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e7710  (New England Biolabs)


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    Structured Review

    New England Biolabs e7710
    E7710, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 96/100, based on 2183 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/e7710s/NEBNext+Multiplex+Oligos+for+Illumina/pmc12818770-675-27-30
    Average 96 stars, based on 2183 article reviews
    e7710 - by Bioz Stars, 2026-09
    96/100 stars

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    Related Articles

    Construct:

    Article Title: Improving prime editing with an endogenous small RNA-binding protein.
    Article Snippet: In both experiments, half of the cells from each nucleofection were collected 24 and 48 h after nucleofection, and total RNA was extracted using the mirVana miRNA Isolation kit with phenol (Invitrogen, AM1560) and was quantified using a NanoDrop One UV-Vis spectrophotometer (Thermo Scientific). .. For each sample, a small RNA library was constructed with 1 μg total RNA as the input using NEBNext Multiplex Small RNA Library Prep Set for Illumina (set 1) (New England Biolabs, E7300S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 3 (New England Biolabs, E7710S) and Set 4 (New England Biolabs, E7730S) according to the manufacturer’s protocol. .. Equivolume libraries of all samples were pooled, purified using SPRIselect (Beckman Coulter, B23318) with a double size selection (0.5× right side and 1.35× left side), quantified using a Qubit 1× dsDNA High Sensitivity kit (Invitrogen, Q33231) and a high-sensitivity DNA chip (Agilent Technologies, 5067-4626) on an Agilent 2100 Bioanalyzer, and sequenced using a NovaSeq 6000 SP Reagent kit v.1.5 100 cycles (Illumina, 20028401) with 40 cycles for the R1 read, 8 cycles for the i7 index read and 90 cycles for the R2 read.

    Article Title: Improving prime editing with an endogenous small RNA-binding protein
    Article Snippet: In both experiments, half of the cells from each nucleofection were collected 24 and 48 h after nucleofection, and total RNA was extracted using the mirVana miRNA Isolation kit with phenol (Invitrogen, AM1560) and was quantified using a NanoDrop One UV-Vis spectrophotometer (Thermo Scientific). .. For each sample, a small RNA library was constructed with 1 μg total RNA as the input using NEBNext Multiplex Small RNA Library Prep Set for Illumina (set 1) (New England Biolabs, E7300S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 3 (New England Biolabs, E7710S) and Set 4 (New England Biolabs, E7730S) according to the manufacturer’s protocol. .. Equivolume libraries of all samples were pooled, purified using SPRIselect (Beckman Coulter, B23318) with a double size selection (0.5× right side and 1.35× left side), quantified using a Qubit 1× dsDNA High Sensitivity kit (Invitrogen, Q33231) and a high-sensitivity DNA chip (Agilent Technologies, 5067-4626) on an Agilent 2100 Bioanalyzer, and sequenced using a NovaSeq 6000 SP Reagent kit v.1.5 100 cycles (Illumina, 20028401) with 40 cycles for the R1 read, 8 cycles for the i7 index read and 90 cycles for the R2 read.

    Multiplex Assay:

    Article Title: Improving prime editing with an endogenous small RNA-binding protein.
    Article Snippet: In both experiments, half of the cells from each nucleofection were collected 24 and 48 h after nucleofection, and total RNA was extracted using the mirVana miRNA Isolation kit with phenol (Invitrogen, AM1560) and was quantified using a NanoDrop One UV-Vis spectrophotometer (Thermo Scientific). .. For each sample, a small RNA library was constructed with 1 μg total RNA as the input using NEBNext Multiplex Small RNA Library Prep Set for Illumina (set 1) (New England Biolabs, E7300S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 3 (New England Biolabs, E7710S) and Set 4 (New England Biolabs, E7730S) according to the manufacturer’s protocol. .. Equivolume libraries of all samples were pooled, purified using SPRIselect (Beckman Coulter, B23318) with a double size selection (0.5× right side and 1.35× left side), quantified using a Qubit 1× dsDNA High Sensitivity kit (Invitrogen, Q33231) and a high-sensitivity DNA chip (Agilent Technologies, 5067-4626) on an Agilent 2100 Bioanalyzer, and sequenced using a NovaSeq 6000 SP Reagent kit v.1.5 100 cycles (Illumina, 20028401) with 40 cycles for the R1 read, 8 cycles for the i7 index read and 90 cycles for the R2 read.

    Article Title: The molecular basis of tRNA selectivity by human pseudouridine synthase 3
    Article Snippet: Poly(A)PuristTM MAG Kit , Thermo Fisher Scientific , Cat.#AM1922. .. NEBNext® Multiplex Oligos for Illumina , NEB , Cat.#E7335S, E7500S, E7710S, E7730. .. Universal RNA Purification Kit , EurX , Cat.# E3598.

    Article Title: Improving prime editing with an endogenous small RNA-binding protein
    Article Snippet: In both experiments, half of the cells from each nucleofection were collected 24 and 48 h after nucleofection, and total RNA was extracted using the mirVana miRNA Isolation kit with phenol (Invitrogen, AM1560) and was quantified using a NanoDrop One UV-Vis spectrophotometer (Thermo Scientific). .. For each sample, a small RNA library was constructed with 1 μg total RNA as the input using NEBNext Multiplex Small RNA Library Prep Set for Illumina (set 1) (New England Biolabs, E7300S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 3 (New England Biolabs, E7710S) and Set 4 (New England Biolabs, E7730S) according to the manufacturer’s protocol. .. Equivolume libraries of all samples were pooled, purified using SPRIselect (Beckman Coulter, B23318) with a double size selection (0.5× right side and 1.35× left side), quantified using a Qubit 1× dsDNA High Sensitivity kit (Invitrogen, Q33231) and a high-sensitivity DNA chip (Agilent Technologies, 5067-4626) on an Agilent 2100 Bioanalyzer, and sequenced using a NovaSeq 6000 SP Reagent kit v.1.5 100 cycles (Illumina, 20028401) with 40 cycles for the R1 read, 8 cycles for the i7 index read and 90 cycles for the R2 read.

    Article Title: Chromatin profiling and state predictions reveal insights into epigenetic regulation during early porcine development.
    Article Snippet: The purified CUT&RUN DNA was then quantified on a Qubit fluorometer (ThermoFisher) before proceeding to library preparation. .. Libraries were prepared using the NEBNext Ultra II DNA Library Prep Kit for Illumina (E7645S, New England Biolabs (NEB), Ipswich, MA, USA), NEBNext Multiplex Oligos for Illumina (Sets 1–4) (Set 1: E7335S, Set 2: E7500S, Set 3: E7710S, Set 4: E7730S, NEB), and Agencourt AMPure XP Beads (A63880, Beckman Coulter, Brea, CA). .. Libraries were quantified on a Qubit fluorometer and were evaluated for size on a TapeStation system (Agilent Technologies, Santa Clara, CA, USA).

    Article Title: Deciphering the molecular logic of WOX5 function in the root stem cell organizer
    Article Snippet: NEBNext® Multiplex Oligos for Illumina® (Index Primers Set 2) , NEB , E7500S. .. NEBNext® Multiplex Oligos for Illumina® (Index Primers Set 3) , NEB , E7710S. .. NEBNext® Multiplex Oligos for Illumina® (Index Primers Set 4) , NEB , E7730S.

    Article Title: The molecular basis of tRNA selectivity by human pseudouridine synthase 3.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies rabbit anti-PUS3 C-terminal domain Abcam Cat.#ab211270 mouse anti-GAPDH Sigma Aldrich Cat.#MAB374; RRID:AB_2107445 anti-FLAG M2 antibody Sigma Cat.#F3165; RRID:AB_259529 anti B1-lamin Invitrogen Cat.#10H34L18; RRID:AB_2784553 anti-GFP Abcam Cat.#ab290; RRID:AB_2313768 HRP-conjugated secondary antibody Cell Signaling; BD Pharmingen Cat.#7074S; Cat.#554002; RRID:AB_395198 Bacterial and virus strains E. coli DH10Bac strain Thermo Fisher Scientific Cat.#10361012 E. coli BL21 (DE3) CodonPlus-RIL strain Agilent Cat.#230245 Chemicals, peptides, and recombinant proteins HyClone SFM4 Insect cell culture media Cytiva Cat.# SH30913.02 reduced GSH BioShop Cat.# GTH001 PUS1 and PUS3 recombinant proteins This study N/A LB Broth BioShop Cat.# LBL405 Cy5-cytidine Jena Bioscience Cat.# NU-831-CY5 RNase-free DNase I Thermo Fisher Scientific Cat.# 89836 proteinase K Merck Cat.#P2308 DEAE weak anion exchange column Cytiva Cat.# 17505501 Superdex 75 Increase gel filtration column Cytiva Cat.#17-5174-01 GSTPrep column Cytiva Cat.# 17528201 HiLoad Superdex 200 pg preparative gel filtration column Cytiva Cat.#28989336 premium capillaries (MST) NanoTemper Technologies Cat.# MO-K025 glass capillary (DSF/DLS) NanoTemper Technologies Cat.# AN-041001 QUANTIFOIL R2/1 copper grids (200 mesH) Quantifoil Cat.#N1-C15nCu20 CMC Sigma-Aldrich Cat.#C106402 SuperScriptIII ThermoFisher Scientific Cat.#18080044 tracrRNA IDT Cat.#1075928 TrueCut Cas9 Protein v2 ThermoFisher Scientific Cat.#A36498 Lipofectamine CRISPRMAX Cas9 Transfection Reagent ThermoFisher Scientific Cat.#CMAX00001 TRIzol ThermoFisher Scientific Cat.#15596018 T4 PNK NEB Cat.#M0201L T4 RNA ligase NEB Cat.#M0373L AMV RT Promega Cat.#M5108 CircLigase ssDNA ligase II Epicentre Cat.#CL9025K cOmplete, EDTA-free Protease Inhibitor Cocktail Sigma-Aldrich Cat.#04693132001 PageRuler prestained protein ladder ThermoFisher Scientific Cat.# 26619 PVDF membranes (pore size 0.45 mmImmobilon-P or Immobilon-FL ThermoFisher Scientific Cat.# 88520 SuperSignal West Pico PLUS Chemiluminescent Substrate ThermoFisher Scientific Cat.#34577 M-MLV RT Promega Cat.#M1701 (Continued on next page) e1 Molecular Cell 84, 2472–2489.e1–e8, July 11, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER RT-HS-PCR-Mix-SYBR-A A&A Biotechnology Cat.# 2017-100HS NucleoBond AX100 column MACHEREY-NAGEL Cat.#740521 Lipofectamine 3000 ThermoFisher Scientific Cat.#L300000 Critical commercial assays MEGAclearTM Transcription Clean-Up Kit Thermo Fisher Scientific Cat.#AM1908 Poly(A)Purist MAG Kit Thermo Fisher Scientific Cat.#AM1922 NEBNext Multiplex Oligos for Illumina NEB Cat.#E7335S, E7500S, E7710S, E7730 Universal RNA Purification Kit EurX Cat.# E3598 Clean-Up RNA Concentrator kit A&A Biotechnology Cat.# 039-25C Deposited data Code used in this study Zenodo https://doi.org/10.5281/ zenodo.11401096 Deep-sequencing data generated in this study GEO database (https://www.ncbi. nlm.nih.gov/geo/) GSE255287 Original imaging data Mendeley Data https://doi.org/10.17632/ gdw8pr456d.2 Experimental models: Cell lines sf9 insect cell line Expression Systems Cat.# 94-001F Hi5 insect cell line ThermoFisher Scientific Cat.# B85502 Flp-In-T-REx-293 ATCC RRID:CVCL_U427 HEK293T ATCC Cat.# CRL-3216 Oligonucleotides PUS3_crRNA:50/AltR1/rUrCrUrGrCrUrCrArArGrUr ArCrArGrCrUrArGrUrGrUrUrUrUrArGrArGrCrUrAr UrGrCrU/AlrR2/30; IDT N/A PUS1_crRNA:50/AltR1/rArArUrArCrArGrCrCrUrGrAr CrCrGrGrArCrGrArGrUrUrUrUrArGrArGrCrUrArUrGr CrU/AltR2/-30. ..

    Article Title: DNA O-MAP uncovers the molecular neighborhoods associated with specific genomic loci
    Article Snippet: .. The purified DNA was used to generate next-generation sequencing libraries using the NEBNext Ultra II DNA Library Prep Kit for Illumina (NEB E7645S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 1 and 3 (NEB E7335S, E7710S) and PCR-amplified for 15 cycles. .. The sequencing libraries were quantified using the Qubit 4 fluorometer and library sizes were quantified using the D1000 ScreenTape assay (Agilent 5067-5582) on the TapeStation 4200 automated electrophoresis platform.

    Purification:

    Article Title: The molecular basis of tRNA selectivity by human pseudouridine synthase 3.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies rabbit anti-PUS3 C-terminal domain Abcam Cat.#ab211270 mouse anti-GAPDH Sigma Aldrich Cat.#MAB374; RRID:AB_2107445 anti-FLAG M2 antibody Sigma Cat.#F3165; RRID:AB_259529 anti B1-lamin Invitrogen Cat.#10H34L18; RRID:AB_2784553 anti-GFP Abcam Cat.#ab290; RRID:AB_2313768 HRP-conjugated secondary antibody Cell Signaling; BD Pharmingen Cat.#7074S; Cat.#554002; RRID:AB_395198 Bacterial and virus strains E. coli DH10Bac strain Thermo Fisher Scientific Cat.#10361012 E. coli BL21 (DE3) CodonPlus-RIL strain Agilent Cat.#230245 Chemicals, peptides, and recombinant proteins HyClone SFM4 Insect cell culture media Cytiva Cat.# SH30913.02 reduced GSH BioShop Cat.# GTH001 PUS1 and PUS3 recombinant proteins This study N/A LB Broth BioShop Cat.# LBL405 Cy5-cytidine Jena Bioscience Cat.# NU-831-CY5 RNase-free DNase I Thermo Fisher Scientific Cat.# 89836 proteinase K Merck Cat.#P2308 DEAE weak anion exchange column Cytiva Cat.# 17505501 Superdex 75 Increase gel filtration column Cytiva Cat.#17-5174-01 GSTPrep column Cytiva Cat.# 17528201 HiLoad Superdex 200 pg preparative gel filtration column Cytiva Cat.#28989336 premium capillaries (MST) NanoTemper Technologies Cat.# MO-K025 glass capillary (DSF/DLS) NanoTemper Technologies Cat.# AN-041001 QUANTIFOIL R2/1 copper grids (200 mesH) Quantifoil Cat.#N1-C15nCu20 CMC Sigma-Aldrich Cat.#C106402 SuperScriptIII ThermoFisher Scientific Cat.#18080044 tracrRNA IDT Cat.#1075928 TrueCut Cas9 Protein v2 ThermoFisher Scientific Cat.#A36498 Lipofectamine CRISPRMAX Cas9 Transfection Reagent ThermoFisher Scientific Cat.#CMAX00001 TRIzol ThermoFisher Scientific Cat.#15596018 T4 PNK NEB Cat.#M0201L T4 RNA ligase NEB Cat.#M0373L AMV RT Promega Cat.#M5108 CircLigase ssDNA ligase II Epicentre Cat.#CL9025K cOmplete, EDTA-free Protease Inhibitor Cocktail Sigma-Aldrich Cat.#04693132001 PageRuler prestained protein ladder ThermoFisher Scientific Cat.# 26619 PVDF membranes (pore size 0.45 mmImmobilon-P or Immobilon-FL ThermoFisher Scientific Cat.# 88520 SuperSignal West Pico PLUS Chemiluminescent Substrate ThermoFisher Scientific Cat.#34577 M-MLV RT Promega Cat.#M1701 (Continued on next page) e1 Molecular Cell 84, 2472–2489.e1–e8, July 11, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER RT-HS-PCR-Mix-SYBR-A A&A Biotechnology Cat.# 2017-100HS NucleoBond AX100 column MACHEREY-NAGEL Cat.#740521 Lipofectamine 3000 ThermoFisher Scientific Cat.#L300000 Critical commercial assays MEGAclearTM Transcription Clean-Up Kit Thermo Fisher Scientific Cat.#AM1908 Poly(A)Purist MAG Kit Thermo Fisher Scientific Cat.#AM1922 NEBNext Multiplex Oligos for Illumina NEB Cat.#E7335S, E7500S, E7710S, E7730 Universal RNA Purification Kit EurX Cat.# E3598 Clean-Up RNA Concentrator kit A&A Biotechnology Cat.# 039-25C Deposited data Code used in this study Zenodo https://doi.org/10.5281/ zenodo.11401096 Deep-sequencing data generated in this study GEO database (https://www.ncbi. nlm.nih.gov/geo/) GSE255287 Original imaging data Mendeley Data https://doi.org/10.17632/ gdw8pr456d.2 Experimental models: Cell lines sf9 insect cell line Expression Systems Cat.# 94-001F Hi5 insect cell line ThermoFisher Scientific Cat.# B85502 Flp-In-T-REx-293 ATCC RRID:CVCL_U427 HEK293T ATCC Cat.# CRL-3216 Oligonucleotides PUS3_crRNA:50/AltR1/rUrCrUrGrCrUrCrArArGrUr ArCrArGrCrUrArGrUrGrUrUrUrUrArGrArGrCrUrAr UrGrCrU/AlrR2/30; IDT N/A PUS1_crRNA:50/AltR1/rArArUrArCrArGrCrCrUrGrAr CrCrGrGrArCrGrArGrUrUrUrUrArGrArGrCrUrArUrGr CrU/AltR2/-30. ..

    Article Title: DNA O-MAP uncovers the molecular neighborhoods associated with specific genomic loci
    Article Snippet: .. The purified DNA was used to generate next-generation sequencing libraries using the NEBNext Ultra II DNA Library Prep Kit for Illumina (NEB E7645S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 1 and 3 (NEB E7335S, E7710S) and PCR-amplified for 15 cycles. .. The sequencing libraries were quantified using the Qubit 4 fluorometer and library sizes were quantified using the D1000 ScreenTape assay (Agilent 5067-5582) on the TapeStation 4200 automated electrophoresis platform.

    Generated:

    Article Title: The molecular basis of tRNA selectivity by human pseudouridine synthase 3.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies rabbit anti-PUS3 C-terminal domain Abcam Cat.#ab211270 mouse anti-GAPDH Sigma Aldrich Cat.#MAB374; RRID:AB_2107445 anti-FLAG M2 antibody Sigma Cat.#F3165; RRID:AB_259529 anti B1-lamin Invitrogen Cat.#10H34L18; RRID:AB_2784553 anti-GFP Abcam Cat.#ab290; RRID:AB_2313768 HRP-conjugated secondary antibody Cell Signaling; BD Pharmingen Cat.#7074S; Cat.#554002; RRID:AB_395198 Bacterial and virus strains E. coli DH10Bac strain Thermo Fisher Scientific Cat.#10361012 E. coli BL21 (DE3) CodonPlus-RIL strain Agilent Cat.#230245 Chemicals, peptides, and recombinant proteins HyClone SFM4 Insect cell culture media Cytiva Cat.# SH30913.02 reduced GSH BioShop Cat.# GTH001 PUS1 and PUS3 recombinant proteins This study N/A LB Broth BioShop Cat.# LBL405 Cy5-cytidine Jena Bioscience Cat.# NU-831-CY5 RNase-free DNase I Thermo Fisher Scientific Cat.# 89836 proteinase K Merck Cat.#P2308 DEAE weak anion exchange column Cytiva Cat.# 17505501 Superdex 75 Increase gel filtration column Cytiva Cat.#17-5174-01 GSTPrep column Cytiva Cat.# 17528201 HiLoad Superdex 200 pg preparative gel filtration column Cytiva Cat.#28989336 premium capillaries (MST) NanoTemper Technologies Cat.# MO-K025 glass capillary (DSF/DLS) NanoTemper Technologies Cat.# AN-041001 QUANTIFOIL R2/1 copper grids (200 mesH) Quantifoil Cat.#N1-C15nCu20 CMC Sigma-Aldrich Cat.#C106402 SuperScriptIII ThermoFisher Scientific Cat.#18080044 tracrRNA IDT Cat.#1075928 TrueCut Cas9 Protein v2 ThermoFisher Scientific Cat.#A36498 Lipofectamine CRISPRMAX Cas9 Transfection Reagent ThermoFisher Scientific Cat.#CMAX00001 TRIzol ThermoFisher Scientific Cat.#15596018 T4 PNK NEB Cat.#M0201L T4 RNA ligase NEB Cat.#M0373L AMV RT Promega Cat.#M5108 CircLigase ssDNA ligase II Epicentre Cat.#CL9025K cOmplete, EDTA-free Protease Inhibitor Cocktail Sigma-Aldrich Cat.#04693132001 PageRuler prestained protein ladder ThermoFisher Scientific Cat.# 26619 PVDF membranes (pore size 0.45 mmImmobilon-P or Immobilon-FL ThermoFisher Scientific Cat.# 88520 SuperSignal West Pico PLUS Chemiluminescent Substrate ThermoFisher Scientific Cat.#34577 M-MLV RT Promega Cat.#M1701 (Continued on next page) e1 Molecular Cell 84, 2472–2489.e1–e8, July 11, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER RT-HS-PCR-Mix-SYBR-A A&A Biotechnology Cat.# 2017-100HS NucleoBond AX100 column MACHEREY-NAGEL Cat.#740521 Lipofectamine 3000 ThermoFisher Scientific Cat.#L300000 Critical commercial assays MEGAclearTM Transcription Clean-Up Kit Thermo Fisher Scientific Cat.#AM1908 Poly(A)Purist MAG Kit Thermo Fisher Scientific Cat.#AM1922 NEBNext Multiplex Oligos for Illumina NEB Cat.#E7335S, E7500S, E7710S, E7730 Universal RNA Purification Kit EurX Cat.# E3598 Clean-Up RNA Concentrator kit A&A Biotechnology Cat.# 039-25C Deposited data Code used in this study Zenodo https://doi.org/10.5281/ zenodo.11401096 Deep-sequencing data generated in this study GEO database (https://www.ncbi. nlm.nih.gov/geo/) GSE255287 Original imaging data Mendeley Data https://doi.org/10.17632/ gdw8pr456d.2 Experimental models: Cell lines sf9 insect cell line Expression Systems Cat.# 94-001F Hi5 insect cell line ThermoFisher Scientific Cat.# B85502 Flp-In-T-REx-293 ATCC RRID:CVCL_U427 HEK293T ATCC Cat.# CRL-3216 Oligonucleotides PUS3_crRNA:50/AltR1/rUrCrUrGrCrUrCrArArGrUr ArCrArGrCrUrArGrUrGrUrUrUrUrArGrArGrCrUrAr UrGrCrU/AlrR2/30; IDT N/A PUS1_crRNA:50/AltR1/rArArUrArCrArGrCrCrUrGrAr CrCrGrGrArCrGrArGrUrUrUrUrArGrArGrCrUrArUrGr CrU/AltR2/-30. ..

    Imaging:

    Article Title: The molecular basis of tRNA selectivity by human pseudouridine synthase 3.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies rabbit anti-PUS3 C-terminal domain Abcam Cat.#ab211270 mouse anti-GAPDH Sigma Aldrich Cat.#MAB374; RRID:AB_2107445 anti-FLAG M2 antibody Sigma Cat.#F3165; RRID:AB_259529 anti B1-lamin Invitrogen Cat.#10H34L18; RRID:AB_2784553 anti-GFP Abcam Cat.#ab290; RRID:AB_2313768 HRP-conjugated secondary antibody Cell Signaling; BD Pharmingen Cat.#7074S; Cat.#554002; RRID:AB_395198 Bacterial and virus strains E. coli DH10Bac strain Thermo Fisher Scientific Cat.#10361012 E. coli BL21 (DE3) CodonPlus-RIL strain Agilent Cat.#230245 Chemicals, peptides, and recombinant proteins HyClone SFM4 Insect cell culture media Cytiva Cat.# SH30913.02 reduced GSH BioShop Cat.# GTH001 PUS1 and PUS3 recombinant proteins This study N/A LB Broth BioShop Cat.# LBL405 Cy5-cytidine Jena Bioscience Cat.# NU-831-CY5 RNase-free DNase I Thermo Fisher Scientific Cat.# 89836 proteinase K Merck Cat.#P2308 DEAE weak anion exchange column Cytiva Cat.# 17505501 Superdex 75 Increase gel filtration column Cytiva Cat.#17-5174-01 GSTPrep column Cytiva Cat.# 17528201 HiLoad Superdex 200 pg preparative gel filtration column Cytiva Cat.#28989336 premium capillaries (MST) NanoTemper Technologies Cat.# MO-K025 glass capillary (DSF/DLS) NanoTemper Technologies Cat.# AN-041001 QUANTIFOIL R2/1 copper grids (200 mesH) Quantifoil Cat.#N1-C15nCu20 CMC Sigma-Aldrich Cat.#C106402 SuperScriptIII ThermoFisher Scientific Cat.#18080044 tracrRNA IDT Cat.#1075928 TrueCut Cas9 Protein v2 ThermoFisher Scientific Cat.#A36498 Lipofectamine CRISPRMAX Cas9 Transfection Reagent ThermoFisher Scientific Cat.#CMAX00001 TRIzol ThermoFisher Scientific Cat.#15596018 T4 PNK NEB Cat.#M0201L T4 RNA ligase NEB Cat.#M0373L AMV RT Promega Cat.#M5108 CircLigase ssDNA ligase II Epicentre Cat.#CL9025K cOmplete, EDTA-free Protease Inhibitor Cocktail Sigma-Aldrich Cat.#04693132001 PageRuler prestained protein ladder ThermoFisher Scientific Cat.# 26619 PVDF membranes (pore size 0.45 mmImmobilon-P or Immobilon-FL ThermoFisher Scientific Cat.# 88520 SuperSignal West Pico PLUS Chemiluminescent Substrate ThermoFisher Scientific Cat.#34577 M-MLV RT Promega Cat.#M1701 (Continued on next page) e1 Molecular Cell 84, 2472–2489.e1–e8, July 11, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER RT-HS-PCR-Mix-SYBR-A A&A Biotechnology Cat.# 2017-100HS NucleoBond AX100 column MACHEREY-NAGEL Cat.#740521 Lipofectamine 3000 ThermoFisher Scientific Cat.#L300000 Critical commercial assays MEGAclearTM Transcription Clean-Up Kit Thermo Fisher Scientific Cat.#AM1908 Poly(A)Purist MAG Kit Thermo Fisher Scientific Cat.#AM1922 NEBNext Multiplex Oligos for Illumina NEB Cat.#E7335S, E7500S, E7710S, E7730 Universal RNA Purification Kit EurX Cat.# E3598 Clean-Up RNA Concentrator kit A&A Biotechnology Cat.# 039-25C Deposited data Code used in this study Zenodo https://doi.org/10.5281/ zenodo.11401096 Deep-sequencing data generated in this study GEO database (https://www.ncbi. nlm.nih.gov/geo/) GSE255287 Original imaging data Mendeley Data https://doi.org/10.17632/ gdw8pr456d.2 Experimental models: Cell lines sf9 insect cell line Expression Systems Cat.# 94-001F Hi5 insect cell line ThermoFisher Scientific Cat.# B85502 Flp-In-T-REx-293 ATCC RRID:CVCL_U427 HEK293T ATCC Cat.# CRL-3216 Oligonucleotides PUS3_crRNA:50/AltR1/rUrCrUrGrCrUrCrArArGrUr ArCrArGrCrUrArGrUrGrUrUrUrUrArGrArGrCrUrAr UrGrCrU/AlrR2/30; IDT N/A PUS1_crRNA:50/AltR1/rArArUrArCrArGrCrCrUrGrAr CrCrGrGrArCrGrArGrUrUrUrUrArGrArGrCrUrArUrGr CrU/AltR2/-30. ..

    Next-Generation Sequencing:

    Article Title: DNA O-MAP uncovers the molecular neighborhoods associated with specific genomic loci
    Article Snippet: .. The purified DNA was used to generate next-generation sequencing libraries using the NEBNext Ultra II DNA Library Prep Kit for Illumina (NEB E7645S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 1 and 3 (NEB E7335S, E7710S) and PCR-amplified for 15 cycles. .. The sequencing libraries were quantified using the Qubit 4 fluorometer and library sizes were quantified using the D1000 ScreenTape assay (Agilent 5067-5582) on the TapeStation 4200 automated electrophoresis platform.

    Polymerase Chain Reaction:

    Article Title: DNA O-MAP uncovers the molecular neighborhoods associated with specific genomic loci
    Article Snippet: .. The purified DNA was used to generate next-generation sequencing libraries using the NEBNext Ultra II DNA Library Prep Kit for Illumina (NEB E7645S) and NEBNext Multiplex Oligos for Illumina Index Primers Set 1 and 3 (NEB E7335S, E7710S) and PCR-amplified for 15 cycles. .. The sequencing libraries were quantified using the Qubit 4 fluorometer and library sizes were quantified using the D1000 ScreenTape assay (Agilent 5067-5582) on the TapeStation 4200 automated electrophoresis platform.



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    New England Biolabs index primers
    Index Primers, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/e7710s/NEBNext+Multiplex+Oligos+for+Illumina/pm39684809-281-17-30
    Average 94 stars, based on 1 article reviews
    index primers - by Bioz Stars, 2026-09
    94/100 stars
      Buy from Supplier

    94
    New England Biolabs e7710s
    Reagents and tools table
    E7710s, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/e7710s/NEBNext+Multiplex+Oligos+for+Illumina/pmc11696986-9-12-10
    Average 94 stars, based on 1 article reviews
    e7710s - by Bioz Stars, 2026-09
    94/100 stars
      Buy from Supplier

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    Reagents and tools table

    Journal: The EMBO Journal

    Article Title: Deciphering the molecular logic of WOX5 function in the root stem cell organizer

    doi: 10.1038/s44318-024-00302-2

    Figure Lengend Snippet: Reagents and tools table

    Article Snippet: NEBNext® Multiplex Oligos for Illumina® (Index Primers Set 3) , NEB , E7710S.

    Techniques: Sequencing, Multiplex Assay, Magnetic Beads, Protease Inhibitor, Software