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).

• Human genetics branches out in Barcelona.

  PMID 18710599 · PMC2575509 · Genome biology · 2008 · 8 claims · 8 setups

  Full-text index only

  A meta-analysis of three GWAS scans (DIAGRAM) identifies new type 2 diabetes susceptibility loci (JAZF1, CDC123/CAMK1D, ADAMTS9, THADA) with modest individual effect

  patients families lymphoblastoid genome genome-wide gwas genetic

• Phenotypic variation meets systems biology.

  PMID 19664197 · PMC2745761 · Genome biology · 2009 · 8 claims · 8 setups

  Full-text index only

  Cellular differentiation states are constrained by complex networks with substantial positive and negative regulation, challenging the concept of single 'master regulators'

  thp-1 arabidopsis unspecified mammalian deepcage protein-protein sequencing

• Chromosome-level genome assembly of Siberian kale (Brassica napus subsp. pabularia).

  PMID 41760683 · PMC13066399 · Scientific data · 2026 · 8 claims · 8 setups

  Full-text index only

  A chromosome-level genome assembly of Siberian kale variety Beta was generated using PacBio HiFi long reads, Illumina short reads, and Hi-C data

  beta illumina pacbio hi-c

• A high-quality chromosome-level genome assembly of the endangered species Magnolia amoena.

  PMID 41781393 · PMC13076695 · Scientific data · 2026 · 8 claims · 8 setups

  Full-text index only

  Generated a high-quality chromosome-level genome assembly of the endangered/vulnerable species Magnolia amoena using DNBSEQ-T7, PacBio HiFi, and Hi-C data

  amoena pooled short-read pacbio hi-c

• pmid-41963377

  PMID 41963377 · PMC13243523 · 8 claims · 8 setups

  Full-text index only

  A. coerulea genome was assembled at chromosome level using PacBio HiFi long-read sequencing, short-read WGS, and Hi-C scaffolding

  coerulea whole-genome pacbio hi-c

• Genomic Description of 'Candidatus Abyssubacteria,' a Novel Subsurface Lineage Within the Candidate Phylum Hydrogenedentes.

  PMID 30210471 · PMC6121073 · Frontiers in microbiology · 2018 · 8 claims · 7 setups

  Has reproduction · 91

  SURF_5 and SURF_17 are the first full genomes of a novel bacterial lineage, 'Candidatus Abyssubacteria,' within the candidate phylum Hydrogenedentes

  deep co-assembled surf_17 surf_5 whole-genome novo 16s

• Graph-Based Approaches Significantly Improve the Recovery of Antibiotic Resistance Genes From Complex Metagenomic Datasets.

  PMID 34690959 · PMC8528159 · Frontiers in microbiology · 2021 · 8 claims · 6 setups

  Has reproduction · 75

  GraphAMR, a Nextflow pipeline that aligns AMR profile HMMs (or AA sequences) to metagenomic assembly graphs via PathRacer, then dereplicates and annotates hits, recovers more and more complete AMR genes than contig-based or read-based methods.

  urban soil ncbi profile metagenomic amr

• Ancient variation of the AvrPm17 gene in powdery mildew limits the effectiveness of the introgressed rye Pm17 resistance gene in wheat.

  PMID 35857869 · PMC9335242 · Proceedings of the National Academy of Sciences of the United States of America · 2022 · 6 claims · 8 setups

  Has reproduction · 80

  AvrPm17 is encoded by a paralogous, tandemly duplicated effector gene pair located in a pericentromeric, mildew sublineage-specific effector cluster (family E003) showing signs of recurring gene conversion.

  b.g parental nicotiana benthamiana qtl comparative rna-sequencing

• Spotted-fever group Rickettsia in Dermacentor variabilis, Maryland.

  PMID 15496254 · PMC3320417 · Emerging infectious diseases · 2004 · 8 claims · 6 setups

  Full-text index only

  SFG Rickettsia infection prevalence in Maryland D. variabilis was 3.8% (15/392)

  dermacentor tick-derived glta field pcr single sequencing

• Adapting to a changing world: RAG genomics and evolution.

  PMID 16004728 · PMC3525258 · Human genomics · 2005 · 8 claims · 7 setups

  Full-text index only

  RAG-1/RAG-2 origin is a foundational hallmark of adaptive immunity, enabling V(D)J recombination of antigen receptor genes.

  rag-1 patients zebrafish vertebrate comparative site-directed clinical

• Codon usage comparison of novel genes in clinical isolates of Haemophilus influenzae.

  PMID 15983137 · PMC1160521 · Nucleic acids research · 2005 · 8 claims · 4 setups

  Full-text index only

  A codon usage similarity statistic (ε, based on squared/absolute differences of codon frequencies with an optimized amino acid usage factor) was developed to compare ORFs against a set of 80 reference genomes.

  influenzae novel reference codon phylogenetic comparative

• Coverage of whole proteome by structural genomics observed through protein homology modeling database.

  PMID 17146617 · PMC1769342 · Journal of structural and functional genomics · 2006 · 8 claims · 7 setups

  Full-text index only

  FAMSBASE, a homology-modeling database of whole-genome ORFs, currently covers about 50% of predicted ORFs (368,724 of 734,193) across 276 genomes with modeled 3D structures.

  orfs predicted modeled representative homology transmembrane intrinsic

• A homozygous R262Q mutation in the gonadotropin-releasing hormone receptor presenting as constitutional delay of growth and puberty with subsequent borderline oligospermia.

  PMID 16968799 · PMC1865483 · The Journal of clinical endocrinology and metabolism · 2006 · 7 claims · 8 setups

  Full-text index only

  A homozygous R262Q GNRHR mutation was identified in two brothers from an Asian Indian family, one of 11 families studied with delayed puberty or discordant IHH/delayed puberty siblings.

  blood serum younger brothers mutational hormone 24-hour

• Epigenetics and phenotypic variation in mammals.

  PMID 16688527 · PMC3906716 · Mammalian genome : official journal of the International Mammalian Genome Society · 2006 · 8 claims · 8 setups

  Full-text index only

  Epigenetic modifications are mitotically heritable, but the fidelity of meiotic/transgenerational inheritance in mammals is poorly understood and evidence in mammals is scanty.

  mammalian mhc chromosomes embryonic methylation high-throughput chip

• Polymorphism and epitope sharing between the alleles of merozoite surface protein-1 of Plasmodium falciparum among Indian isolates.

  PMID 17659072 · PMC1950510 · Malaria journal · 2007 · 7 claims · 6 setups

  Full-text index only

  PfMAD20 is the predominant PfMSP-1 allelic type among Indian field isolates

  falciparum escherichia coli-expressed recombinant pcr recombinant sds-page

• Genotype differences in cognitive functioning in Noonan syndrome.

  PMID 19077116 · PMC2760992 · Genes, brain, and behavior · 2009 · 8 claims · 6 setups

  Full-text index only

  Genotype differences account for some of the variation in cognitive ability in Noonan syndrome

  individuals participants parents standardized genetic pure-tone

• When does a protein become an allergen? Searching for a dynamic definition based on most advanced technology tools.

  PMID 18477011 · PMC2607534 · Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology · 2008 · 7 claims · 8 setups

  Full-text index only

  IgE-binding is not an intrinsic property of a protein but the result of an interaction between two molecules (antigen and IgE), so a molecule can only be classified relative to demonstrated IgE binding.

  subjects allergic serum allergenic double-blind skin serum

• Six new loci associated with blood low-density lipoprotein cholesterol, high-density lipoprotein cholesterol or triglycerides in humans.

  PMID 18193044 · PMC2682493 · Nature genetics · 2008 · 8 claims · 7 setups

  Full-text index only

  GWAS plus targeted replication identified 18 loci reproducibly associated with LDL cholesterol, HDL cholesterol, and/or triglycerides, six of which are newly identified

  blood liver fasting genome-wide targeted liver

• The Swedish Thripidae (Thysanoptera) - with additional notes on wetland thrips.

  PMID 41768308 · PMC12949410 · ZooKeys · 2026 · 7 claims · 7 setups

  Full-text index only

  This study provides the first comprehensive checklist for Swedish Thripidae

  thripidae chirothrips swedish coi sequence distance-based

• Chromosome-Level Genome Assembly and Annotation of Piptanthus nepalensis (Hook.) Sweet.

  PMID 41912568 · PMC13199499 · Scientific data · 2026 · 7 claims · 8 setups

  Full-text index only

  A chromosome-scale genome assembly of P. nepalensis was generated by integrating PacBio HiFi long reads, Illumina short reads, and Hi-C chromatin interaction data.

  nepalensis assembled illumina whole-genome hi-c rna-seq