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 · 58
Genomic Correlates of Virulence Attenuation in the Deadly Amphibian Chytrid Fungus, Batrachochytrium dendrobatidis.
PMID 26333840 · PMC4632049 · G3 (Bethesda, Md.) · 2015 · 8 claims · 8 setups
Virulence attenuation in the longer-passaged Bd isolate (JEL427-P39) is associated with loss of chromosome copy number relative to the shorter-passaged, more virulent isolate (JEL427-P9)
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Has reproduction · 76
The genome and development-dependent transcriptomes of Pyronema confluens: a window into fungal evolution.
PMID 24068976 · PMC3778014 · PLoS genetics · 2013 · 8 claims · 8 setups
The 50 Mb P. confluens genome with 13,369 predicted protein-coding genes is more characteristic of higher filamentous ascomycetes than of the large, repeat-rich Tuber melanosporum genome, showing that the truffle's expanded genome is not typical of the Pezizales.
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Assembly, Characterization and Comparative Analysis of the Complete Mitogenome of Small-Leaved Eriobotrya seguinii (Maleae, Rosaceae).
PMID 41595526 · PMC12841229 · Genes · 2026 · 8 claims · 7 setups
The E. seguinii mitogenome is the smallest and has the highest GC content of any known Eriobotrya species
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Gene expression study on peripheral blood identifies progranulin mutations.
PMID 18551524 · PMC2773201 · Annals of neurology · 2008 · 7 claims · 3 setups
PGRN is highly expressed in peripheral blood (97th percentile of all array genes)
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An Improved Chromosome-Level Genome Assembly and Comprehensive Annotation of the Model Ascidian Ciona savignyi.
PMID 41792167 · PMC13087180 · Scientific data · 2026 · 8 claims · 8 setups
An improved chromosome-level genome assembly of C. savignyi was generated using Illumina short reads, ONT long reads, and Hi-C data.
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Has reproduction · 49
Insights into the differentiation and adaptation within Circaeasteraceae from Circaeaster agrestis genome sequencing and resequencing.
PMID 36895650 · PMC9988679 · iScience · 2023 · 8 claims · 8 setups
C. agrestis and K. uniflora are sister species with contrasting reproductive modes, providing a natural system to test effects of sexual vs asexual reproduction on genome evolution
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The Chromosome-Scale Genome Assembly of the Redlip Blenny, Ophioblennius macclurei (Blenniidae).
PMID 41378738 · PMC12758960 · Genome biology and evolution · 2026 · 8 claims · 12 setups
A chromosome-scale genome assembly of O. macclurei was generated (529.6 Mb, scaffold N50 23.7 Mb, GC 43.49%) using ONT long reads, Illumina short reads, and Hi-C scaffolding.
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Benchmarking methods for genome annotation using nanopore direct RNA in a non-model crop plant.
PMID 41800382 · PMC12967217 · Bioinformatics advances · 2026 · 6 claims · 8 setups
Annotation tools show substantial variation in isoform detection, structural completeness, splicing classification, and handling of 5' read truncation when applied to plant dRNA-seq data.
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Genomic diversity and evolution of Mycobacterium ulcerans revealed by next-generation sequencing.
PMID 19806175 · PMC2736377 · PLoS pathogens · 2009 · 8 claims · 6 setups
Genome sequencing of three M. ulcerans strains (NM20/02, NM31/04, Jp8756) identified thousands of SNPs relative to reference strain Agy99
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Has reproduction · 89
DFAST and DAGA: web-based integrated genome annotation tools and resources.
PMID 27867804 · PMC5107635 · Bioscience of microbiota, food and health · 2016 · 8 claims · 7 setups
DFAST is a web-based genome annotation pipeline with integrated quality assessment (CheckM) and taxonomic assessment (ANI) that produces DDBJ submission-ready files
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Genome evolution and regulatory dynamics underlying salt stress tolerance in the halophyte Halogeton arachnoideus.
PMID 41803406 · PMC13103082 · Communications biology · 2026 · 8 claims · 8 setups
A high-quality, chromosome-scale genome assembly of H. arachnoideus was generated using PacBio HiFi and Hi-C sequencing.
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Efficacy assessment of SNP sets for genome-wide disease association studies.
PMID 17726055 · PMC2034459 · Nucleic acids research · 2007 · 6 claims · 4 setups
τ, derived from Shannon entropy and swept radius ɛ, approximates the relative sample size efficiency of a marker set for mapping a causal variant at a given map position compared to a maximally polymorphic SNP
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Chromosome-Level Genome Assembly and Annotation of Piptanthus nepalensis (Hook.) Sweet.
PMID 41912568 · PMC13199499 · Scientific data · 2026 · 7 claims · 8 setups
A chromosome-scale genome assembly of P. nepalensis was generated by integrating PacBio HiFi long reads, Illumina short reads, and Hi-C chromatin interaction data.
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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.