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).
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Has reproduction · 53
Molecular Biomarker of Drug Resistance Developed From Patient-Derived Organoids Predicts Survival of Colorectal Cancer Patients.
PMID 35425715 · PMC9004628 · Frontiers in oncology · 2022 · 8 claims · 7 setups
Patient-derived colorectal cancer organoids (CRCOs) can be established from surgical CRC tissue with an 82% success rate (41/50)
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The GENEVA platform models tumor mosaicism to reveal variations of responses to KRAS inhibitors and identify improved drug combinations.
PMID 41735640 · PMC13035475 · Nature cancer · 2026 · 8 claims · 8 setups
GENEVA is a scalable single-cell-resolution platform for measuring drug responses across genetically diverse pooled 2D/3D cultures and xenograft models
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Has reproduction · 90
The first single-stranded DNA virus targeting Pectobacterium belongs to the family Microviridae and demonstrates a broad host range to Pectobacterium brasiliense soft rot pathogens.
PMID 41739249 · PMC12935840 · Archives of virology · 2026 · 8 claims · 8 setups
Phage Mimer is the first described lytic ssDNA (Microviridae) phage targeting Pectobacterium
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Proteomic profiling of the amniotic fluid to detect inflammation, infection, and neonatal sepsis.
PMID 17227133 · PMC1769412 · PLoS medicine · 2007 · 8 claims · 8 setups
Higher MR scores (severe, 3-4) are associated with significantly shorter amniocentesis-to-delivery intervals than minimal (1-2) or no (0) inflammation
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High accuracy mass spectrometry analysis as a tool to verify and improve gene annotation using Mycobacterium tuberculosis as an example.
PMID 18597682 · PMC2483986 · BMC genomics · 2008 · 8 claims · 5 setups
High-accuracy MS proteomics (LTQ-Orbitrap) can be used to verify and improve gene annotation by identifying peptides specific to one of two competing annotation datasets.
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Data driven network inference and longitudinal transcriptomics unveil dynamic regulation in Chronic Lymphocytic Leukaemia models.
PMID 41540084 · PMC12894745 · NPJ systems biology and applications · 2026 · 8 claims · 8 setups
The presence of immune cells in the environment significantly alters CLL cell activation
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Has reproduction · 67
A consensus approach to vertebrate de novo transcriptome assembly from RNA-seq data: assembly of the duck (Anas platyrhynchos) transcriptome.
PMID 25009556 · PMC4070175 · Frontiers in genetics · 2014 · 8 claims · 8 setups
Multiple k-mer (MK) assemblies are more complete than single k-mer (SK) assemblies, showing higher reads-mapped-back-to-transcripts (RMBT) and higher CEGMA complete-gene percentages for all three tools.
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Has reproduction · 87
De Novo Transcriptome Meta-Assembly of the Mixotrophic Freshwater Microalga Euglena gracilis.
PMID 34072576 · PMC8227486 · Genes · 2021 · 7 claims · 8 setups
A new consensus transcriptome of E. gracilis was assembled by combining reads from five independent RNA-seq studies (23 samples)
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CAF-enriched COL4A6 promotes gastric cancer progression and stromal remodeling despite an inverse association in bulk transcriptomes.
PMID 41735371 · PMC13031391 · Scientific reports · 2026 · 7 claims · 7 setups
COL4A6 carries an inverse association (OR<1) in bulk transcriptome-based risk models despite being markedly upregulated and predominantly localized to the CAF compartment in clinical specimens
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Has reproduction · 55
Single cell analysis reveals the roles and regulatory mechanisms of type-I interferons in Parkinson's disease.
PMID 38566100 · PMC10985960 · Cell communication and signaling : CCS · 2024 · 8 claims · 8 setups
Microglia, endothelial cells, and pericytes exhibit the highest IFN-I activity among PD midbrain cell types, with microglia and endothelial cells showing significantly elevated high-IFN-I-scoring proportions in PD versus controls
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Has reproduction · 88
Enterotoxins A and B produced by Staphylococcus aureus increase cell proliferation, invasion and cytarabine resistance in acute myeloid leukemia cell lines.
PMID 37810000 · PMC10559070 · Heliyon · 2023 · 8 claims · 8 setups
SEA and SEB treatment increases cell proliferation in AML cell lines
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Has reproduction · 50
Transcriptome profiling of osteoclast subsets associated with arthritis: A pathogenic role of CCR2(hi) osteoclast progenitors.
PMID 36591261 · PMC9797520 · Frontiers in immunology · 2022 · 8 claims · 6 setups
CCR2hi and CCR2lo periarticular bone marrow OCP subsets show a disparate transcriptome (863 differentially expressed genes)
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Has reproduction · 86
Development of double-positive thymocytes at single-cell resolution.
PMID 33771202 · PMC8004397 · Genome medicine · 2021 · 7 claims · 8 setups
DP thymocytes can be classified into blast, rearrangement, and selection subtypes, distinguishable by surface markers CD2 and Ly6d
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Reduced secretion of fibulin 5 in age-related macular degeneration and cutis laxa.
PMID 16652333 · PMC1828612 · Human mutation · 2006 · 7 claims · 6 setups
FBLN5 missense mutations are associated with ARMD in a European (UK/Dutch) cohort, confirming prior US findings
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Identification of cycling regulatory T cell precursors as conductors of immune escape during breast carcinoma progression.
PMID 41997138 · PMC13213619 · Cancer cell · 2026 · 8 claims · 8 setups
A novel proliferative Treg precursor state, cycling Treg (cycTreg: FOXP3^int, MKI67^hi, IKZF2/4^int-hi), is absent in normal breast, low in DCIS, and strongly expanded in IBC
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Has reproduction · 85
TGF-β-dependent reprogramming of amino acid metabolism induces epithelial-mesenchymal transition in non-small cell lung cancers.
PMID 34168290 · PMC8225889 · Communications biology · 2021 · 8 claims · 8 setups
TGF-β induces reprogramming of intracellular amino acid metabolism that is necessary to promote EMT in NSCLC cells
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Has reproduction · 50
In vivo microscopy reveals macrophage polarization locally promotes coherent microtubule dynamics in migrating cancer cells.
PMID 32665556 · PMC7360550 · Nature communications · 2020 · 8 claims · 8 setups
Cancer cells in vivo display higher coherent orientation of MT dynamics along their major axis compared to 2D in vitro cultures
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Has reproduction · 61
Differentiation status determines the effects of IFNγ on the expression of PD-L1 and immunomodulatory genes in melanoma.
PMID 39736644 · PMC11687009 · Cell communication and signaling : CCS · 2024 · 8 claims · 8 setups
Dedifferentiation via MITF knockdown renders 624Mel melanoma cells hypersensitive to IFNγ, producing non-additive (synergistic) upregulation of IFNγ-induced genes.
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Has reproduction · 54
Single-Cell Transcriptome Analysis Revealed Heterogeneity and Identified Novel Therapeutic Targets for Breast Cancer Subtypes.
PMID 37190091 · PMC10137100 · Cells · 2023 · 8 claims · 8 setups
Single-cell transcriptomic analysis of EPCAM+Lin- epithelial cells identified unique gene signatures/markers that distinguish ER+, HER2+, ER+HER2+, and TNBC molecular subtypes
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High-throughput crystallography for structural genomics.
PMID 19765976 · PMC2764548 · Current opinion in structural biology · 2009 · 8 claims · 8 setups
SG programs use genomic sequence data to select structurally novel protein targets, avoiding proteins with known structural homologues