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 · 71
Spatial organization shapes the turnover of a bacterial transcriptome.
PMID 27198188 · PMC4874777 · eLife · 2016 · 7 claims · 6 setups
The E. coli transcriptome is spatially organized genome-wide: mRNAs encoding inner-membrane proteins are enriched at the membrane, while mRNAs encoding cytoplasmic, periplasmic and outer-membrane proteins are distributed throughout the cytoplasm.
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Has reproduction · 84
Single-cell protein activity analysis reveals aberrant myogenesis and IGF2-PI3K pathway dependencies in MYOD1-mutant rhabdomyosarcoma.
PMID 41758938 · PMC12947870 · Science advances · 2026 · 7 claims · 8 setups
MYOD1 L122R-mutant SRMS comprises three coexisting tumor cell states (MYOD1-enriched progenitor-like, proliferative transition, and partially differentiated with reduced MYOD1 activity) reflecting disrupted myogenic differentiation.
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Has reproduction · 72
Neoadjuvant sintilimab plus chemotherapy in EGFR-mutant NSCLC: Phase 2 trial interim results (NEOTIDE/CTONG2104).
PMID 38897205 · PMC11293361 · Cell reports. Medicine · 2024 · 8 claims · 8 setups
Neoadjuvant sintilimab plus carboplatin/nab-paclitaxel is clinically feasible and tolerable in resectable EGFR-mutant NSCLC, with all 18 patients completing treatment and undergoing radical surgery.
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Has reproduction
DNA demethylation is associated with malignant progression of lower-grade gliomas.
PMID 30760837 · PMC6374451 · Scientific reports · 2019 · 8 claims · 8 setups
Nearly half of IDH-mutant glioblastomas that progressed from lower-grade gliomas show characteristic partial DNA demethylation in previously methylated (G-CIMP) genomic regions of their initial tumor.
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Has reproduction · 100
DeepRNA-Reg: a deep-learning based approach for comparative analysis of CLIP experiments.
PMID 41055236 · PMC12505516 · RNA biology · 2025 · 7 claims · 5 setups
DeepRNA-Reg, a recurrent neural network-based algorithm, predicts differentially enriched sites in paired HITS-CLIP datasets and outperforms dCLIP 1.7.
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Has reproduction · 97
Polyploidy-associated paramutation in Arabidopsis is determined by small RNAs, temperature, and allele structure.
PMID 33690630 · PMC7978347 · PLoS genetics · 2021 · 8 claims · 4 setups
Active (R) and silent (S) epialleles are associated with distinct sRNA size classes: mainly 21 nt sRNAs at R and mostly 24 nt sRNAs at S, regardless of ploidy.
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Has reproduction · 64
Starvation-induced transgenerational inheritance of small RNAs in C. elegans.
PMID 25018105 · PMC4377509 · Cell · 2014 · 8 claims · 7 setups
L1 starvation induces changes in endogenous 22G small RNAs (STGs) that are inherited for at least three generations in fed descendants.
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Full-text index only
Identification of RNA-Binding Protein Targets with HyperTRIBE in Saccharomyces cerevisiae.
PMID 37240377 · PMC10218906 · International journal of molecular sciences · 2023 · 7 claims · 8 setups
HyperTRIBE was successfully established in S. cerevisiae by fusing an RBP to the hyper-active catalytic domain of human ADAR2 (E488Q), marking target transcripts with A-to-G editing events detectable by high-throughput sequencing
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Has reproduction · 84
Expression Atlas update--a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments.
PMID 24304889 · PMC3964963 · Nucleic acids research · 2014 · 8 claims · 6 setups
Expression Atlas is a value-added database providing gene, protein and splice variant expression across cell types, organism parts, developmental stages, diseases and other biological/experimental conditions, built from manually curated high-quality microarray and RNA-sequencing experiments from ArrayExpress.
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Has reproduction · 88
Transcriptome-wide analyses of piRNA binding sites suggest distinct mechanisms regulate piRNA binding and silencing in C. elegans.
PMID 36737102 · PMC10158993 · RNA (New York, N.Y.) · 2023 · 8 claims · 7 setups
C. elegans piRNAs preferentially bind the coding regions (CDS) of target mRNAs in vivo, rather than 3' UTRs.
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Has reproduction · 78
Spns1-dependent endocardial lysosomal function drives valve morphogenesis through Notch1-signaling.
PMID 39720516 · PMC11667069 · iScience · 2024 · 7 claims · 8 setups
Autophagosomal, autolysosomal, and lysosomal vesicles significantly accumulate in the atrioventricular canal (AVC) and outflow tract (OFT)/bulboventricular regions and their developing valves during zebrafish heart development.
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Has reproduction · 50
Patient-Derived Meningioma Organoids: A Reliable Model for Studying Human Tumor Pathophysiology.
PMID 39941893 · PMC11817449 · Cancers · 2025 · 8 claims · 7 setups
A standardized, reproducible protocol can establish meningioma organoids (MEN-Os) from patient-resected tumor tissue without mechanical/enzymatic dissociation, using serum-free medium lacking growth factors or exogenous ECM.
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Has reproduction · 30
Genomic and transcriptomic plasticity in treatment-naive ovarian cancer.
PMID 24221193 · PMC3912411 · Genome research · 2014 · 8 claims · 8 setups
Treatment-naïve epithelial ovarian cancers show extensive intra-tumor heterogeneity of genomic rearrangements, with the most substantial differences occurring between omentum/peritoneum metastases and ovarian tumor sites.