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).

• OCT4 enhances the firing efficiency of late DNA replication origins in mouse embryonic stem cells.

  PMID 41540072 · PMC12910074 · Nature communications · 2026 · 8 claims · 8 setups

  Full-text index only

  In mESCs, a subset of initiation zones (IZs) mapping to mid or late replication-timing (RT) domains fire within 1-2 hours of S-phase entry, much earlier than expected for their RT classification.

  mescs mefs edu-seq repli-seq western

• chromIDEAS reveals epigenetic dynamics via multi-dimensional clustering of chromatin states.

  PMID 41816913 · PMC12980073 · Nucleic acids research · 2026 · 8 claims · 8 setups

  Full-text index only

  chromIDEAS groups chromatin states into functionally coherent clusters by jointly analyzing epigenetic composition and genomic distribution

  thp1 cd34+ chromideas chip-seq atac-seq

• Global chromatin accessibility profiling analysis reveals a chronic activation state in aged muscle stem cells.

  PMID 36093058 · PMC9459695 · iScience · 2022 · 8 claims · 8 setups

  Has reproduction · 59

  PFA-perfusion-based isolation preserves the true in vivo chromatin accessibility state, avoiding artifacts caused by tissue dissociation-induced activation

  quiescent satellite regenerating situ atac-seq rna-seq motif

• Protease-mediated PRC1 dissociation promotes H2AK119ub remodeling during stress responses.

  PMID 41813846 · PMC13083880 · The EMBO journal · 2026 · 8 claims · 8 setups

  Full-text index only

  CAPN3 promotes rapid dissociation of PRC1 complexes from chromatin in response to stress

  hepatocytes liver doxycycline-inducible capn3 chip-seq cut&tag western

• The rates of adult neurogenesis and oligodendrogenesis are linked to cell cycle regulation through p27-dependent gene repression of SOX2.

  PMID 36627412 · PMC9832098 · Cellular and molecular life sciences : CMLS · 2023 · 8 claims · 8 setups

  Has reproduction · 59

  p27 restricts residual CDK activity after mitogen withdrawal to antagonize cell cycling, but is not essential for cell cycle exit per se

  sez-derived computational nsc npc atac-seq bulk lisa

• Effects of replication domains on genome-wide UV-induced DNA damage and repair.

  PMID 36155646 · PMC9536635 · PLoS genetics · 2022 · 8 claims · 7 setups

  Has reproduction · 74

  Ongoing replication stimulates local nucleotide excision repair in both early and late replication domains as those regions become replicated

  hela damage-seq xr-seq edu-seq

• Slow RNAPII elongation enhances naive pluripotency rewiring while maintaining high replication fork speed.

  PMID 42030380 · PMC13108533 · Science advances · 2026 · 8 claims · 8 setups

  Full-text index only

  Slow RNAPII elongation (R749H mutant) mESCs display faster replication fork speed than WT without inducing replicative stress or DNA damage

  mesc stretched edu qibc

• Adhesion-Related Macrophages Regulate Metabolic Homeostasis Through CAV-1 Dependency.

  PMID 41817010 · PMC13159151 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

  Full-text index only

  Adhesion-related macrophages (ARMs) are a distinct macrophage subpopulation that adheres directly to adipocytes and can be isolated using a novel vortex/bead-based method

  ewat facs-sorted arms sort-purified flow bulk atac-seq

• Smoking promotes colorectal cancer via the CKAP2L/AREG axis.

  PMID 41823522 · PMC13038336 · International journal of oncology · 2026 · 8 claims · 8 setups

  Full-text index only

  Smoking is positively associated with CRC risk, confirmed by both cross-sectional (NHANES) and Mendelian randomization analyses

  participants european crc hct116 cross-sectional two-sample single-cell