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).

Publications 1.3k Datasets 392.5k Experiments 25

System / cell line: analysis ✕ Assay: patient-derived ✕ Clear

A new form of diabetes caused by INS mutations defined by zygosity, stem cell and population data.

PMID 41484206 · PMC12905373 · EMBO molecular medicine · 2026 · 6 claims · 7 setups

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INS R6C is a recessive loss-of-function mutation causing diabetes only in homozygous individuals, not a dominant mutation as previously classified.

blood serum large-scale computational targeted autoantibody population
Conflicting selection pressures target the NS3 protein in hepatitis C virus genotypes 1a and 1b.

PMID 19896990 · PMC3529174 · Virus research · 2010 · 7 claims · 5 setups

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Both HCV-1a and HCV-1b show abundant slightly deleterious nonsynonymous variants subject to ongoing purifying selection across the polyprotein.

hcv-1a phylogenetic sequence nucleotide
Computational modeling demonstrates that glioblastoma cells can survive spatial environmental challenges through exploratory adaptation.

PMID 31836713 · PMC6911112 · Nature communications · 2019 · 8 claims · 6 setups

Has reproduction · 100

Exploratory adaptation (stochastic gene-regulatory network perturbation) explains how GBM cells adapt phenotypically across spatially distinct tumor regions

patient-derived low-grade tf-gene single-sample bulk differential gene
Cancer-predicting transcriptomic and epigenetic signatures revealed for ulcerative colitis in patient-derived epithelial organoids.

PMID 29983891 · PMC6033374 · Oncotarget · 2018 · 7 claims · 6 setups

Has reproduction · 65

UC patient-derived organoids histologically phenocopy primary UC tissue, showing disorganized stratified epithelium, reduced mucin/goblet cells, and non-uniform proliferation compared to non-IBD organoids

patient-derived h3k27ac rna-seq chip-seq histology
Integrative microRNA and proteomic approaches identify novel osteoarthritis genes and their collaborative metabolic and inflammatory networks.

PMID 19011694 · PMC2582945 · PloS one · 2008 · 8 claims · 8 setups

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A 16-microRNA signature (9 up, 7 down) distinguishes osteoarthritic from normal cartilage.

patient-derived normal integrated taqman qrt-pcr northern
Analysis of a set of missense, frameshift, and in-frame deletion variants of BRCA1.

PMID 18992264 · PMC2682550 · Mutation research · 2009 · 8 claims · 8 setups

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A combined functional assay, bioinformatics prediction, and structural modeling approach can classify BRCA1 variants of uncertain significance

saccharomyces cerevisiae hek-293t yeast yeast β-galactosidase dual
Different molecular patterns in glioblastoma multiforme subtypes upon recurrence.

PMID 19644652 · PMC2811648 · Journal of neuro-oncology · 2010 · 7 claims · 5 setups

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Type 1 GBM (p53 mutation, no EGFR amplification) and type 2 GBM (EGFR amplification, no p53 mutation) conserve their original molecular pattern at relapse.

paired gbm sequencing semiquantitative microsatellite
Mutations of the Igbeta gene cause agammaglobulinemia in man.

PMID 17709424 · PMC2118692 · The Journal of experimental medicine · 2007 · 6 claims · 5 setups

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A homozygous nonsense mutation (Gln80X) in the Igβ (B29) gene causes agammaglobulinemia in a human patient

genomic drosophila pbmcs sorted pcr transfection flow
Inflammatory bowel disease and mutations affecting the interleukin-10 receptor.

PMID 19890111 · PMC2787406 · The New England journal of medicine · 2009 · 8 claims · 8 setups

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Homozygous loss-of-function mutations in IL10RA or IL10RB cause severe early-onset enterocolitis

consanguineous patients ebv-transformed pbmcs genetic-linkage single-nucleotide-polymorphism candidate-gene
Interpretable artificial intelligence based on immunoregulation-related genes predicts prognosis and immunotherapy response in lung adenocarcinoma.

PMID 41048340 · PMC12491262 · Frontiers in bioinformatics · 2025 · 8 claims · 8 setups

Has reproduction · 71

IRG expression pattern clusters LUAD patients into groups with significantly different survival outcomes and immune cell infiltration

luad normal bulk wgcna tumor
Mutations in the formin gene INF2 cause focal segmental glomerulosclerosis.

PMID 20023659 · PMC2980844 · Nature genetics · 2010 · 8 claims · 8 setups

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Mutations in INF2, a formin family actin-regulating protein, cause autosomal dominant focal segmental glomerulosclerosis (FSGS)

families genes individuals kidney genome-wide sanger resequencing
Escape from autologous neutralizing antibodies in acute/early subtype C HIV-1 infection requires multiple pathways.

PMID 19763269 · PMC2741593 · PLoS pathogens · 2009 · 8 claims · 7 setups

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Viral escape from autologous Nab occurred repeatedly (cyclically) throughout the first two years of infection in two subtype C-infected subjects despite high-titer Nab responses.

hiv-1 longitudinal 0-month single pseudovirus single site-directed
Disruption of tRNA threonylation triggers RIG-I mediated anti-tumour immune response.

PMID 41735308 · PMC13043769 · Nature communications · 2026 · 8 claims · 8 setups

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OSGEP is the catalytic subunit of the KEOPS complex responsible for t6A modification at position 37 of cytoplasmic tRNAs, and its loss causes the highest protein aggregation among 45 screened tRNA-modifying enzymes in melanoma cells

mm117 b16f10 b16f10-derived c57bl esirna shrna rna-seq
Effective quantitative real-time polymerase chain reaction analysis of the parkin gene (PARK2) exon 1-12 dosage.

PMID 17324265 · PMC1810516 · BMC medical genetics · 2007 · 8 claims · 3 setups

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Developed a real-time TaqMan PCR method that quantifies PARK2 exon 1-12 copy number by comparing amplification signal to the β-globin internal control gene

genomic same real-time prior
Gene co-expression network analysis in human spinal cord highlights mechanisms underlying amyotrophic lateral sclerosis susceptibility.

PMID 33707641 · PMC7970949 · Scientific reports · 2021 · 8 claims · 8 setups

Has reproduction · 100

WGCNA on control human cervical spinal cord RNA-seq identifies 13 co-expression modules (SC.M1-M13), each representing distinct biological processes or cell types.

cervical als top yeast bulk stratified protein-protein
Fibroblasts from patients with Diamond-Blackfan anaemia show abnormal expression of genes involved in protein synthesis, amino acid metabolism and cancer.

PMID 19765279 · PMC2760583 · BMC genomics · 2009 · 8 claims · 5 setups

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Global microarray profiling reveals 421 genes differentially expressed in DBA patient fibroblasts compared to healthy controls

dermal same fibroblasts analysis microarray quantitative rt-pcr
A 1-bp duplication in TGFB2 in three family members with a syndromic form of thoracic aortic aneurysm.

PMID 24193348 · PMC4060107 · European journal of human genetics : EJHG · 2014 · 6 claims · 2 setups

Has reproduction · 83

A novel heterozygous c.1165dupA mutation in exon 7 of TGFB2 (p.Ser389Lysfs*8) was identified in three members of one family with syndromic TAAD.

cohort patient-derived sanger transcript
Synergism between IL7R and CXCR4 drives BCR-ABL induced transformation in Philadelphia chromosome-positive acute lymphoblastic leukemia.

PMID 32581241 · PMC7314847 · Nature communications · 2020 · 8 claims · 8 setups

Has reproduction · 92

IL7R interacts with CXCR4 to recruit BCR-ABL1 and JAK kinases into close proximity, forming a molecular platform for transformation

bm-derived pediatric bcr-abl1-transformed nod-scid rna-sequencing gene flow
SW-ARRAY: a dynamic programming solution for the identification of copy-number changes in genomic DNA using array comparative genome hybridization data.

PMID 15961730 · PMC1151590 · Nucleic acids research · 2005 · 7 claims · 5 setups

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SW-ARRAY, an adaptation of the Smith-Waterman dynamic programming algorithm, provides a sensitive and robust method for identifying copy-number changes in array CGH data

chromosome 16p array probe-by-probe sw-array
A novel matrix metalloproteinase 2 (MMP2) terminal hemopexin domain mutation in a family with multicentric osteolysis with nodulosis and arthritis with cardiac defects.

PMID 18985071 · PMC2721823 · European journal of human genetics : EJHG · 2009 · 7 claims · 8 setups

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A novel homozygous frameshift mutation (1732delA) in exon 11 of MMP2 causes MONA in this Turkish family by deleting the terminal (third and fourth) hemopexin domains.

blood-derived patient-derived serum genomic direct rt-pcr gelatin

Experiments

A new form of diabetes caused by INS mutations defined by zygosity, stem cell and population data.

Conflicting selection pressures target the NS3 protein in hepatitis C virus genotypes 1a and 1b.

Computational modeling demonstrates that glioblastoma cells can survive spatial environmental challenges through exploratory adaptation.

Cancer-predicting transcriptomic and epigenetic signatures revealed for ulcerative colitis in patient-derived epithelial organoids.

Integrative microRNA and proteomic approaches identify novel osteoarthritis genes and their collaborative metabolic and inflammatory networks.

Analysis of a set of missense, frameshift, and in-frame deletion variants of BRCA1.

Different molecular patterns in glioblastoma multiforme subtypes upon recurrence.

Mutations of the Igbeta gene cause agammaglobulinemia in man.

Inflammatory bowel disease and mutations affecting the interleukin-10 receptor.

Interpretable artificial intelligence based on immunoregulation-related genes predicts prognosis and immunotherapy response in lung adenocarcinoma.

Mutations in the formin gene INF2 cause focal segmental glomerulosclerosis.

Escape from autologous neutralizing antibodies in acute/early subtype C HIV-1 infection requires multiple pathways.

Disruption of tRNA threonylation triggers RIG-I mediated anti-tumour immune response.

Effective quantitative real-time polymerase chain reaction analysis of the parkin gene (PARK2) exon 1-12 dosage.

Gene co-expression network analysis in human spinal cord highlights mechanisms underlying amyotrophic lateral sclerosis susceptibility.

Fibroblasts from patients with Diamond-Blackfan anaemia show abnormal expression of genes involved in protein synthesis, amino acid metabolism and cancer.

A 1-bp duplication in TGFB2 in three family members with a syndromic form of thoracic aortic aneurysm.

Synergism between IL7R and CXCR4 drives BCR-ABL induced transformation in Philadelphia chromosome-positive acute lymphoblastic leukemia.

SW-ARRAY: a dynamic programming solution for the identification of copy-number changes in genomic DNA using array comparative genome hybridization data.

A novel matrix metalloproteinase 2 (MMP2) terminal hemopexin domain mutation in a family with multicentric osteolysis with nodulosis and arthritis with cardiac defects.