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 · 50
Genetic parallels in biomineralization of the calcareous sponge Sycon ciliatum and stony corals.
PMID 40922549 · PMC12419799 · eLife · 2025 · 8 claims · 8 setups
829 genes are overexpressed in the oscular region of increased calcite spicule formation in S. ciliatum
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Has reproduction · 23
Partial correlation network analysis identifies coordinated gene expression within a regional cluster of COPD genome-wide association signals.
PMID 39418301 · PMC11521246 · PLoS computational biology · 2024 · 7 claims · 4 setups
COPD GWAS loci are more spatially clustered across the genome than expected by chance, with significant enrichment on chromosome 4q.
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Has reproduction · 84
Tbx5 drives Aldh1a2 expression to regulate a RA-Hedgehog-Wnt gene regulatory network coordinating cardiopulmonary development.
PMID 34643182 · PMC8555986 · eLife · 2021 · 8 claims · 8 setups
Tbx5 directly maintains Aldh1a2 expression in the foregut lateral plate mesoderm/pSHF via an evolutionarily conserved intronic enhancer.
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Has reproduction · 100
Charting and probing the activity of ADARs in human development and cell-fate specification.
PMID 39537590 · PMC11561244 · Nature communications · 2024 · 8 claims · 7 setups
RNA editing (AEI) and ADAR enzyme expression follow tissue-specific temporal dynamics across human organs from fetal to adult stages, with ADARB1 dynamics tracking AEI increase in hindbrain development.
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Identification and recovery of minor HIV-1 variants using the heteroduplex tracking assay and biotinylated probes.
PMID 18948297 · PMC2602764 · Nucleic acids research · 2008 · 6 claims · 8 setups
Incorporating a biotin tag into the HTA probe enables purification of labeled heteroduplexes and direct sequencing of the separated query strand, allowing recovery of minor variant sequences
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Has reproduction · 62
E3RC: A step-by-step computational protocol for exploring enhancer RNA expression and regulation using conventional RNA-seq data.
PMID 40716058 · PMC12318280 · STAR protocols · 2025 · 6 claims · 3 setups
E3RC is a computational framework for identifying and quantifying eRNAs and characterizing their expression and transcriptional regulation using conventional RNA-seq data.
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Has reproduction · 50
Metabolic features that select for Bathyarchaeia in modern ferruginous lacustrine subsurface sediments.
PMID 39660009 · PMC11631310 · ISME communications · 2024 · 8 claims · 8 setups
Microbial assemblages shift with depth from iron- and sulfate-reducing bacteria to fermentative anaerobes and methanogens, with Bathyarchaeia selected below the sulfate reduction zone as cell densities exponentially decrease
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Has reproduction · 50
Polymorphism identification and improved genome annotation of Brassica rapa through Deep RNA sequencing.
PMID 25122667 · PMC4232532 · G3 (Bethesda, Md.) · 2014 · 8 claims · 8 setups
330,995 SNPs were identified in transcribed regions between B. rapa genotypes R500 and IMB211, at an average frequency of one SNP per 200 bases.
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Has reproduction · 68
Revealing an unexpectedly low electron injection threshold via reinforced shock acceleration.
PMID 39805850 · PMC11730962 · Nature communications · 2025 · 8 claims · 4 setups
A reinforced shock acceleration model combining foreshock transients, wave-particle interactions, and variable stellar wind conditions operating across multiple scales enables electrons to consistently reach relativistic energies
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Has reproduction · 10
Gli1-expressing stromal cells are highly reparative precursors of long-lived chondroprogenitors in the fetal murine limb.
PMID 41253754 · PMC12627582 · Nature communications · 2025 · 7 claims · 8 setups
Fetal Gli1+ cells (including cells outside the cartilage) are the precursors of postnatal long-lived chondroprogenitors and give rise to most growth-plate chondrocytes juvenile/adult.
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Has reproduction · 91
Cotranscriptional RNA strand exchange underlies the gene regulation mechanism in a purine-sensing transcriptional riboswitch.
PMID 35348734 · PMC9756952 · Nucleic acids research · 2022 · 7 claims · 6 setups
A nascent intermediate central helix forms in the yxjA riboswitch that is mutually exclusive with both the aptamer's P1 helix and the expression platform's intrinsic terminator hairpin.
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Has reproduction · 50
Ancient gene duplicates in Gossypium (cotton) exhibit near-complete expression divergence.
PMID 24558256 · PMC3971588 · Genome biology and evolution · 2014 · 8 claims · 8 setups
Nearly all (99.4%) ancient paralog pairs in Gossypium raimondii are differentially expressed in at least one of three tissues (petal, leaf, seed), indicating massive, near-complete expression-level divergence.
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Has reproduction · 59
Cell-Type-Specific Gene Modules Related to the Regional Homogeneity of Spontaneous Brain Activity and Their Associations With Common Brain Disorders.
PMID 33958982 · PMC8093778 · Frontiers in neuroscience · 2021 · 7 claims · 8 setups
Fourteen gene modules were consistently associated with ReHo across three independent fMRI datasets.
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Has reproduction · 78
Protocol for the generation of single-nuclei RNA-seq libraries and quantification of heterogeneous cell types activated during social interaction.
PMID 39423127 · PMC11532268 · STAR protocols · 2024 · 7 claims · 5 setups
A protocol for dissecting mouse PFC, hippocampus, and cerebellum and generating snRNA-seq libraries can identify neuronal populations activated during social interaction.
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Mutation analysis in primary immunodeficiency diseases: case studies.
PMID 19841577 · PMC2774237 · Current opinion in allergy and clinical immunology · 2009 · 8 claims · 8 setups
Genomic DNA Sanger sequencing is the standard first-line approach for identifying PIDD-causing mutations but has limitations that can yield false-negative or false-positive results