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).

• Quadratic regression analysis for gene discovery and pattern recognition for non-cyclic short time-course microarray experiments.

  PMID 15850479 · PMC1127068 · BMC bioinformatics · 2005 · 8 claims · 8 setups

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  A step-down quadratic regression method (fitting quadratic, then linear, then null models per gene) identifies differentially expressed genes and classifies them into 9 temporal expression patterns using continuous time information.

  olfactory present same anova-significant microarray step-down peddada

• EpCAM supports exit from pluripotency of embryonic stem cells via Eomes.

  PMID 41963283 · PMC13076738 · Cell death & disease · 2026 · 8 claims · 8 setups

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  EpCAM supports exit from pluripotency of mESCs and is required for cardiomyocyte formation in embryoid bodies

  e14tg2α epcam embryos mesc flow contraction qrt-pcr

• In vivo antiviral host transcriptional response to SARS-CoV-2 by viral load, sex, and age.

  PMID 32898168 · PMC7478592 · PLoS biology · 2020 · 8 claims · 8 setups

  Has reproduction · 89

  SARS-CoV-2 infection induces a strong interferon-driven antiviral response in the nasopharynx, with up-regulation of viral sensors, T cell/NK chemokines, and antiviral effectors

  nasopharyngeal airway patient-matched swab shotgun gsea biological

• αPIX Is a Trafficking Regulator that Balances Recycling and Degradation of the Epidermal Growth Factor Receptor.

  PMID 26177020 · PMC4503440 · PloS one · 2015 · 8 claims · 8 setups

  Has reproduction

  αPIX interacts with c-Cbl, including as endogenous proteins

  cho-k1 cos-7 cho αpix co-immunoprecipitation time-course stability

• Microarray analysis: genome-scale hypothesis scanning.

  PMID 14551912 · PMC212694 · PLoS biology · 2003 · 8 claims · 5 setups

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  Microarrays can be used to both test and generate hypotheses, not merely to fish for candidate genes.

  drosophila yeast diffuse breast microarray integrated gene

• Systematic analysis of CNGCs in cotton and the positive role of GhCNGC32 and GhCNGC35 in salt tolerance.

  PMID 35931984 · PMC9356423 · BMC genomics · 2022 · 8 claims · 8 setups

  Has reproduction

  114 CNGC genes were identified across the genomes of four cotton species (G. arboreum, G. raimondii, G. barbadense, G. hirsutum)

  arboreum cotton hirsutum ghcngc genome-wide phylogenetic gene

• Differential analysis for high density tiling microarray data.

  PMID 17892592 · PMC2231405 · BMC bioinformatics · 2007 · 8 claims · 6 setups

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  gSAM, a generalized extension of Significance Analysis of Microarrays (SAM), uses a piece-wise function to segment genome-wide differential response by protein-coding vs non-coding regions and by 5' vs 3' vs intra-genic bias within genes, rather than treating a gene as an atomic unit.

  hl60 profiling chip-on-chip

• Serum S100A6 concentration predicts peritoneal tumor burden in mice with epithelial ovarian cancer and is associated with advanced stage in patients.

  PMID 19888321 · PMC2765613 · PloS one · 2009 · 8 claims · 8 setups

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  Serum S100A6 concentration correlates with peritoneal tumor burden in a mouse OVCA xenograft model, based on inverse regression calibration against bioluminescent imaging data.

  serum skov-3 pooled ovca lc-ms antigen whole-animal

• Segmented filamentous bacteria are worldwide human gut commensals.

  PMID 41786702 · PMC13153320 · Nature communications · 2026 · 8 claims · 8 setups

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  Identification and morphological/genomic characterization of a novel human SFB species, Anisomitus miae (Human-SFB-ML), from Malian/Gambian/Kenyan fecal samples, displaying SFB-specific morphology including the attachment tip structure

  fecal sfb human-sfb-ml publicly pacbio maximum gram

• Genetically engineered stem cell-derived retinal grafts for improved retinal reconstruction after transplantation.

  PMID 34409267 · PMC8361135 · iScience · 2021 · 8 claims · 6 setups

  Has reproduction · 84

  Bhlhb4−/− and Islet1−/− pluripotent cell lines differentiate into retinal organoids with similar timing, morphology, and gene expression to wt lines up to around DD15

  bhlhb4− nrl-gfp rd1 fluorescence rt-pcr microarray

• Monocytes serve as Shiga toxin carriers during the development of hemolytic uremic syndrome.

  PMID 39871175 · PMC11773931 · Cellular & molecular biology letters · 2025 · 8 claims · 8 setups

  Has reproduction · 84

  Monocytes are the primary carriers that transport Stx2 from the periphery to the kidney during STEC-induced HUS

  peripheral thp-1 cfse-labeled evs single-cell flow toxin-cell

• Optimization of protein solubilization for the analysis of the CD14 human monocyte membrane proteome using LC-MS/MS.

  PMID 19709643 · PMC3159575 · Journal of proteomics · 2009 · 7 claims · 5 setups

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  Methanol-based solubilization, alone or combined with PPS, yields significantly higher membrane protein identification/enrichment than PPS alone in monocyte membrane proteomics

  bacteriorhodopsin crude immuno-affinity lc-ms sds-page shotgun facs

• Genomic and proteomic profiling of responses to toxic metals in human lung cells.

  PMID 12760830 · PMC1241504 · Environmental health perspectives · 2003 · 8 claims · 8 setups

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  Toxic metals (Cd, Cr, Ni, As) each induce a largely distinct, metal-specific pattern of gene expression changes in BEAS-2B human bronchial epithelial cells

  beas-2b cdna western kinetworks

• MEIOC prevents continued mitotic cycling and promotes meiotic entry during mouse oogenesis.

  PMID 41287933 · PMC12848572 · Development (Cambridge, England) · 2026 · 8 claims · 4 setups

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  MEIOC prevents continued mitotic cycling in preleptotene oocytes prior to meiotic entry

  e16.5 e14.5 ovarian edu bulk single-cell