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 92

Assay: frozen ✕ Clear

The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice.

PMID 20368178 · PMC2894525 · Science translational medicine · 2009 · 7 claims · 6 setups

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Germ-free C57BL/6J mice can be stably and heritably colonized with a human fecal microbiota, reproducing much of the donor's bacterial diversity.

fecal postnatal luminal pooled 16s shotgun body
Detection of BRAF mutations in the tumour and serum of patients enrolled in the AZD6244 (ARRY-142886) advanced melanoma phase II study.

PMID 19861964 · PMC2778539 · British journal of cancer · 2009 · 7 claims · 8 setups

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BRAF mutations can be detected in serum cfDNA of advanced melanoma patients using an ARMS allele-specific PCR assay

serum-derived tumour serum ht29 arms sanger topo
Alternative polyadenylation mediated the downregulation of lysophosphatidylglycerol acyltransferase 1 in metabolic dysfunction-associated steatotic liver disease.

PMID 41507908 · PMC12879358 · Lipids in health and disease · 2026 · 8 claims · 8 setups

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Early hepatocyte-specific APA remodeling, characterized by 3' UTR lengthening of metabolism-related genes (especially LPGAT1), occurs in MASLD and is established before fibrosis progression

liver hepg2 293t serum bulk single-cell oil
Single-cell and spatial transcriptomic profiling of cardiac fibroblasts following myocardial infarction.

PMID 41526391 · PMC12890913 · Scientific data · 2026 · 7 claims · 6 setups

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Cthrc1+ Reparative Cardiac Fibroblasts (RCFs) are the primary driver of the cardiac healing process after myocardial infarction

col1α1-gfp+ heart frozen bulk single-cell spatial
Ex Vivo Immuno-Oncology Platform Reveals Spatial T-cell Infiltration Patterns Linked to ATR Inhibition Responses in High-Grade Serous Ovarian Cancer.

PMID 41563843 · PMC7618831 · Cancer immunology research · 2026 · 8 claims · 8 setups

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iPDCs cultured on human omentum gel (OmGel) recapitulate tumor genomic and histologic characteristics while retaining intratumoral immune cells

formalin-fixed blood dissociated ipdcs histopathology whole-exome flow
Modeling nascent transcription from chromatin landscape and structure with CLASTER.

PMID 41691282 · PMC13011747 · Genome biology · 2026 · 7 claims · 8 setups

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CLASTER, a deep neural network combining chromatin landscape tracks and 3D contact maps, accurately predicts kilobasepair-resolution nascent RNA (EU-seq) profiles in a DNA-sequence-agnostic manner

embryonic mescs chromatin k562 eu-seq chip-seq micro-c
Patient-derived orthotopic xenograft models recapitulate the peritoneal dissemination of pancreatic cancer and delineate its transcriptional and regulatory programs.

PMID 41673768 · PMC12998334 · Journal of experimental & clinical cancer research : CR · 2026 · 6 claims · 8 setups

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Organoids derived from malignant effusions of PDAC patients reproducibly generate peritoneal metastases after orthotopic implantation into the pancreas of immunodeficient mice

pdac organoids frozen pdox orthotopic single-nucleus single-cell
The Proteo-Transcriptome of Extracellular Vesicles and Particles Is Largely Preserved After Cryopreservation.

PMID 42094828 · PMC13140971 · Journal of extracellular biology · 2026 · 6 claims · 7 setups

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Cryopreservation has little effect on protein concentration, particle size, and proteo-transcriptomics of EVPs

tissue-derived sec-separated sec-pooled supernatants multiplex small western
Most microsatellite unstable sporadic colorectal carcinomas carry MBD4 mutations.

PMID 11104560 · PMC2363466 · British journal of cancer · 2000 · 8 claims · 2 setups

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MBD4 mutations occur in 89% (17/19) of RER+ sporadic colorectal carcinomas when microdissected tumor sites are analyzed

microdissected frozen pcr comparison
25th Annual San Antonio Breast Cancer Symposium, San Antonio, Texas, USA, 10-14 December 2002 Update on preclinical and translational research.

PMID 12631391 · PMC154153 · Breast cancer research : BCR · 2003 · 8 claims · 8 setups

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Growth factor signalling (EGF/HER-2/MAPK, AKT) phosphorylates the oestrogen receptor and drives development of endocrine-resistant breast cancer

xenograft serum frozen tumour xenograft mass cdna
The genome sequence of the Portuguese Dappled White, Euchloe tagis (Hübner, 1804) (Lepidoptera: Pieridae).

PMID 42028159 · PMC13100615 · Wellcome open research · 2026 · 7 claims · 8 setups

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A chromosome-level genome assembly was generated for Euchloe tagis (Portuguese Dappled White) as part of Project Psyche

euchloe pacbio hi-c k-mer
Blood and tissue correlates of steroid non-response in checkpoint inhibition-induced immune-related adverse events.

PMID 41254329 · PMC12627558 · Communications medicine · 2025 · 7 claims · 6 setups

Has reproduction · 71

Blood of steroid non-responders shows elevated Tc1/Tc17 CD8+ T cells and Th1/Th17-associated interleukins before steroid initiation

pbmcs pbmc serum snap-frozen spectral pd-1 ici-bound
Mutation of the p53 gene precedes aneuploid clonal divergence in colorectal carcinoma.

PMID 7841032 · PMC2033599 · British journal of cancer · 1995 · 7 claims · 5 setups

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p53 mutation occurs as a single clonal event that precedes and may facilitate aneuploid clonal divergence in colorectal carcinoma

tumour plpd-fixed frozen pcr-sscp dideoxy restriction
The detection of K-ras mutations in colorectal cancer using the amplification-refractory mutation system.

PMID 9579832 · PMC2150152 · British journal of cancer · 1998 · 5 claims · 6 setups

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ARMS reliably detects K-ras codon 12/13 mutations in archival CRC DNA samples even when mutant sequence is under-represented relative to wild-type

archival tumour tumour-derived haematoxylin arms direct pcr
Role of p16/MTS1, cyclin D1 and RB in primary oral cancer and oral cancer cell lines.

PMID 10389982 · PMC2363027 · British journal of cancer · 1999 · 7 claims · 5 setups

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p16/MTS1 mutations and loss of expression are very common in OSCC cell lines and less frequent in primary OSCC tumours

oscc same frozen pcr western extraction
Mutational spectrum of p53 gene in arsenic-related skin cancers from the blackfoot disease endemic area of Taiwan.

PMID 10362120 · PMC2363055 · British journal of cancer · 1999 · 7 claims · 4 setups

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p53 gene mutation rate is high in arsenic-related skin cancers (39% Bowen's disease, 28.6% BCC, 55.6% SCC)

skin fresh-frozen pcr-sscp direct immunohistochemistry
Comparison of complete nuclear receptor sets from the human, Caenorhabditis elegans and Drosophila genomes.

PMID 11532213 · PMC55326 · Genome biology · 2001 · 7 claims · 5 setups

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The human genome contains fewer than 50 functional nuclear receptors, far fewer than C. elegans and about twice as many as Drosophila

genome elegans genomic panel tblastn hmmer pcr
A DNA microarray survey of gene expression in normal human tissues.

PMID 15774023 · PMC1088941 · Genome biology · 2005 · 6 claims · 6 setups

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Unsupervised hierarchical clustering of gene expression groups normal tissue samples largely according to anatomic location, cellular composition, or physiologic function.

normal common computational each two-color comparative unsupervised
CD70 (TNFSF7) is expressed at high prevalence in renal cell carcinomas and is rapidly internalised on antibody binding.

PMID 16892042 · PMC2360640 · British journal of cancer · 2006 · 6 claims · 6 setups

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CD70 was identified by proteomic analysis of plasma membrane preparations as highly expressed in A498 and SW839 RCC-derived cell lines

a498 frozen normal proteomics flow immunohistochemistry
The use of whole genome amplification to study chromosomal changes in prostate cancer: insights into genome-wide signature of preneoplasia associated with cancer progression.

PMID 16573809 · PMC1450280 · BMC genomics · 2006 · 7 claims · 8 setups

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MDA-amplified DNA does not introduce major distortion of copy number imbalance assignments compared to unamplified DNA in control CGH experiments.

laser-capture-microdissected normal cancer fresh-frozen array gacgh laser

Experiments

The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice.

Detection of BRAF mutations in the tumour and serum of patients enrolled in the AZD6244 (ARRY-142886) advanced melanoma phase II study.

Alternative polyadenylation mediated the downregulation of lysophosphatidylglycerol acyltransferase 1 in metabolic dysfunction-associated steatotic liver disease.

Single-cell and spatial transcriptomic profiling of cardiac fibroblasts following myocardial infarction.

Ex Vivo Immuno-Oncology Platform Reveals Spatial T-cell Infiltration Patterns Linked to ATR Inhibition Responses in High-Grade Serous Ovarian Cancer.

Modeling nascent transcription from chromatin landscape and structure with CLASTER.

Patient-derived orthotopic xenograft models recapitulate the peritoneal dissemination of pancreatic cancer and delineate its transcriptional and regulatory programs.

The Proteo-Transcriptome of Extracellular Vesicles and Particles Is Largely Preserved After Cryopreservation.

Most microsatellite unstable sporadic colorectal carcinomas carry MBD4 mutations.

25th Annual San Antonio Breast Cancer Symposium, San Antonio, Texas, USA, 10-14 December 2002 Update on preclinical and translational research.

The genome sequence of the Portuguese Dappled White, Euchloe tagis (Hübner, 1804) (Lepidoptera: Pieridae).

Blood and tissue correlates of steroid non-response in checkpoint inhibition-induced immune-related adverse events.

Mutation of the p53 gene precedes aneuploid clonal divergence in colorectal carcinoma.

The detection of K-ras mutations in colorectal cancer using the amplification-refractory mutation system.

Role of p16/MTS1, cyclin D1 and RB in primary oral cancer and oral cancer cell lines.

Mutational spectrum of p53 gene in arsenic-related skin cancers from the blackfoot disease endemic area of Taiwan.

Comparison of complete nuclear receptor sets from the human, Caenorhabditis elegans and Drosophila genomes.

A DNA microarray survey of gene expression in normal human tissues.

CD70 (TNFSF7) is expressed at high prevalence in renal cell carcinomas and is rapidly internalised on antibody binding.

The use of whole genome amplification to study chromosomal changes in prostate cancer: insights into genome-wide signature of preneoplasia associated with cancer progression.