Centrifugation:Article Title: Single-cell RNA sequencing defines developmental progression and reproductive transitions of Pneumocystis carinii
Article Snippet: The gradient was prepared with Ficoll (Ficoll: Millipore, Billerica, MD) concentrations diluted in 16% sodium diatrizoate (Hypaque: Sigma, St. Louis, MO), ranging from 4% to 12% increments. .. Following centrifugation at 300 × g , each layer was collected, and the cells were rinsed with cold Dulbecco’s phosphate-buffered saline (DPBS; Fisher Scientific, Pittsburgh, PA) and pelleted by centrifugation at 2,500 × g . To minimize cell clumping, pellets were gently resuspended using a 20-gage ball-tip gavage needle (Becton Dickinson & Co., Franklin Lakes, NJ) before final centrifugation at 2,500 × g . The resulting samples were reconstituted in Mg2 + and Ca2-free RPMI 1640 medium (Fisher Scientific, Pittsburgh, PA) supplemented as described above. ..
Saline:Article Title: Single-cell RNA sequencing defines developmental progression and reproductive transitions of Pneumocystis carinii
Article Snippet: The gradient was prepared with Ficoll (Ficoll: Millipore, Billerica, MD) concentrations diluted in 16% sodium diatrizoate (Hypaque: Sigma, St. Louis, MO), ranging from 4% to 12% increments. .. Following centrifugation at 300 × g , each layer was collected, and the cells were rinsed with cold Dulbecco’s phosphate-buffered saline (DPBS; Fisher Scientific, Pittsburgh, PA) and pelleted by centrifugation at 2,500 × g . To minimize cell clumping, pellets were gently resuspended using a 20-gage ball-tip gavage needle (Becton Dickinson & Co., Franklin Lakes, NJ) before final centrifugation at 2,500 × g . The resulting samples were reconstituted in Mg2 + and Ca2-free RPMI 1640 medium (Fisher Scientific, Pittsburgh, PA) supplemented as described above. ..
Article Title: Synergistic cooperation between progranulin and Jak2/Stat3 signaling determines definitive myeloid cell fate.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Reagents Fetal bovine serum Life technologies 26140-079 HEPES Glibco 15630080 Sodium pyruvate Glibco 11360070 Penecilin- Streptomyocin Glibco 15140122 Hygromycin B (50mg/mL) Roche 10843555001 RPMI 164 Glibco 11875085 Q5® High-Fidelity DNA Polymerase New England Biosciences M0491S Kpn1 New England Biosciences R3142S Nuclease-free water Fisher Scientific BP2484100 Phenol red solution Sigma P0290 NBT/BCIP solution Roche 11681451001 Pronase MilliporeSigma 11459643001 Liberase MilliporeSigma 5401127001 Dulbecco’s Phosphate Buffered Saline solution with Ca2+ and Mg2 MilliporeSigma D8662 30 μm nylon mesh Fisher Scientific NC9084441 21-gauge syringe Fisher Scientific BD 309624 SYTOXTM Red Life Technologies S34859 Chloroform Fisher Scientific C298-500 Trizol Fisher Scientific 15596026 Heparin VWR BT139975-1G Wright stain solution Fisher Scientific 5029782 Giemsa stain Sigma-Aldritch GS1L0-1L Cytoseal XYL Fisher Scientific 22050262 Pronase Sigma 11459643001 Tricaine Pentair T RS5 Paraformaldehyde Sigma-Aldrich 158127-500G Triton X-100 VWR 97063-864 Bovine serum albumin Sigma A3311-10G Lenti-X Concentrator Takara Bio 631231 & 631232 RNase A powder NeoBiotech NB-03-0163 DMEM/F-12 GlutaMAX Gibco A4192001 DAPI Life Science Technology 62248 TaqMan Fast Advanced Master Mix Thermo Fisher 4444556 TaqMa Fast Advanced Master Mix Thermo Fisher 4444556 Antibodies p-Stat3, Tyr708 MBL Life Science D128-3 Rabbit IgG(control negative) Cell Signaling 66362; RRID:AB_2924329 Anti-Digoxigenin-AP Fab fragments Roche 11093274910; RRID:AB_514497 Donkey anti-Rabbit Alexa Flour 594 Life Technologies A21207; RRID:AB_141637 Donkey anti-Mouse Alexa Flour 488 Life Technologies A21202; RRID:AB_141607 Goat Anti-Chicken Alexa Flour 488 Life Technologies A11039; RRID:AB_2534096 APC Mouse Anti-Human CD11b BD Pharmingen 550019; RRID:AB_398456 (Continued on next page) Cell Reports 45, 117477, June 23, 2026 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER PE Mouse Anti-Human CD14 BD Pharmingen 555398; RRID:AB_395799 PE/Cyanine7 anti-human CD16 Antibody Biolegend 302016; RRID:AB_314216 FITC anti-human CD45 Antibody Biolegend 304006; RRID:AB_314394 Pacific BlueTM anti-human CD235ab Antibody Biolegend 306612; RRID:AB_2116241 Pacific BlueTM anti-human CD45 Antibody Biolegend 304022; RRID:AB_493655 CD34 Monoclonal Antibody (4H11), PE-Cyanine7 Invitrogen 25-0349-42; RRID:AB_1963576 FITC Mouse Anti-Human CD61 BD Pharmingen 555753; RRID:AB_396094 PE Mouse Anti-Human CD71 BD Pharmingen 555537; RRID:AB_395921 Experimental Models Zebrafish: AB* ZIRC ZDB-GENO-960809-7 Zebrafish: grna54 Sholenberger et al.40 N/A Zebrafish: stat3sa15744 Kettelborough et al.103 ZDB-ALT-130411-4288 Zebrafish: Tg(gata1:dsRed) Traver et al.43 ZDB-TGCONSTRCT-070117-38 Zebrafish: Tg(mpeg1:eGFP) Ellet et al.42 ZDB-ALT-120117-1 Zebrafish: Tg(lmo2:eGFP) Zhu et al.48 ZDB-TGCONSTRCT-080122-3 Zebrafish: Tg(hsp70:gal4) Scheer et al.60 ZDB-TGCONSTRCT-070117-42 Zebrafish: fli1rstpl50GT Craig et al.50 ZDB-ALT-151120-2 Zebrafish: Tg(14xUAS:grna-P2A-mRFP1)is505 This paper N/A Zebrafish: Tg(14xUAS:stat3C-P2A-mRFP1)is506 This paper N/A Zebrafish: Tg(phldb1:gal4-mCherr) Distel et al.104 N/A Zebrafish: Tg(mpx:eGFP)i114 Renshaw et al.105 ZDB-TGCONSTRCT-070118-1 Zebrafish: Tg(mpeg1:Dendra2) Harvie et al.47 ZDB-TGCONSTRCT-150430-2 Cell line: K562 Cells ATCC CCL-243 Cell line: HEK293T cells ATCC CRL3216 Oligonucleotide Morpholino: Standard GeneTools N/A Morpholino: stat3 Yamashita et al.52 N/A Morpholino: grna mismatch Campbell et al.19 N/A Morpholino: jak2a Ma et al.65 N/A Morpholino: grna Campbell et al.19 N/A Cloning primer: GRN Table S1 N/A Cloning primer: grna-P2A Table S1 N/A Cloning primer: ca-stat3 Table S1 N/A Cloning primer: P2A Table S1 N/A Cloning primer: grna Table S1 N/A qPCFR: GRN Table S1 N/A qPCR primer: efa1 Table S1 N/A qPCR primer: grna Table S1 N/A qPCR primer: stat3 Table S1 N/A qPCR primer: stat3-BS1 Table S1 N/A qPCR primer: stat3-BS2 Table S1 N/A qPCR primer: stat3-BS3 Table S1 N/A qPCR primer: stat3-BS4 Table S1 N/A qPCR primer: stat3-BS5 Table S1 N/A qPCR primer: stat3-BS6 Table S1 N/A qPCR primer: tert Table S1 N/A Custom TaqMan SNP Genotyping Assay Thermo Fisher 4332075 Assay ID: ANGZY9Y (Continued on next page) 20 Cell Reports 45, 117477, June 23, 2026
Wright Stain:Article Title: Synergistic cooperation between progranulin and Jak2/Stat3 signaling determines definitive myeloid cell fate.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Reagents Fetal bovine serum Life technologies 26140-079 HEPES Glibco 15630080 Sodium pyruvate Glibco 11360070 Penecilin- Streptomyocin Glibco 15140122 Hygromycin B (50mg/mL) Roche 10843555001 RPMI 164 Glibco 11875085 Q5® High-Fidelity DNA Polymerase New England Biosciences M0491S Kpn1 New England Biosciences R3142S Nuclease-free water Fisher Scientific BP2484100 Phenol red solution Sigma P0290 NBT/BCIP solution Roche 11681451001 Pronase MilliporeSigma 11459643001 Liberase MilliporeSigma 5401127001 Dulbecco’s Phosphate Buffered Saline solution with Ca2+ and Mg2 MilliporeSigma D8662 30 μm nylon mesh Fisher Scientific NC9084441 21-gauge syringe Fisher Scientific BD 309624 SYTOXTM Red Life Technologies S34859 Chloroform Fisher Scientific C298-500 Trizol Fisher Scientific 15596026 Heparin VWR BT139975-1G Wright stain solution Fisher Scientific 5029782 Giemsa stain Sigma-Aldritch GS1L0-1L Cytoseal XYL Fisher Scientific 22050262 Pronase Sigma 11459643001 Tricaine Pentair T RS5 Paraformaldehyde Sigma-Aldrich 158127-500G Triton X-100 VWR 97063-864 Bovine serum albumin Sigma A3311-10G Lenti-X Concentrator Takara Bio 631231 & 631232 RNase A powder NeoBiotech NB-03-0163 DMEM/F-12 GlutaMAX Gibco A4192001 DAPI Life Science Technology 62248 TaqMan Fast Advanced Master Mix Thermo Fisher 4444556 TaqMa Fast Advanced Master Mix Thermo Fisher 4444556 Antibodies p-Stat3, Tyr708 MBL Life Science D128-3 Rabbit IgG(control negative) Cell Signaling 66362; RRID:AB_2924329 Anti-Digoxigenin-AP Fab fragments Roche 11093274910; RRID:AB_514497 Donkey anti-Rabbit Alexa Flour 594 Life Technologies A21207; RRID:AB_141637 Donkey anti-Mouse Alexa Flour 488 Life Technologies A21202; RRID:AB_141607 Goat Anti-Chicken Alexa Flour 488 Life Technologies A11039; RRID:AB_2534096 APC Mouse Anti-Human CD11b BD Pharmingen 550019; RRID:AB_398456 (Continued on next page) Cell Reports 45, 117477, June 23, 2026 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER PE Mouse Anti-Human CD14 BD Pharmingen 555398; RRID:AB_395799 PE/Cyanine7 anti-human CD16 Antibody Biolegend 302016; RRID:AB_314216 FITC anti-human CD45 Antibody Biolegend 304006; RRID:AB_314394 Pacific BlueTM anti-human CD235ab Antibody Biolegend 306612; RRID:AB_2116241 Pacific BlueTM anti-human CD45 Antibody Biolegend 304022; RRID:AB_493655 CD34 Monoclonal Antibody (4H11), PE-Cyanine7 Invitrogen 25-0349-42; RRID:AB_1963576 FITC Mouse Anti-Human CD61 BD Pharmingen 555753; RRID:AB_396094 PE Mouse Anti-Human CD71 BD Pharmingen 555537; RRID:AB_395921 Experimental Models Zebrafish: AB* ZIRC ZDB-GENO-960809-7 Zebrafish: grna54 Sholenberger et al.40 N/A Zebrafish: stat3sa15744 Kettelborough et al.103 ZDB-ALT-130411-4288 Zebrafish: Tg(gata1:dsRed) Traver et al.43 ZDB-TGCONSTRCT-070117-38 Zebrafish: Tg(mpeg1:eGFP) Ellet et al.42 ZDB-ALT-120117-1 Zebrafish: Tg(lmo2:eGFP) Zhu et al.48 ZDB-TGCONSTRCT-080122-3 Zebrafish: Tg(hsp70:gal4) Scheer et al.60 ZDB-TGCONSTRCT-070117-42 Zebrafish: fli1rstpl50GT Craig et al.50 ZDB-ALT-151120-2 Zebrafish: Tg(14xUAS:grna-P2A-mRFP1)is505 This paper N/A Zebrafish: Tg(14xUAS:stat3C-P2A-mRFP1)is506 This paper N/A Zebrafish: Tg(phldb1:gal4-mCherr) Distel et al.104 N/A Zebrafish: Tg(mpx:eGFP)i114 Renshaw et al.105 ZDB-TGCONSTRCT-070118-1 Zebrafish: Tg(mpeg1:Dendra2) Harvie et al.47 ZDB-TGCONSTRCT-150430-2 Cell line: K562 Cells ATCC CCL-243 Cell line: HEK293T cells ATCC CRL3216 Oligonucleotide Morpholino: Standard GeneTools N/A Morpholino: stat3 Yamashita et al.52 N/A Morpholino: grna mismatch Campbell et al.19 N/A Morpholino: jak2a Ma et al.65 N/A Morpholino: grna Campbell et al.19 N/A Cloning primer: GRN Table S1 N/A Cloning primer: grna-P2A Table S1 N/A Cloning primer: ca-stat3 Table S1 N/A Cloning primer: P2A Table S1 N/A Cloning primer: grna Table S1 N/A qPCFR: GRN Table S1 N/A qPCR primer: efa1 Table S1 N/A qPCR primer: grna Table S1 N/A qPCR primer: stat3 Table S1 N/A qPCR primer: stat3-BS1 Table S1 N/A qPCR primer: stat3-BS2 Table S1 N/A qPCR primer: stat3-BS3 Table S1 N/A qPCR primer: stat3-BS4 Table S1 N/A qPCR primer: stat3-BS5 Table S1 N/A qPCR primer: stat3-BS6 Table S1 N/A qPCR primer: tert Table S1 N/A Custom TaqMan SNP Genotyping Assay Thermo Fisher 4332075 Assay ID: ANGZY9Y (Continued on next page) 20 Cell Reports 45, 117477, June 23, 2026
Giemsa Stain:Article Title: Synergistic cooperation between progranulin and Jak2/Stat3 signaling determines definitive myeloid cell fate.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Reagents Fetal bovine serum Life technologies 26140-079 HEPES Glibco 15630080 Sodium pyruvate Glibco 11360070 Penecilin- Streptomyocin Glibco 15140122 Hygromycin B (50mg/mL) Roche 10843555001 RPMI 164 Glibco 11875085 Q5® High-Fidelity DNA Polymerase New England Biosciences M0491S Kpn1 New England Biosciences R3142S Nuclease-free water Fisher Scientific BP2484100 Phenol red solution Sigma P0290 NBT/BCIP solution Roche 11681451001 Pronase MilliporeSigma 11459643001 Liberase MilliporeSigma 5401127001 Dulbecco’s Phosphate Buffered Saline solution with Ca2+ and Mg2 MilliporeSigma D8662 30 μm nylon mesh Fisher Scientific NC9084441 21-gauge syringe Fisher Scientific BD 309624 SYTOXTM Red Life Technologies S34859 Chloroform Fisher Scientific C298-500 Trizol Fisher Scientific 15596026 Heparin VWR BT139975-1G Wright stain solution Fisher Scientific 5029782 Giemsa stain Sigma-Aldritch GS1L0-1L Cytoseal XYL Fisher Scientific 22050262 Pronase Sigma 11459643001 Tricaine Pentair T RS5 Paraformaldehyde Sigma-Aldrich 158127-500G Triton X-100 VWR 97063-864 Bovine serum albumin Sigma A3311-10G Lenti-X Concentrator Takara Bio 631231 & 631232 RNase A powder NeoBiotech NB-03-0163 DMEM/F-12 GlutaMAX Gibco A4192001 DAPI Life Science Technology 62248 TaqMan Fast Advanced Master Mix Thermo Fisher 4444556 TaqMa Fast Advanced Master Mix Thermo Fisher 4444556 Antibodies p-Stat3, Tyr708 MBL Life Science D128-3 Rabbit IgG(control negative) Cell Signaling 66362; RRID:AB_2924329 Anti-Digoxigenin-AP Fab fragments Roche 11093274910; RRID:AB_514497 Donkey anti-Rabbit Alexa Flour 594 Life Technologies A21207; RRID:AB_141637 Donkey anti-Mouse Alexa Flour 488 Life Technologies A21202; RRID:AB_141607 Goat Anti-Chicken Alexa Flour 488 Life Technologies A11039; RRID:AB_2534096 APC Mouse Anti-Human CD11b BD Pharmingen 550019; RRID:AB_398456 (Continued on next page) Cell Reports 45, 117477, June 23, 2026 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER PE Mouse Anti-Human CD14 BD Pharmingen 555398; RRID:AB_395799 PE/Cyanine7 anti-human CD16 Antibody Biolegend 302016; RRID:AB_314216 FITC anti-human CD45 Antibody Biolegend 304006; RRID:AB_314394 Pacific BlueTM anti-human CD235ab Antibody Biolegend 306612; RRID:AB_2116241 Pacific BlueTM anti-human CD45 Antibody Biolegend 304022; RRID:AB_493655 CD34 Monoclonal Antibody (4H11), PE-Cyanine7 Invitrogen 25-0349-42; RRID:AB_1963576 FITC Mouse Anti-Human CD61 BD Pharmingen 555753; RRID:AB_396094 PE Mouse Anti-Human CD71 BD Pharmingen 555537; RRID:AB_395921 Experimental Models Zebrafish: AB* ZIRC ZDB-GENO-960809-7 Zebrafish: grna54 Sholenberger et al.40 N/A Zebrafish: stat3sa15744 Kettelborough et al.103 ZDB-ALT-130411-4288 Zebrafish: Tg(gata1:dsRed) Traver et al.43 ZDB-TGCONSTRCT-070117-38 Zebrafish: Tg(mpeg1:eGFP) Ellet et al.42 ZDB-ALT-120117-1 Zebrafish: Tg(lmo2:eGFP) Zhu et al.48 ZDB-TGCONSTRCT-080122-3 Zebrafish: Tg(hsp70:gal4) Scheer et al.60 ZDB-TGCONSTRCT-070117-42 Zebrafish: fli1rstpl50GT Craig et al.50 ZDB-ALT-151120-2 Zebrafish: Tg(14xUAS:grna-P2A-mRFP1)is505 This paper N/A Zebrafish: Tg(14xUAS:stat3C-P2A-mRFP1)is506 This paper N/A Zebrafish: Tg(phldb1:gal4-mCherr) Distel et al.104 N/A Zebrafish: Tg(mpx:eGFP)i114 Renshaw et al.105 ZDB-TGCONSTRCT-070118-1 Zebrafish: Tg(mpeg1:Dendra2) Harvie et al.47 ZDB-TGCONSTRCT-150430-2 Cell line: K562 Cells ATCC CCL-243 Cell line: HEK293T cells ATCC CRL3216 Oligonucleotide Morpholino: Standard GeneTools N/A Morpholino: stat3 Yamashita et al.52 N/A Morpholino: grna mismatch Campbell et al.19 N/A Morpholino: jak2a Ma et al.65 N/A Morpholino: grna Campbell et al.19 N/A Cloning primer: GRN Table S1 N/A Cloning primer: grna-P2A Table S1 N/A Cloning primer: ca-stat3 Table S1 N/A Cloning primer: P2A Table S1 N/A Cloning primer: grna Table S1 N/A qPCFR: GRN Table S1 N/A qPCR primer: efa1 Table S1 N/A qPCR primer: grna Table S1 N/A qPCR primer: stat3 Table S1 N/A qPCR primer: stat3-BS1 Table S1 N/A qPCR primer: stat3-BS2 Table S1 N/A qPCR primer: stat3-BS3 Table S1 N/A qPCR primer: stat3-BS4 Table S1 N/A qPCR primer: stat3-BS5 Table S1 N/A qPCR primer: stat3-BS6 Table S1 N/A qPCR primer: tert Table S1 N/A Custom TaqMan SNP Genotyping Assay Thermo Fisher 4332075 Assay ID: ANGZY9Y (Continued on next page) 20 Cell Reports 45, 117477, June 23, 2026
Recombinant:Article Title: Impaired Complex I dysregulates neural/glial precursors and corpus callosum development revealing postnatal defects in Leigh syndrome mice.
Article Snippet: .. Reagents and tools table Reagent/resource Reference or source Identifier or catalog number Experimental models Mouse wild-type and homozygous for Ndufs4 from Ndufs4+ /− matings Jackson Laboratory B6.129S4Ndufs4tm1.1Rpa/ J Recombinant DNA N/A Antibodies Rabbit anti-Sox2 Millipore Sigma AB5603 Guinea pig anti-DCX Millipore Sigma AB2253MI Mouse anti-MASH1 BD Biosciences 556604 Rabbit anti-Nkx2.1 Fisher Scientific 7601MI Mouse anti-Olig2 EMD Millipore AB9610 Rat anti-PDGFRα BD Pharmigen 558774 Mouse anti-Ki67 BD Pharmigen 550609 Rabbit anti-myelin basic protein Cell Signaling Technology 78896 Oligonucleotides and other sequence-based reagents N/A Chemicals, enzymes, and other reagents HBSS without Ca2+ and Mg2+ Fisher Scientific SH3058801 Neural Tissue Dissociation Kit (P) Miltenyi Biotec 130-092-628 Beta-mercaptoethanol Fisher Scientific AC125472500 Bovine serum albumin Fisher Scientific AM2616 HBSS containing Ca2+ and Mg2+ Thermo Scientific 14025092 HEPES Fisher Scientific 15630080 Percoll Fisher Scientific 45001754 PIPseq T20 3’ Single Cell RNA Kit v4.0PLUS, 4 rxn PIPseq FBS-SCR-T20-4V4.05 RNase inhibitor Millipore Sigma 3335399001 DMEM/F12 Gibco SH3026101 N2 supplement Fisher Scientific 17502048 EGF R&D Systems 236-EG-200 FGF R&D Systems 233-FB-025/CF Accutase STEMCELL Technologies 07920 OCT media Tissue-Tek 25608-930 Tyramide Signal Amplification kit ThermoFisher Scientific B40932 Qubit 1× dsDNA High Sensitivity Assay Kit ThermoFisher Scientific Q33230 BioAnalyzer High Sensitivity DNA Kit Agilent 5067-4626 DAPI Fluoromount-G SouthernBiotech 0100-20 Software PIPseekerTM v3.3 PIPseq Reagent/resource Reference or source Identifier or catalog number STAR aligner https://github. com/alexdobin/ STAR Seurat (v1.4) Satija lab edgeR Bioconductor scCODA v0.1.9 Theis lab CellChat Nie lab Ingenuity Pathway Analysis Qiagen Other Ultra-low adherent 24-well culture plate Fisher Scientific NC1882826 Lead contacts and materials availability Further information and requests for resources and reagents should be directed to and will be fulfilled by Lead Contacts, Paul D. Morton, Ph.D. (pmorton@vt.edu) and Alicia M. Pickrell, Ph.D. (alicia.pickrell@vt.edu). .. Wild-type (WT) and heterozygous (Het) mice for the Ndufs4 gene (B6.129S4-Ndufs4tm1.1Rpa/J) were obtained from Jackson Laboratory.
Sequencing:Article Title: Impaired Complex I dysregulates neural/glial precursors and corpus callosum development revealing postnatal defects in Leigh syndrome mice.
Article Snippet: .. Reagents and tools table Reagent/resource Reference or source Identifier or catalog number Experimental models Mouse wild-type and homozygous for Ndufs4 from Ndufs4+ /− matings Jackson Laboratory B6.129S4Ndufs4tm1.1Rpa/ J Recombinant DNA N/A Antibodies Rabbit anti-Sox2 Millipore Sigma AB5603 Guinea pig anti-DCX Millipore Sigma AB2253MI Mouse anti-MASH1 BD Biosciences 556604 Rabbit anti-Nkx2.1 Fisher Scientific 7601MI Mouse anti-Olig2 EMD Millipore AB9610 Rat anti-PDGFRα BD Pharmigen 558774 Mouse anti-Ki67 BD Pharmigen 550609 Rabbit anti-myelin basic protein Cell Signaling Technology 78896 Oligonucleotides and other sequence-based reagents N/A Chemicals, enzymes, and other reagents HBSS without Ca2+ and Mg2+ Fisher Scientific SH3058801 Neural Tissue Dissociation Kit (P) Miltenyi Biotec 130-092-628 Beta-mercaptoethanol Fisher Scientific AC125472500 Bovine serum albumin Fisher Scientific AM2616 HBSS containing Ca2+ and Mg2+ Thermo Scientific 14025092 HEPES Fisher Scientific 15630080 Percoll Fisher Scientific 45001754 PIPseq T20 3’ Single Cell RNA Kit v4.0PLUS, 4 rxn PIPseq FBS-SCR-T20-4V4.05 RNase inhibitor Millipore Sigma 3335399001 DMEM/F12 Gibco SH3026101 N2 supplement Fisher Scientific 17502048 EGF R&D Systems 236-EG-200 FGF R&D Systems 233-FB-025/CF Accutase STEMCELL Technologies 07920 OCT media Tissue-Tek 25608-930 Tyramide Signal Amplification kit ThermoFisher Scientific B40932 Qubit 1× dsDNA High Sensitivity Assay Kit ThermoFisher Scientific Q33230 BioAnalyzer High Sensitivity DNA Kit Agilent 5067-4626 DAPI Fluoromount-G SouthernBiotech 0100-20 Software PIPseekerTM v3.3 PIPseq Reagent/resource Reference or source Identifier or catalog number STAR aligner https://github. com/alexdobin/ STAR Seurat (v1.4) Satija lab edgeR Bioconductor scCODA v0.1.9 Theis lab CellChat Nie lab Ingenuity Pathway Analysis Qiagen Other Ultra-low adherent 24-well culture plate Fisher Scientific NC1882826 Lead contacts and materials availability Further information and requests for resources and reagents should be directed to and will be fulfilled by Lead Contacts, Paul D. Morton, Ph.D. (pmorton@vt.edu) and Alicia M. Pickrell, Ph.D. (alicia.pickrell@vt.edu). .. Wild-type (WT) and heterozygous (Het) mice for the Ndufs4 gene (B6.129S4-Ndufs4tm1.1Rpa/J) were obtained from Jackson Laboratory.
Single Cell:Article Title: Impaired Complex I dysregulates neural/glial precursors and corpus callosum development revealing postnatal defects in Leigh syndrome mice.
Article Snippet: .. Reagents and tools table Reagent/resource Reference or source Identifier or catalog number Experimental models Mouse wild-type and homozygous for Ndufs4 from Ndufs4+ /− matings Jackson Laboratory B6.129S4Ndufs4tm1.1Rpa/ J Recombinant DNA N/A Antibodies Rabbit anti-Sox2 Millipore Sigma AB5603 Guinea pig anti-DCX Millipore Sigma AB2253MI Mouse anti-MASH1 BD Biosciences 556604 Rabbit anti-Nkx2.1 Fisher Scientific 7601MI Mouse anti-Olig2 EMD Millipore AB9610 Rat anti-PDGFRα BD Pharmigen 558774 Mouse anti-Ki67 BD Pharmigen 550609 Rabbit anti-myelin basic protein Cell Signaling Technology 78896 Oligonucleotides and other sequence-based reagents N/A Chemicals, enzymes, and other reagents HBSS without Ca2+ and Mg2+ Fisher Scientific SH3058801 Neural Tissue Dissociation Kit (P) Miltenyi Biotec 130-092-628 Beta-mercaptoethanol Fisher Scientific AC125472500 Bovine serum albumin Fisher Scientific AM2616 HBSS containing Ca2+ and Mg2+ Thermo Scientific 14025092 HEPES Fisher Scientific 15630080 Percoll Fisher Scientific 45001754 PIPseq T20 3’ Single Cell RNA Kit v4.0PLUS, 4 rxn PIPseq FBS-SCR-T20-4V4.05 RNase inhibitor Millipore Sigma 3335399001 DMEM/F12 Gibco SH3026101 N2 supplement Fisher Scientific 17502048 EGF R&D Systems 236-EG-200 FGF R&D Systems 233-FB-025/CF Accutase STEMCELL Technologies 07920 OCT media Tissue-Tek 25608-930 Tyramide Signal Amplification kit ThermoFisher Scientific B40932 Qubit 1× dsDNA High Sensitivity Assay Kit ThermoFisher Scientific Q33230 BioAnalyzer High Sensitivity DNA Kit Agilent 5067-4626 DAPI Fluoromount-G SouthernBiotech 0100-20 Software PIPseekerTM v3.3 PIPseq Reagent/resource Reference or source Identifier or catalog number STAR aligner https://github. com/alexdobin/ STAR Seurat (v1.4) Satija lab edgeR Bioconductor scCODA v0.1.9 Theis lab CellChat Nie lab Ingenuity Pathway Analysis Qiagen Other Ultra-low adherent 24-well culture plate Fisher Scientific NC1882826 Lead contacts and materials availability Further information and requests for resources and reagents should be directed to and will be fulfilled by Lead Contacts, Paul D. Morton, Ph.D. (pmorton@vt.edu) and Alicia M. Pickrell, Ph.D. (alicia.pickrell@vt.edu). .. Wild-type (WT) and heterozygous (Het) mice for the Ndufs4 gene (B6.129S4-Ndufs4tm1.1Rpa/J) were obtained from Jackson Laboratory.
Amplification:Article Title: Impaired Complex I dysregulates neural/glial precursors and corpus callosum development revealing postnatal defects in Leigh syndrome mice.
Article Snippet: .. Reagents and tools table Reagent/resource Reference or source Identifier or catalog number Experimental models Mouse wild-type and homozygous for Ndufs4 from Ndufs4+ /− matings Jackson Laboratory B6.129S4Ndufs4tm1.1Rpa/ J Recombinant DNA N/A Antibodies Rabbit anti-Sox2 Millipore Sigma AB5603 Guinea pig anti-DCX Millipore Sigma AB2253MI Mouse anti-MASH1 BD Biosciences 556604 Rabbit anti-Nkx2.1 Fisher Scientific 7601MI Mouse anti-Olig2 EMD Millipore AB9610 Rat anti-PDGFRα BD Pharmigen 558774 Mouse anti-Ki67 BD Pharmigen 550609 Rabbit anti-myelin basic protein Cell Signaling Technology 78896 Oligonucleotides and other sequence-based reagents N/A Chemicals, enzymes, and other reagents HBSS without Ca2+ and Mg2+ Fisher Scientific SH3058801 Neural Tissue Dissociation Kit (P) Miltenyi Biotec 130-092-628 Beta-mercaptoethanol Fisher Scientific AC125472500 Bovine serum albumin Fisher Scientific AM2616 HBSS containing Ca2+ and Mg2+ Thermo Scientific 14025092 HEPES Fisher Scientific 15630080 Percoll Fisher Scientific 45001754 PIPseq T20 3’ Single Cell RNA Kit v4.0PLUS, 4 rxn PIPseq FBS-SCR-T20-4V4.05 RNase inhibitor Millipore Sigma 3335399001 DMEM/F12 Gibco SH3026101 N2 supplement Fisher Scientific 17502048 EGF R&D Systems 236-EG-200 FGF R&D Systems 233-FB-025/CF Accutase STEMCELL Technologies 07920 OCT media Tissue-Tek 25608-930 Tyramide Signal Amplification kit ThermoFisher Scientific B40932 Qubit 1× dsDNA High Sensitivity Assay Kit ThermoFisher Scientific Q33230 BioAnalyzer High Sensitivity DNA Kit Agilent 5067-4626 DAPI Fluoromount-G SouthernBiotech 0100-20 Software PIPseekerTM v3.3 PIPseq Reagent/resource Reference or source Identifier or catalog number STAR aligner https://github. com/alexdobin/ STAR Seurat (v1.4) Satija lab edgeR Bioconductor scCODA v0.1.9 Theis lab CellChat Nie lab Ingenuity Pathway Analysis Qiagen Other Ultra-low adherent 24-well culture plate Fisher Scientific NC1882826 Lead contacts and materials availability Further information and requests for resources and reagents should be directed to and will be fulfilled by Lead Contacts, Paul D. Morton, Ph.D. (pmorton@vt.edu) and Alicia M. Pickrell, Ph.D. (alicia.pickrell@vt.edu). .. Wild-type (WT) and heterozygous (Het) mice for the Ndufs4 gene (B6.129S4-Ndufs4tm1.1Rpa/J) were obtained from Jackson Laboratory.
Sensitive Assay:Article Title: Impaired Complex I dysregulates neural/glial precursors and corpus callosum development revealing postnatal defects in Leigh syndrome mice.
Article Snippet: .. Reagents and tools table Reagent/resource Reference or source Identifier or catalog number Experimental models Mouse wild-type and homozygous for Ndufs4 from Ndufs4+ /− matings Jackson Laboratory B6.129S4Ndufs4tm1.1Rpa/ J Recombinant DNA N/A Antibodies Rabbit anti-Sox2 Millipore Sigma AB5603 Guinea pig anti-DCX Millipore Sigma AB2253MI Mouse anti-MASH1 BD Biosciences 556604 Rabbit anti-Nkx2.1 Fisher Scientific 7601MI Mouse anti-Olig2 EMD Millipore AB9610 Rat anti-PDGFRα BD Pharmigen 558774 Mouse anti-Ki67 BD Pharmigen 550609 Rabbit anti-myelin basic protein Cell Signaling Technology 78896 Oligonucleotides and other sequence-based reagents N/A Chemicals, enzymes, and other reagents HBSS without Ca2+ and Mg2+ Fisher Scientific SH3058801 Neural Tissue Dissociation Kit (P) Miltenyi Biotec 130-092-628 Beta-mercaptoethanol Fisher Scientific AC125472500 Bovine serum albumin Fisher Scientific AM2616 HBSS containing Ca2+ and Mg2+ Thermo Scientific 14025092 HEPES Fisher Scientific 15630080 Percoll Fisher Scientific 45001754 PIPseq T20 3’ Single Cell RNA Kit v4.0PLUS, 4 rxn PIPseq FBS-SCR-T20-4V4.05 RNase inhibitor Millipore Sigma 3335399001 DMEM/F12 Gibco SH3026101 N2 supplement Fisher Scientific 17502048 EGF R&D Systems 236-EG-200 FGF R&D Systems 233-FB-025/CF Accutase STEMCELL Technologies 07920 OCT media Tissue-Tek 25608-930 Tyramide Signal Amplification kit ThermoFisher Scientific B40932 Qubit 1× dsDNA High Sensitivity Assay Kit ThermoFisher Scientific Q33230 BioAnalyzer High Sensitivity DNA Kit Agilent 5067-4626 DAPI Fluoromount-G SouthernBiotech 0100-20 Software PIPseekerTM v3.3 PIPseq Reagent/resource Reference or source Identifier or catalog number STAR aligner https://github. com/alexdobin/ STAR Seurat (v1.4) Satija lab edgeR Bioconductor scCODA v0.1.9 Theis lab CellChat Nie lab Ingenuity Pathway Analysis Qiagen Other Ultra-low adherent 24-well culture plate Fisher Scientific NC1882826 Lead contacts and materials availability Further information and requests for resources and reagents should be directed to and will be fulfilled by Lead Contacts, Paul D. Morton, Ph.D. (pmorton@vt.edu) and Alicia M. Pickrell, Ph.D. (alicia.pickrell@vt.edu). .. Wild-type (WT) and heterozygous (Het) mice for the Ndufs4 gene (B6.129S4-Ndufs4tm1.1Rpa/J) were obtained from Jackson Laboratory.
Software:Article Title: Impaired Complex I dysregulates neural/glial precursors and corpus callosum development revealing postnatal defects in Leigh syndrome mice.
Article Snippet: .. Reagents and tools table Reagent/resource Reference or source Identifier or catalog number Experimental models Mouse wild-type and homozygous for Ndufs4 from Ndufs4+ /− matings Jackson Laboratory B6.129S4Ndufs4tm1.1Rpa/ J Recombinant DNA N/A Antibodies Rabbit anti-Sox2 Millipore Sigma AB5603 Guinea pig anti-DCX Millipore Sigma AB2253MI Mouse anti-MASH1 BD Biosciences 556604 Rabbit anti-Nkx2.1 Fisher Scientific 7601MI Mouse anti-Olig2 EMD Millipore AB9610 Rat anti-PDGFRα BD Pharmigen 558774 Mouse anti-Ki67 BD Pharmigen 550609 Rabbit anti-myelin basic protein Cell Signaling Technology 78896 Oligonucleotides and other sequence-based reagents N/A Chemicals, enzymes, and other reagents HBSS without Ca2+ and Mg2+ Fisher Scientific SH3058801 Neural Tissue Dissociation Kit (P) Miltenyi Biotec 130-092-628 Beta-mercaptoethanol Fisher Scientific AC125472500 Bovine serum albumin Fisher Scientific AM2616 HBSS containing Ca2+ and Mg2+ Thermo Scientific 14025092 HEPES Fisher Scientific 15630080 Percoll Fisher Scientific 45001754 PIPseq T20 3’ Single Cell RNA Kit v4.0PLUS, 4 rxn PIPseq FBS-SCR-T20-4V4.05 RNase inhibitor Millipore Sigma 3335399001 DMEM/F12 Gibco SH3026101 N2 supplement Fisher Scientific 17502048 EGF R&D Systems 236-EG-200 FGF R&D Systems 233-FB-025/CF Accutase STEMCELL Technologies 07920 OCT media Tissue-Tek 25608-930 Tyramide Signal Amplification kit ThermoFisher Scientific B40932 Qubit 1× dsDNA High Sensitivity Assay Kit ThermoFisher Scientific Q33230 BioAnalyzer High Sensitivity DNA Kit Agilent 5067-4626 DAPI Fluoromount-G SouthernBiotech 0100-20 Software PIPseekerTM v3.3 PIPseq Reagent/resource Reference or source Identifier or catalog number STAR aligner https://github. com/alexdobin/ STAR Seurat (v1.4) Satija lab edgeR Bioconductor scCODA v0.1.9 Theis lab CellChat Nie lab Ingenuity Pathway Analysis Qiagen Other Ultra-low adherent 24-well culture plate Fisher Scientific NC1882826 Lead contacts and materials availability Further information and requests for resources and reagents should be directed to and will be fulfilled by Lead Contacts, Paul D. Morton, Ph.D. (pmorton@vt.edu) and Alicia M. Pickrell, Ph.D. (alicia.pickrell@vt.edu). .. Wild-type (WT) and heterozygous (Het) mice for the Ndufs4 gene (B6.129S4-Ndufs4tm1.1Rpa/J) were obtained from Jackson Laboratory.
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