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).

• A Meta-Analysis of the Effects of Chronic Stress on the Prefrontal Transcriptome in Animal Models and Convergence With Existing Human Data.

  PMID 41566898 · PMC12824456 · Brain and behavior · 2026 · 8 claims · 8 setups

  Has reproduction · 64

  Chronic stress induces a robust, cross-paradigm PFC transcriptional signature characterized by downregulation of glia/myelin and vascular pathways and suppression of immediate-early gene activity

  c57 c57bl post-weaning pfc microarray rna-seq random

• Deep learning based protocol to construct an immune-related gene network of host-pathogen interactions in plants.

  PMID 36525344 · PMC9791427 · STAR protocols · 2023 · 6 claims · 6 setups

  Has reproduction · 96

  A deep-learning protocol (DLNet) ranks genes by their contribution to classifying treatment versus control expression data, identifying genes involved in host defense against pathogens.

  oryza rice merged top-ranked affymetrix microarray batch

• Genomic variation in myeloma: design, content, and initial application of the Bank On A Cure SNP Panel to detect associations with progression-free survival.

  PMID 18778477 · PMC2553089 · BMC medicine · 2008 · 7 claims · 7 setups

  Full-text index only

  A custom BOAC SNP panel of 3404 SNPs in 983 genes was developed using the Affymetrix GeneChip Targeted Genotyping Platform, focused on non-synonymous coding SNPs and regulatory-region SNPs in candidate genes.

  coriell myeloma duplicate snp targeted genotyping machine

• A comprehensive sensitivity analysis of microarray breast cancer classification under feature variability.

  PMID 19941644 · PMC2789744 · BMC bioinformatics · 2009 · 7 claims · 4 setups

  Full-text index only

  Feature variability strongly influences breast cancer signature composition even when array platform and patient stratification are identical.

  breast preprocessed microarray two-color perturbation

• A curated collection of transcriptome datasets to investigate the molecular mechanisms of immunoglobulin E-mediated atopic diseases.

  PMID 31290545 · PMC6616200 · Database : the journal of biological databases and curation · 2019 · 5 claims · 8 setups

  Has reproduction · 62

  A curated collection of 33 GEO transcriptome datasets relevant to IgE-mediated atopic diseases (allergies to primary immunodeficiencies) was assembled, encompassing 1860 transcriptome profiles.

  pbmc bronchial nasal skin expression rna-seq microarray

• Recent additions and improvements to the Onto-Tools.

  PMID 15980579 · PMC1160233 · Nucleic acids research · 2005 · 7 claims · 3 setups

  Full-text index only

  The Onto-Tools back-end database was redesigned around the Entrez Gene data model after NCBI phased out LocusLink in February 2005.

  homo example mus functional pathway cross-database