Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

Publications 1.3k Datasets 392.5k Experiments 15

System / cell line: genome-wide ✕ Assay: shrna ✕ Clear

Identification of new ETV6 modulators through a high-throughput functional screening.

PMID 35198911 · PMC8851229 · iScience · 2022 · 7 claims · 8 setups

Has reproduction · 68

A genome-wide shRNA screen in an engineered ETV6-dependent Blasticidin-sensitive pre-B ALL cell line can identify modulators of ETV6 repressive transcriptional activity

reh genome-wide qrt-pcr chip-seq
Systems biology: where it's at in 2005.

PMID 16086862 · PMC1273629 · Genome biology · 2005 · 8 claims · 8 setups

Full-text index only

High-throughput genetic-interaction and physical-interaction maps show only minimal overlap with each other, whereas literature-derived genetic and physical interaction maps share a much greater fraction of edges

saccharomyces drosophila environmental literature systematic genome-wide
Lamin C is required to establish genome organization after mitosis.

PMID 34775987 · PMC8591896 · Genome biology · 2021 · 8 claims · 6 setups

Has reproduction · 76

Lamin C, not lamin A, is required for 3D organization of LADs and overall chromosome territory organization

embryonic mefs mef damid-seq 3d-immunofish western
Enhancer Reprogramming Confers Dependence on Glycolysis and IGF Signaling in KMT2D Mutant Melanoma.

PMID 33086062 · PMC7649750 · Cell reports · 2020 · 8 claims · 8 setups

Has reproduction · 59

KMT2D is a potent tumor suppressor in melanoma

hmel-brafv600e tyr-creert2 tma kmt2d pooled xenograft genetically
A ChIP-exo screen of 887 Protein Capture Reagents Program transcription factor antibodies in human cells.

PMID 34426512 · PMC8415381 · Genome research · 2021 · 8 claims · 8 setups

Has reproduction · 57

About 5% of tested PCRP antibodies showed high-confidence cognate-target enrichment in at least one assay and are strong candidates for further validation.

k562 hct116 subset chip-exo chip-seq western
Genome-wide analysis of MEF2 transcriptional program reveals synaptic target genes and neuronal activity-dependent polyadenylation site selection.

PMID 19109909 · PMC2630178 · Neuron · 2008 · 8 claims · 8 setups

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MEF2 directly regulates a genome-wide program of 182 activity-dependent target genes in hippocampal neurons

e18 hippocampal forebrain profiling rt-qpcr chip-chip
VHL synthetic lethality screens uncover CBF-β as a negative regulator of STING.

PMID 41820368 · PMC13121600 · Nature communications · 2026 · 8 claims · 8 setups

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CBFB (CBF-β) is a synthetic lethal interactor of VHL in ccRCC cell lines

786o ccrcc tcga genome-wide competitive immunoblot
Endogenous retroviral elements LTR8B and MER65 rewire PSG9 regulation to control trophoblast syncytialization and pre-eclampsia risk.

PMID 41796334 · PMC12969887 · Genome biology · 2026 · 8 claims · 8 setups

Has reproduction · 68

LTR8B is a placentally-relevant cis-regulatory element (CRE), notably within the PSG array

sghpl-4 bewo recombinant serum chip-exonuclease transient quantitative
GenomeRNAi: a database for cell-based RNAi phenotypes. 2009 update.

PMID 19910367 · PMC2808900 · Nucleic acids research · 2010 · 7 claims · 7 setups

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GenomeRNAi is a database integrating RNAi phenotypes, reagents, and gene annotations from cell-based screens in Drosophila and human cells

drosophila hela genome-scale image-based rna-seq
ZFHX4 is necessary for dopaminergic neuron differentiation and controls cell cycle by regulating LIN28A.

PMID 42208531 · PMC13261933 · Stem cell reports · 2026 · 8 claims · 8 setups

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ZFHX4 is a super-enhancer-controlled transcription factor induced during mDAN specification

ipsc-derived smnpcs postmortem cut&tag bulk shrna
Next-generation sequencing.

PMID 20030863 · PMC2797692 · Breast cancer research : BCR · 2009 · 8 claims · 7 setups

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Massively parallel sequencing can simultaneously capture base-pair mutations, copy number aberrations and somatic rearrangements of a cancer genome in a single experiment

individuals metastatic acute oestrogen whole-exome whole-genome large-scale
A physical and regulatory map of host-influenza interactions reveals pathways in H1N1 infection.

PMID 20064372 · PMC2892837 · Cell · 2009 · 8 claims · 8 setups

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A systematic yeast two-hybrid screen identified physical interactions between the 10 major PR8 influenza viral proteins and human proteins, implicating 87 human 'H1' proteins.

orfeome udorn bronchial hbecs yeast genome-wide sirna
Analysis of the Hypoxic Response in a Mouse Cortical Collecting Duct-Derived Cell Line Suggests That Esrra Is Partially Involved in Hif1α-Mediated Hypoxia-Inducible Gene Expression in mCCD(cl1) Cells.

PMID 35806266 · PMC9267015 · International journal of molecular sciences · 2022 · 8 claims · 7 setups

Has reproduction · 76

mCCD cl1 cells mount a broad transcriptional response to 24 h hypoxia (0.2% O2), with 3086 genes differentially expressed

mccd lines bulk rt-qpcr western
Multi-omics analyses identify mannose phosphate isomerase-centered hypoxia-induced angiogenesis signature in colorectal cancer.

PMID 41204349 · PMC12595641 · Journal of translational medicine · 2025 · 8 claims · 8 setups

Has reproduction · 61

Twelve HIA-related genes were identified that are transcriptionally activated by HIF1A/HIF2A and functionally implicated in angiogenesis in CRC

hct116 crc tumor chip-seq bulk single
Stress Responsive bZIP Transcription Factors ATF4 and BACH1 Cooperate With MAF-Family bZIP Protein NRL to Fine-Tune Rod Photoreceptor Gene Expression.

PMID 42246540 · PMC13249099 · Investigative ophthalmology & visual science · 2026 · 8 claims · 7 setups

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ATF4 and BACH1 are identified as bZIP protein interactors of NRL

y2hgold hek293 p28 flow-sorted yeast co-immunoprecipitation immunofluorescence

Experiments

Identification of new ETV6 modulators through a high-throughput functional screening.

Systems biology: where it's at in 2005.

Lamin C is required to establish genome organization after mitosis.

Enhancer Reprogramming Confers Dependence on Glycolysis and IGF Signaling in KMT2D Mutant Melanoma.

A ChIP-exo screen of 887 Protein Capture Reagents Program transcription factor antibodies in human cells.

Genome-wide analysis of MEF2 transcriptional program reveals synaptic target genes and neuronal activity-dependent polyadenylation site selection.

VHL synthetic lethality screens uncover CBF-β as a negative regulator of STING.

Endogenous retroviral elements LTR8B and MER65 rewire PSG9 regulation to control trophoblast syncytialization and pre-eclampsia risk.

GenomeRNAi: a database for cell-based RNAi phenotypes. 2009 update.

ZFHX4 is necessary for dopaminergic neuron differentiation and controls cell cycle by regulating LIN28A.

Next-generation sequencing.

A physical and regulatory map of host-influenza interactions reveals pathways in H1N1 infection.

Analysis of the Hypoxic Response in a Mouse Cortical Collecting Duct-Derived Cell Line Suggests That Esrra Is Partially Involved in Hif1α-Mediated Hypoxia-Inducible Gene Expression in mCCD(cl1) Cells.

Multi-omics analyses identify mannose phosphate isomerase-centered hypoxia-induced angiogenesis signature in colorectal cancer.

Stress Responsive bZIP Transcription Factors ATF4 and BACH1 Cooperate With MAF-Family bZIP Protein NRL to Fine-Tune Rod Photoreceptor Gene Expression.