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).

• Identifying human pre-mRNA cleavage and polyadenylation factors by genome-wide CRISPR screens using a dual fluorescence readthrough reporter.

  PMID 38587191 · PMC11077057 · Nucleic acids research · 2024 · 6 claims · 8 setups

  Has reproduction · 68

  A dual fluorescence (GFP-mCherry) readthrough reporter with a PAS inserted between the two reporters enables measurement of 3' end processing efficiency in living cells.

  hek293 coli dual genome-wide western

• Genome-wide kinetic properties of transcriptional bursting in mouse embryonic stem cells.

  PMID 32596448 · PMC7299619 · Science advances · 2020 · 8 claims · 8 setups

  Has reproduction · 57

  Transcriptional bursting kinetics is regulated by a combination of promoter- and gene body-binding proteins, including the polycomb repressive complex 2 (PRC2) and transcription elongation factors

  cast knock-in mesc mescs single-cell single-molecule flow

• FRMD8 inhibits tumor metastasis in BRCA1-associated TNBC by negatively regulating tmTNF-α.

  PMID 40619383 · PMC12229025 · Cellular & molecular biology letters · 2025 · 8 claims · 8 setups

  Has reproduction · 73

  Low FRMD8 expression in BRCA1-mutant breast cancer cells significantly enhances metastatic potential to various organs

  tnbc geo breast frmd8 bulk meta-analysis single-cell

• CRISPR/Cas9 Screens Reveal Multiple Layers of B cell CD40 Regulation.

  PMID 31365872 · PMC6684324 · Cell reports · 2019 · 8 claims · 8 setups

  Has reproduction

  Genome-wide CRISPR/Cas9 screening in Daudi B cells using CD40L-induced Fas upregulation as a readout identifies both positive and negative regulators of CD40

  daudi splenic genome-wide immunoblot qpcr

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

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

  Full-text index only

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

  786o ccrcc tcga genome-wide competitive immunoblot

• MASTR-seq enables multiplexed analysis of short tandem repeats with sequencing.

  PMID 41850290 · PMC13030959 · Cell reports methods · 2026 · 8 claims · 5 setups

  Full-text index only

  MASTR-seq couples Cas9-mediated target enrichment, fragment size selection, and PCR-free multiplexed barcoding to increase on-target read proportion and enable pooling of 8-12 samples per Nanopore MinION flow cell

  patient-derived fmr1 hipsc cas9 cas9-mediated pcr hmw

• Defactinib inhibits PYK2 phosphorylation of IRF5 and reduces intestinal inflammation.

  PMID 34795257 · PMC8602323 · Nature communications · 2021 · 8 claims · 12 setups

  Has reproduction · 67

  PYK2 was identified as a putative IRF5 kinase via a kinase inhibitor library screen in macrophages

  raw264.7 hektlr4 hoxb8-derived colon kinase co-immunoprecipitation co-ip

• Systematic elucidation of genetic mechanisms underlying cholesterol uptake.

  PMID 37228746 · PMC10203276 · Cell genomics · 2023 · 8 claims · 8 setups

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  Genome-scale CRISPR-Cas9 knockout screening in HepG2 cells identifies 490 genes whose disruption alters LDL-C uptake

  hepg2 depmap flow genome-scale individual

• CRISPR screens in the context of immune selection identify CHD1 and MAP3K7 as mediators of cancer immunotherapy resistance.

  PMID 41564866 · PMC12866162 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  CHD1 and MAP3K7 loss additively sensitizes cancer cells to IFN-γ-induced death

  a375 crc-9 ht-29 vcap whole-genome autologous incucyte

• CRISPR-based functional genomics for dissecting therapeutic dependency in primary acute myeloid leukemia samples.

  PMID 41759529 · PMC13036604 · Molecular cell · 2026 · 8 claims · 8 setups

  Full-text index only

  An optimized dual-lentiviral CRISPR-Cas9 knockout system with fluorescent markers, SFFV promoter, and improved sgRNA backbone (LRG2.1) achieves efficient, low-toxicity gene editing in AML PDX and primary patient samples

  aml pdx#2263 molm-13 pdx#062614 crispr pooled domain-focused

• Spatial perturb-seq: single-cell functional genomics within intact tissue architecture.

  PMID 41723140 · PMC13035813 · Nature communications · 2026 · 8 claims · 8 setups

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  Spatial Perturb-Seq simultaneously measures whole transcriptome (cell type), CRISPR barcodes (perturbation), spatial coordinates, and cell-cell interactions through a single Stereo-seq and/or Xenium run.

  hippocampus bone brain aav-transduced scrna-seq snrna-seq spatial

• Single-cell exon deletion profiling reveals splicing events that shape gene expression and cell state dynamics.

  PMID 41633991 · PMC12868714 · Nature communications · 2026 · 8 claims · 5 setups

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  scCHyMErA-Seq enables simultaneous single-cell capture of Cas9 and Cas12a guide RNAs together with polyadenylated transcripts, integrating exon-deletion CRISPR screening with 10x Genomics scRNA-seq

  hap1 nrf1 flow northern droplet-based

• ZAP targets aberrant mRNA transcripts encoding proteins with defective signal peptides for degradation.

  PMID 41820617 · PMC13084044 · The EMBO journal · 2026 · 8 claims · 7 setups

  Has reproduction · 50

  ZAP (ZC3HAV1/PARP13) is a key component of the RAPP quality control pathway

  k562 zap-s rt-qpcr western immunofluorescence

• Single-Cell Lineage Tracing Uncovers Resistance Signatures and Sensitizing Strategies to FLT3 Inhibitors in Acute Myeloid Leukemia.

  PMID 41270153 · PMC7618455 · Cancer research · 2026 · 8 claims · 8 setups

  Full-text index only

  ReSisTrace single-cell lineage tracing identifies pre-resistant and pre-sensitive cell states to FLT3 inhibitors midostaurin and quizartinib in FLT3-ITD-positive MOLM-13 AML cells before treatment

  molm-13 aml-pdx1 single-cell lineage gene