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).

• Large-scale integration of single-cell transcriptomic data captures transitional progenitor states in mouse skeletal muscle regeneration.

  PMID 34773081 · PMC8589952 · Communications biology · 2021 · 8 claims · 7 setups

  Has reproduction · 92

  Large-scale integration of 111 sc/snRNAseq datasets captures rare, transitional myogenic progenitor states (commitment and fusion) that are poorly represented in individual datasets.

  skeletal merged myogenic muscle scrnaseq batch-correction differential

• Newborn sex-specific transcriptome signatures and gestational exposure to fine particles: findings from the ENVIRONAGE birth cohort.

  PMID 28583124 · PMC5458481 · Environmental health : a global access science source · 2017 · 8 claims · 6 setups

  Has reproduction · 71

  Gestational PM2.5 exposure is associated with sex-specific transcriptome signatures in cord blood, with a significant sex-by-exposure interaction for many genes.

  cord maternal pm2.5-associated blood whole-genome spatial-temporal overrepresentation

• Temporal trends in methane emissions from a small eutrophic reservoir: the key role of a spring burst.

  PMID 35126532 · PMC8815417 · Biogeosciences (Online) · 2021 · 8 claims · 7 setups

  Has reproduction · 72

  Acton Lake had cumulative areal CH4 emission rates of 45.6 ± 8.3 g CH4 m-2 in 2017 and 51.4 ± 4.3 g CH4 m-2 in 2018 (109 ± 14 and 123 ± 10 Mg CH4 whole-reservoir, respectively)

  whole-reservoir sediment-water water reservoir eddy active floating

• Statistical challenges in preprocessing in microarray experiments in cancer.

  PMID 18829474 · PMC3529914 · Clinical cancer research : an official journal of the American Association for Cancer Research · 2008 · 8 claims · 7 setups

  Full-text index only

  Choice of pre-processing method materially changes which features are found significantly associated with survival in the Beer et al. lung cancer microarray dataset

  lung beer individual outlier expression rank-covariance quality-control

• Benchmarking LLM-based agents for single-cell omics analysis.

  PMID 41742311 · PMC13064268 · Genome biology · 2026 · 8 claims · 8 setups

  Full-text index only

  Introduces a comprehensive benchmarking evaluation system comprising an open-source agent platform, 18 evaluation metrics across four dimensions, and 50 real-world single-cell omics tasks

  agent single-cell spatial scatac-seq llm-agent scrna-seq spatial

• An optimized translating ribosome affinity purification protocol for low-abundance Drosophila tissues.

  PMID 42028032 · PMC13099348 · iScience · 2026 · 8 claims · 8 setups

  Full-text index only

  An optimized TRAP protocol enables sensitive and specific isolation of ribosome-bound mRNAs from very limited Drosophila material

  flies fly thoraces larvae tapestation rt-qpcr rna-seq