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).

• Trem2 promotes anti-inflammatory responses in microglia and is suppressed under pro-inflammatory conditions.

  PMID 32959884 · PMC7689298 · Human molecular genetics · 2020 · 8 claims · 8 setups

  Has reproduction · 67

  Trem2 R47H knock-in mice show gene dose-dependent decreased Trem2 expression in hippocampus, largely due to altered splicing

  hippocampal microglia conditioned rt-qpcr immunohistochemistry glial

• Precise modulation of BRG1 levels reveals features of mSWI/SNF dosage sensitivity.

  PMID 40846763 · PMC12425804 · Nature genetics · 2025 · 8 claims · 8 setups

  Has reproduction · 75

  BRG1 binding to chromatin exhibits a linear, dose-dependent response to BRG1 protein levels, independent of TF or histone-modification co-occupancy

  brg1-fkbp12-f36v brg1-knock-in mes snf2h-fkbp12-f36v western cut&run atac-seq

• SOX2 phosphorylation during mitosis limits genomic damage.

  PMID 41213799 · PMC12863253 · Genes & development · 2026 · 8 claims · 8 setups

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  SOX2 (but not SOX9) remains dynamically bound to mitotic chromatin throughout all mitotic stages in neural stem cells

  sox2-halo nscs flag-wt-sox2 live-cell immunocytochemistry frap

• Cross-species comparative hippocampal transcriptomics in Alzheimer's disease.

  PMID 38292167 · PMC10824791 · iScience · 2024 · 8 claims · 8 setups

  Has reproduction · 75

  The three mouse models (5xFAD, APP/PS1, hAβ-KI) share more DEGs and GOBP terms with LOAD than with EOAD patients

  hippocampus postmortem computational bulk publicly qrt-pcr

• From linear genome sequence to three-dimensional organization of the cell nucleus.

  PMID 12620101 · PMC153456 · Genome biology · 2003 · 8 claims · 8 setups

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  Chromosome conformation capture (3C) can quantify in vivo physical interaction frequencies between genomic loci by crosslinking, digestion, and intramolecular ligation followed by PCR

  saccharomyces mitotic nucleoplasm hela chromosome translocation stretched

• Variants in LRRC7 lead to intellectual disability, autism, aggression and abnormal eating behaviors.

  PMID 39256359 · PMC11387733 · Nature communications · 2024 · 8 claims · 7 setups

  Has reproduction · 87

  Heterozygous missense or loss-of-function variants in LRRC7 cause a dominant neurodevelopmental disorder in 33 identified individuals

  genomes genematcher affected 293t genetic exome phenotype

• 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

• An Erg-driven transcriptional program controls B cell lymphopoiesis.

  PMID 32541654 · PMC7296042 · Nature communications · 2020 · 7 claims · 8 setups

  Has reproduction · 81

  Erg is essential for early B lymphoid differentiation

  erg b220+ prob wild-type lacz rna-seq flow

• CHD7 regulates otic lineage specification and hair cell differentiation in human inner ear organoids.

  PMID 36396635 · PMC9672366 · Nature communications · 2022 · 8 claims · 8 setups

  Has reproduction · 50

  Loss of CHD7 or its ATP-dependent chromatin remodeling activity causes complete absence of hair cells and supporting cells in inner ear organoids

  inner facs-isolated hescs hesc immunostaining scrna-seq western

• Covalent binding of thioredoxin to TXNIP is required for diet-induced insulin resistance in the liver.

  PMID 40345590 · PMC12180993 · The Journal of biological chemistry · 2025 · 8 claims · 9 setups

  Has reproduction · 87

  TXNIP Cysteine 247 is required for high-fat diet-induced hepatic and whole-body insulin resistance in mice

  txnip plasma 8-week liver insulin lipidomics hyperinsulinemic-euglycemic

• Defective splicing, disease and therapy: searching for master checkpoints in exon definition.

  PMID 16855287 · PMC1524908 · Nucleic acids research · 2006 · 8 claims · 8 setups

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  Splicing-affecting genomic variations can account for up to 50% of mutations leading to gene dysfunction in some genes

  random trans-acting tpo fibronectin minigene selex cdna

• KCNQ4 mutations associated with nonsyndromic progressive sensorineural hearing loss.

  PMID 18797286 · PMC2743278 · Current opinion in otolaryngology & head and neck surgery · 2008 · 8 claims · 8 setups

  Full-text index only

  KCNQ4 mutations at the DFNA2 locus on chromosome 1p34 cause autosomal dominant nonsyndromic progressive sensorineural hearing loss

  seven-generation dfna2 xenopus kcnq4 linkage mutation heterologous

• Cycloheximide-resistant ribosomes reveal adaptive translation dynamics in C. elegans.

  PMID 40929375 · PMC12477835 · Genetics · 2026 · 8 claims · 8 setups

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  A P55Q substitution in ribosomal protein RPL-36A confers strong resistance to cycloheximide in C. elegans

  elegans crispr-cas9 larval rna-seq

• Phosphorylation of SF3B1 by CDK11 orchestrates spliceosome activation via SNIP1-dependent RES complex recruitment.

  PMID 41904131 · PMC13194972 · Nature communications · 2026 · 8 claims · 7 setups

  Full-text index only

  CDK11 inhibitor OTS964 traps the spliceosome in a previously uncharacterized intermediate (B_OTS964) that has the NTR complex integrated but the NTC complex not yet associated.

  hct116 gst-sf3b1 ip-mass subcellular iclip-seq

• Af-CUT&Tag: a sensitive and antibody-free chromatin profiling method using genetically encoded tags and high-affinity binders fused to Tn5.

  PMID 41547832 · PMC12914055 · Nature communications · 2026 · 8 claims · 8 setups

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  Af-CUT&Tag eliminates dependence on conventional target antibodies by using CRISPR-integrated HiBiT/ALFA-tags recognized by LgBiT/NbALFA-Tn5 fusion proteins

  recombinant sw480 lysates genomic bio-layer chemiluminescent co-immunoprecipitation

• Small molecule inhibition rescues the skeletal dysplasia phenotype of Trpv4 mutant mice.

  PMID 41574606 · PMC12892883 · JCI insight · 2026 · 8 claims · 8 setups

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  Chondrocyte-specific (Col2a1-Cre-driven) expression of the p.R594H Trpv4 mutation reproduces the human TRPV4 skeletal dysplasia phenotype in mice, including short stature, long bone and craniofacial abnormalities, and vertebral defects.

  col2a1-cre proximal growth cervical radiography histology rnascope

• Stem cell-associated osteogenic deficiency causes craniofacial deformities with progeroid accumulation of prelamin A.

  PMID 41632539 · PMC13041684 · JCI insight · 2026 · 8 claims · 8 setups

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  Lmna L648R mutation causes multiple suture craniosynostosis (AF, PF, COR) occurring under low bone density, contrasting with conventional synostosis caused by excessive ossification

  skull calvarial suture p7-p10 micro-ct h&e brdu

• Integrating natural and engineered genetic variations to decode regulatory influence on blood traits.

  PMID 41637188 · PMC12932927 · Cell reports · 2026 · 8 claims · 8 setups

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  Combined MPRA enhancer assays, RNA-seq (DE/ATU) analysis, and CRISPR-Cas9 engineering to dissect the function of 94 rare non-coding variants (RNVs) associated with blood traits

  k-562 chrf-288-11 hl-60 thp-1 massively bulk crispr-cas9

• Aberrant mRNA splicing and impaired hippocampal neurogenesis in Grin2b mutant mice.

  PMID 41675057 · PMC12886552 · iScience · 2026 · 8 claims · 6 setups

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  Grin2b+/C456Y mice show large-scale, age-dependent brain transcriptomic changes, peaking at 4 weeks postnatally

  brain hippocampus neuronal bulk trade gene

• Synaptic dysfunction and oxidative stress in Alzheimer's disease: emerging mechanisms.

  PMID 16989739 · PMC3933161 · Journal of cellular and molecular medicine · 2006 · 6 claims · 8 setups

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  Mutations in APP, PS1 and PS2 genes and polymorphisms in the APOE gene are implicated in AD pathogenesis

  alzheimer brain alzheimer's presenilin-1 microarray proteomic transgenic