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Dec 2025
www.sciencedirect.com:5037 www.sciencedirect.com:5037

Protocol for the enhanced analysis of electrophysiological data from high-density multi-electrode arrays with nicespike and spikeNburst

1
1. scibot 04 Dec 2025
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.xpro.2025.104195
  
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sciencedirect.com:5037/science/article/pii/S266616672500601X
Sep 2025
pmc.ncbi.nlm.nih.gov pmc.ncbi.nlm.nih.gov

A direct interaction between the Chd1 CHCT domain and Rtf1 controls Chd1 distribution and nucleosome positioning on active genes

1
1. scibot 06 Sep 2025
  
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  RRID:CVCL_9108
  
  DOI: 10.1093/nar/gkaf816
  
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pmc.ncbi.nlm.nih.gov/articles/PMC12390759/
Aug 2025
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Integrator promotes the association of TFIID and RNA polymerase II to maintain pluripotency during development

1
1. scibot 08 Aug 2025
  
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  ATCCCRL-1821
  
  DOI: 10.1016/j.molcel.2025.07.006
  
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sciencedirect.com/science/article/pii/S1097276525006070
Jul 2025
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Enhancing transcriptome mapping with rapid PRO-seq profiling of nascent RNA

1
1. scibot 25 Jul 2025
  
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  ATCCCRL-1821
  
  DOI: 10.1016/j.molcel.2025.06.029
  
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sciencedirect.com/science/article/pii/S1097276525005799
May 2025
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Widespread impact of nucleosome remodelers on transcription at cis-regulatory elements

1
1. scibot 31 May 2025
  
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  RRID:CVCL9108
  
  DOI: 10.1016/j.celrep.2025.115767
  
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sciencedirect.com/science/article/pii/S2211124725005388
faseb.onlinelibrary.wiley.com faseb.onlinelibrary.wiley.com

Signaling Centers Drive Brachyury Dynamics and Lineage Commitment in mESC Aggregates

1
1. scibot 19 May 2025
  
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  RRID:CVCL_9108
  
  DOI: 10.1096/fba.2024-00216
  
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faseb.onlinelibrary.wiley.com/doi/10.1096/fba.2024-00216
Apr 2025
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Protocol to identify proteins as regulators of gene expression noise

1
1. scibot 15 Apr 2025
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.xpro.2025.103763
  
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sciencedirect.com/science/article/pii/S2666166725001698
Mar 2025
52.53.155.43 52.53.155.43

PDF-html.html

1
1. scibot 23 Mar 2025
  
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  CRL-1821
  
  DOI: 10.1101/2025.03.19.643339
  
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52.53.155.43/62d1ab468ae2105585e292a77643013ab01db943/PDF-html.html
Jan 2025
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Nucleosomal asymmetry shapes histone mark binding and promotes poising at bivalent domains

1
1. scibot 03 Jan 2025
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.molcel.2024.12.002
  
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sciencedirect.com/science/article/pii/S1097276524009973
Dec 2024
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ZNF143 is a transcriptional regulator of nuclear-encoded mitochondrial genes that acts independently of looping and CTCF

1
1. scibot 24 Dec 2024
  
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  ATCCCat. #CRL-1821
  
  DOI: 10.1016/j.molcel.2024.11.031
  
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sciencedirect.com/science/article/pii/S1097276524009560
www.nature.com www.nature.com

A single-cell mass cytometry-based atlas of the developing mouse brain

1
1. scibot 21 Dec 2024
  
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  CRL-1821
  
  DOI: 10.1038/s41593-024-01786-1
  
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nature.com/articles/s41593-024-01786-1
pmc.ncbi.nlm.nih.gov pmc.ncbi.nlm.nih.gov

A direct interaction between the Chd1 CHCT domain and Rtf1 controls Chd1 distribution and nucleosome positioning on active genes

1
1. scibot 13 Dec 2024
  
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  RRID:CVCL_9108
  
  DOI: 10.1101/2024.12.06.627179
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11643122/
pmc.ncbi.nlm.nih.gov pmc.ncbi.nlm.nih.gov

Optimized reporters for multiplexed detection of transcription factor activity

1
1. scibot 10 Dec 2024
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.cels.2024.11.003
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11667439/
Nov 2024
pmc.ncbi.nlm.nih.gov pmc.ncbi.nlm.nih.gov

Lactylation of Hdac1 regulated by Ldh prevents the pluripotent-to-2C state conversion

1
1. scibot 17 Nov 2024
  
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  RRID:CRL-1821
  
  DOI: 10.1186/s13287-024-04027-1
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11559218/
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A functional connection between the Microprocessor and a variant NEXT complex

1
1. scibot 11 Nov 2024
  
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  Cat# CRL-1821
  
  DOI: 10.1016/j.molcel.2024.10.015
  
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sciencedirect.com/science/article/pii/S1097276524008554
Aug 2024
www.sciencedirect.com www.sciencedirect.com

Members of an array of zinc-finger proteins specify distinct Hox chromatin boundaries

1
1. scibot 22 Aug 2024
  
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  CRL-1821
  
  DOI: 10.1016/j.molcel.2024.08.007
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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sciencedirect.com/science/article/pii/S1097276524006610
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Redox heterogeneity in mouse embryonic stem cells individualizes cell fate decisions

1
1. scibot 13 Aug 2024
  
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  CRL-1821
  
  DOI: 10.1016/j.devcel.2024.07.008
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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sciencedirect.com/science/article/pii/S1534580724004453
bio-protocol.org bio-protocol.org

Using BODIPY FL-Sphingolipid Analogs to Study Sphingolipid Metabolism in Mouse Embryonic Stem Cells

1
1. scibot 02 Aug 2024
  
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  RRID: CVCL_9108
  
  DOI: 10.21769\u002FBioProtoc.4555
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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bio-protocol.org/e4555
Jul 2024
www.biorxiv.org www.biorxiv.org

Multimodal screen reveals noise regulatory proteins

1
1. scibot 26 Jul 2024
  
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  RRID:CVCL_9108
  
  DOI: 10.1101/2024.07.17.603871
  
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biorxiv.org/content/10.1101/2024.07.17.603871v1
Jun 2024
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Inhibition of HDAC activity directly reprograms murine embryonic stem cells to trophoblast stem cells

1
1. scibot 04 Jun 2024
  
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  CRL-1821
  
  DOI: 10.1016/j.devcel.2024.05.009
  
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  Curator: @abever99
  
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  DOI:10.1016/j.devcel.2024.05.009 RRID:CVCL_9108
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DOI:10.1016/j.devcel.2024.05.009

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sciencedirect.com/science/article/pii/S1534580724003265
May 2024
www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov

Widespread impact of nucleosome remodelers on transcription at cis-regulatory elements

1
1. scibot 04 May 2024
  
  in Public
  
  RRID:CVCL_9108110
  
  DOI: 10.1101/2024.04.12.589208
  
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  RRIDCUR:Unresolved RRID:CVCL_9108
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ncbi.nlm.nih.gov/pmc/articles/PMC11042195/
Apr 2024
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Mannose controls mesoderm specification and symmetry breaking in mouse gastruloids

1
1. scibot 18 Apr 2024
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.devcel.2024.03.031
  
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sciencedirect.com/science/article/pii/S1534580724001989
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Enhancer switching in cell lineage priming is linked to eRNA, Brg1’s AT-hook, and SWI/SNF recruitment

1
1. scibot 09 Apr 2024
  
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  cat#CRL-1821
  
  DOI: 10.1016/j.molcel.2024.03.013
  
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sciencedirect.com/science/article/pii/S1097276524002235
Feb 2024
www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov

Modulation of neuronal activity in cortical organoids with bioelectronic delivery of ions and neurotransmitters

1
1. scibot 03 Feb 2024
  
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  ATCC CRL-1821
  
  DOI: 10.1016/j.crmeth.2023.100686
  
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ncbi.nlm.nih.gov/pmc/articles/PMC10831944/
Jan 2024
link.springer.com link.springer.com

Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet

1
1. scibot 11 Jan 2024
  
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  RRID:CVCL_9108
  
  DOI: 10.1186/s13059-023-03070-0
  
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link.springer.com/article/10.1186/s13059-023-03070-0
Dec 2023
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One-pot trimodal mapping of unmethylated, hydroxymethylated, and open chromatin sites unveils distinctive 5hmC roles at dynamic chromatin loci

1
1. scibot 29 Dec 2023
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.chembiol.2023.12.003
  
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sciencedirect.com/science/article/pii/S2451945623004336
Nov 2023
link.springer.com link.springer.com

BID-seq for transcriptome-wide quantitative sequencing of mRNA pseudouridine at base resolution

1
1. scibot 18 Nov 2023
  
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  RRID:CVCL_9108
  
  DOI: 10.1038/s41596-023-00917-5
  
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link.springer.com/article/10.1038/s41596-023-00917-5
Oct 2023
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Dual agonistic and antagonistic roles of ZC3H18 provide for co-activation of distinct nuclear RNA decay pathways

1
1. scibot 28 Oct 2023
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.celrep.2023.113325
  
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sciencedirect.com/science/article/pii/S2211124723013372
May 2023
www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov

High-throughput and high-accuracy single-cell RNA isoform analysis using PacBio circular consensus sequencing

1
1. scibot 09 May 2023
  
  in Public
  
  RRID:CVCL_9108
  
  DOI: 10.1038/s41467-023-38324-9
  
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ncbi.nlm.nih.gov/pmc/articles/PMC10164132/
Apr 2023
link.springer.com link.springer.com

The esBAF and ISWI nucleosome remodeling complexes influence occupancy of overlapping dinucleosomes and fragile nucleosomes in murine embryonic stem cells

1
1. scibot 18 Apr 2023
  
  in Public
  
  RRID:CVCL_9108
  
  DOI: 10.1186/s12864-023-09287-4
  
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link.springer.com/article/10.1186/s12864-023-09287-4
Dec 2022
www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov

Using BODIPY FL-Sphingolipid Analogs to Study Sphingolipid Metabolism in Mouse Embryonic Stem Cells

1
1. scibot 31 Dec 2022
  
  in Public
  
  CVCL_9108
  
  DOI: 10.21769/BioProtoc.4555
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
  Curator: @evieth
  
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ncbi.nlm.nih.gov/pmc/articles/PMC9724015/
link.springer.com link.springer.com

LINE-1 Retrotransposition Assays in Embryonic Stem Cells

1
1. scibot 06 Dec 2022
  
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  RRID:CVCL_9108
  
  DOI: 10.1007/978-1-0716-2883-6_13
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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link.springer.com/protocol/10.1007/978-1-0716-2883-6_13
Oct 2022
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A brain atlas of synapse protein lifetime across the mouse lifespan

1
1. scibot 06 Oct 2022
  
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  08021401
  
  DOI: 10.1016/j.neuron.2022.09.009
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
  Curator: @a5munoz
  
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sciencedirect.com/science/article/pii/S0896627322008145
www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov

Efficient and reversible Cas13d-mediated knockdown with an all-in-one lentivirus-vector

1
1. scibot 01 Oct 2022
  
  in Public
  
  RRID:CVCL_9108
  
  DOI: 10.3389/fbioe.2022.960192
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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ncbi.nlm.nih.gov/pmc/articles/PMC9521038/
Jul 2022
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An automated do-it-yourself system for dynamic stem cell and organoid culture in standard multi-well plates

1
1. scibot 02 Jul 2022
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.crmeth.2022.100244
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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sciencedirect.com/science/article/pii/S2667237522001138
Jun 2022
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A TRIM66/DAX1/Dux axis suppresses the totipotent 2-cell-like state in murine embryonic stem cells

1
1. scibot 03 Jun 2022
  
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  ATCCCat# CRL-1821
  
  DOI: 10.1016/j.stem.2022.05.004
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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Covariation of Pluripotency Markers and Biomechanical Properties in Mouse Embryonic Stem Cells

1
1. scibot 01 Jun 2022
  
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  RRID:CVCL_9108
  
  DOI: 10.3389/fcell.2022.858884
  
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Apr 2022
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Heterochromatic repeat clustering imposes a physical barrier on homologous recombination to prevent chromosomal translocations

1
1. scibot 21 Apr 2022
  
  in Public
  
  ATCCCRL-1821
  
  DOI: 10.1016/j.molcel.2022.03.033
  
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CTCF functions as an insulator for somatic genes and a chromatin remodeler for pluripotency genes during reprogramming

1
1. scibot 07 Apr 2022
  
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  ATCCCRL-1821
  
  DOI: 10.1016/j.celrep.2022.110626
  
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Chromatin modifier HUSH co-operates with RNA decay factor NEXT to restrict transposable element expression

1
1. scibot 01 Apr 2022
  
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  ATCCCat# CRL-1821
  
  DOI: 10.1016/j.molcel.2022.03.004
  
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KAS-seq: genome-wide sequencing of single-stranded DNA by N3-kethoxal–assisted labeling

1
1. scibot 15 Jan 2022
  
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  RRID:CVCL_9108
  
  DOI: 10.1038/s41596-021-00647-6
  
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CRISPR-Mediated Knockout of Long 3′ UTR mRNA Isoforms in mESC-Derived Neurons

1
1. scibot 05 Jan 2022
  
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  RRID:CVCL_9108
  
  DOI: 10.3389/fgene.2021.789434
  
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Molecular and functional architecture of striatal dopamine release sites

1
1. scibot 12 Nov 2021
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.neuron.2021.10.028
  
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Oct 2021
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Capture of the newly transcribed RNA interactome using click chemistry

1
1. scibot 29 Oct 2021
  
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  RRID:CVCL_9108
  
  DOI: 10.1038/s41596-021-00609-y
  
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Interactome analysis reveals endocytosis and membrane recycling of EpCAM during differentiation of embryonic stem cells and carcinoma cells

1
1. scibot 09 Oct 2021
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.isci.2021.103179
  
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Aug 2021
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Untitled document

1
1. scibot 11 Aug 2021
  
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  RRID:CVCL_9108
  
  DOI: 10.1016/j.stem.2017.09.004
  
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ncbi.nlm.nih.gov/pmc/articles/PMC5658514/
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A plate-based single-cell ATAC-seq workflow for fast and robust profiling of chromatin accessibility

1
1. scibot 03 Aug 2021
  
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  RRID:CVCL_9108
  
  DOI: 10.1038/s41596-021-00583-5
  
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nature.com/articles/s41596-021-00583-5
Jul 2021
elifesciences.org elifesciences.org

NEIL1 and NEIL2 DNA glycosylases protect neural crest development against mitochondrial oxidative stress

1
1. scibot 30 Jul 2021
  
  in Public
  
  E14TG2a
  
  DOI: 10.7554/eLife.49044
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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elifesciences.org/articles/49044
Jun 2021
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SIRT1 regulates sphingolipid metabolism and neural differentiation of mouse embryonic stem cells through c-Myc-SMPDL3B

1
1. scibot 26 Jun 2021
  
  in Public
  
  RRID:CVCL_9108
  
  DOI: 10.7554/eLife.67452
  
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Construction of a mammalian embryo model from stem cells organized by a morphogen signalling centre

1
1. scibot 05 Jun 2021
  
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  CRL-1821
  
  DOI: 10.1038/s41467-021-23653-4
  
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nature.com/articles/s41467-021-23653-4
May 2021
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Transcription factor chromatin profiling genome-wide using uliCUT&RUN in single cells and individual blastocysts

1
1. scibot 05 May 2021
  
  in Public
  
  RRID:CVCL_9108
  
  DOI: 10.1038/s41596-021-00516-2
  
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nature.com/articles/s41596-021-00516-2
Apr 2021
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Protocol for RNA-seq library preparation starting from a rare muscle stem cell population or a limited number of mouse embryonic stem cells

1
1. scibot 20 Apr 2021
  
  in Public
  
  CRL-1821
  
  DOI: 10.1016/j.xpro.2021.100451
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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sciencedirect.com/science/article/pii/S2666166721001581
Feb 2021
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Genomic innovation of ATD alleviates mistranslation associated with multicellularity in Animalia

1
1. scibot 25 Feb 2021
  
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  RRID:CVCL_9108
  
  DOI: 10.7554/eLife.58118
  
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ncbi.nlm.nih.gov/pmc/articles/PMC7302879/
Nov 2020
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Essentiality of CENP-A Depends on Its Binding Mode to HJURP

1
1. scibot 26 Nov 2020
  
  in Public
  
  RRID:CVCL_9108
  
  DOI: 10.1016/j.celrep.2020.108388
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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sciencedirect.com/science/article/pii/S2211124720313772
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Defining Essential Enhancers for Pluripotent Stem Cells Using a Features-Oriented CRISPR-Cas9 Screen

1
1. scibot 05 Nov 2020
  
  in Public
  
  ES-E14
  
  DOI: 10.1016/j.celrep.2020.108309
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
  Curator: @Naa003
  
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sciencedirect.com/science/article/pii/S2211124720312985
Oct 2020
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In Vitro Derivation of Quiescent Mouse Embryonic Stem Cells Based on Distinct Mitochondrial Activity

1
1. scibot 24 Oct 2020
  
  in Public
  
  E14tg2a
  
  DOI: 10.1016/j.xpro.2020.100136
  
  Resource: (ECACC Cat# 08021401, RRID:CVCL_9108)
  
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sciencedirect.com/science/article/pii/S2666166720301234
Sep 2020
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Distinct Processing of lncRNAs Contributes to Non-conserved Functions in Stem Cells

1
1. scibot 04 Sep 2020
  
  in Public
  
  E14
  
  DOI: 10.1016/j.cell.2020.03.006
  
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sciencedirect.com/science/article/pii/S0092867420302683
Nov 2018
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CRISPR Activation Screens Systematically Identify Factors that Drive Neuronal Fate and Reprogramming

1
1. scibot 05 Nov 2018
  
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  RRID:CVCL_9108
  
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Transcription Factors Drive Tet2-Mediated Enhancer Demethylation to Reprogram Cell Fate

1
1. scibot 05 Nov 2018
  
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  RRID:CVCL_9108
  
  Curator: @Jmenke
  
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Capturing the Onset of PRC2-Mediated Repressive Domain Formation

1
1. scibot 05 Nov 2018
  
  in Public
  
  CRL-1821
  
  Curator: @Jmenke
  
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  (BCRC Cat# 60206, RRID:CVCL_9108)
  
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Distinct Stimulatory Mechanisms Regulate the Catalytic Activity of Polycomb Repressive Complex 2

1
1. scibot 05 Nov 2018
  
  in Public
  
  CRL-1821
  
  Curator: @Jmenke
  
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  (BCRC Cat# 60206, RRID:CVCL_9108)
  
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sciencedirect.com/science/article/pii/S1097276518302223
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Distinct Cell-Cycle Control in Two Different States of Mouse Pluripotency

1
1. scibot 05 Nov 2018
  
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  RRID:CVCL_9108
  
  Curator: @evieth
  
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sciencedirect.com/science/article/pii/S1934590917303715
Nov 2017
elifesciences.org elifesciences.org

Mobilization of LINE-1 retrotransposons is restricted by Tex19.1 in mouse embryonic stem cells

1
1. scibot 08 Nov 2017
  
  in Public
  
  RRID:CVCL_9108
  
  Curator: @kaitlinsung
  
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elifesciences.org/articles/26152
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Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation

1
1. scibot 08 Nov 2017
  
  in Public
  
  CRL1821
  
  Curator: @Jmenke
  
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  (BCRC Cat# 60206, RRID:CVCL_9108)
  
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Delayed Accumulation of H3K27me3 on Nascent DNA Is Essential for Recruitment of Transcription Factors at Early Stages of Stem Cell Differentiation

1
1. scibot 08 Nov 2017
  
  in Public
  
  CVCL_9108
  
  Curator: @kaitlinsung
  
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sciencedirect.com/science/article/pii/S1097276517301739

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