antibodies used Rabbit polyclonal anti-Nanog: Abcam, Cat# ab80892, RRID: AB_2150114, Lot: GR40243-12; Goat polyclonal anti-Sox2, R&D Systems, Cat# AF2018, RRID: AB_355110; Rabbit polyclonal anti-Stella, Santa Cruz, Cat# sc-67249, RRID: AB_1128372, Lot: H1809; Goat polyclonal anti-Stella, R&D Systems, Cat# AF2566, RRID: AB_2094147, Lot:UWS0108111; Goat polyclonal anti-Oct4, Santa Cruz, Cat# sc-8628, RRID: AB_653551, Lot: F1815; Rabbit polyclonal anti-Ap2γ, Santa Cruz, Cat# sc-8977, RRID: AB_2286995, Lot: G1112; Goat polyclonal anti-Brachyury (N-19), Santa Cruz, Cat# sc-17743 RRID: AB_634980, Lot: A1614; Rat monoclonal anti-E-Cadherin, Sigma-Aldrich, Cat#U3254, RRID: AB_477600, Lot: 085K4798; Rabbit polyclonal anti-Eomes, Abcam, Cat#ab23345 RRID: AB_778267, Lot:GR306193-1; Rabbit monoclonal anti-phospho Smad1/5/9, Cell Signaling Technology, Cat# 13820 RRID: AB_2493181, Lot: D5810; Goat polyclonal anti-Otx2, R&D Systems, Cat# AF1979, RRID: AB_2157172, Lot: KNO0615111; Rat monoclonal anti-Blimp1, Santa Cruz, Cat# sc-130917, RRID: AB_2169704, Lot: G0913; Rabbit polyclonal anti-GFP Alexa Fluor 488; Invitrogen; Cat# A21311, RRID: AB_221477, Lot: 1891008; Chicken polyclonal anti-GFP, Abcam, Cat# Ab13970, RRID: AB_300798, Lot: GR305729-1; Goat anti-chicken Alexa Fluor 488, Invitrogen, Cat# A11039, RRID: AB_142924; Donkey anti-rabbit Alexa Fluor 594, Invitrogen, Cat# A21207, RRID: AB_141637; Donkey anti-goat Alexa Fluor 594, Invitrogen, Cat# A11058, RRID: AB_142540; Donkey anti-rabbit Alexa 488, Molecular Probes, Cat# A21206, RRID: AB_141708; Donkey anti-rat 594, Molecular Probes, Cat# A21209 RRID: AB_2535795; Rabbit anti-rat IgG, Vector Laboratories, Cat# AI-4001 RRID: AB_2336209 3 nature research | reporting sum m ary O ctober 2018 Validation The staining patterns for each primary antibody used were validated in wild type embryos and compared to published antibody/ WISH data.



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    Image Search Results


    Journal: Cell reports

    Article Title: Chromosome silencing in vitro reveals trisomy 21 causes cell-autonomous deficits in angiogenesis and early dysregulation in Notch signaling

    doi: 10.1016/j.celrep.2022.111174

    Figure Lengend Snippet:

    Article Snippet: anti-OCT4 (goat polyclonal) , Santa Cruz Biotechnology , Cat#: sc-8629; RRID: AB_2167705.

    Techniques: Recombinant, Blocking Assay, Multiplex Assay, Isolation, Transgenic Assay, Software