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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miRGen: a database for the study of animal microRNA genomic organization and function.
PMID 17108354 · PMC1669779 · Nucleic acids research · 2007 · 8 claims · 6 setups
miRGen is an integrated database combining Genomics, Targets, and Clusters interfaces to study miRNA genomic organization and function across 11 animal genomes
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Toxicogenomics: an emerging discipline.
PMID 12460812 · PMC1241126 · Environmental health perspectives · 2002 · 8 claims · 6 setups
Toxicogenomics applies genomic tools (microarrays, proteomics, metabolomics) to characterize how cells and organisms respond to chemical/drug exposures.
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Differentiating human from animal isolates of Cryptosporidium parvum.
PMID 9866750 · PMC2640237 · Emerging infectious diseases · 1998 · 7 claims · 5 setups
Two distinct genotypes of C. parvum (human/anthroponotic and bovine/zoonotic) exist, distinguishable by TRAP-C2 gene sequence differences at five nucleotide positions.
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Genomic and phenotypic variation in epidemic-spanning Salmonella enterica serovar Enteritidis isolates.
PMID 19922635 · PMC2784474 · BMC microbiology · 2009 · 8 claims · 6 setups
S. Enteritidis isolates show a high degree of genetic homogeneity/uniformity across typing methods and CGH despite geographic, temporal and source differences.
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Has reproduction · 85
Optimisation of the core subset for the APY approximation of genomic relationships.
PMID 36418945 · PMC9682752 · Genetics, selection, evolution : GSE · 2022 · 7 claims · 3 setups
APY approximates the full genomic relationship matrix by splitting genotyped animals into a core subset (fully dependent, direct inverse) and a non-core subset (conditionally independent given core), reducing inversion cost.
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Comparative genomic analysis reveals a novel mitochondrial isoform of human rTS protein and unusual phylogenetic distribution of the rTS gene.
PMID 16162288 · PMC1261261 · BMC genomics · 2005 · 8 claims · 5 setups
A novel rTS protein isoform, rTSγ, exists with a 27-residue longer N-terminus generated from an alternative upstream start codon relative to rTSβ.
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Including microbiome information in a multi-trait genomic evaluation: a case study on longitudinal growth performance in beef cattle.
PMID 38491422 · PMC10943865 · Genetics, selection, evolution : GSE · 2024 · 8 claims · 5 setups
The host genome's influence on the functional rumen microbiome contributes to temporal variation in average daily gain (ADG1-ADG4) across finishing months in beef cattle.
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Genome structure in the vole bacillus, Mycobacterium microti, a member of the Mycobacterium tuberculosis complex with a low virulence for humans.
PMID 15133113 · PMC2964484 · Microbiology (Reading, England) · 2004 · 8 claims · 3 setups
Compared to M. tuberculosis H37Rv, 13 distinct deleted regions were identified across 12 M. microti strains, including RD1–RD10 also missing in M. bovis BCG.
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Discovery-based science education: functional genomic dissection in Drosophila by undergraduate researchers.
PMID 15719063 · PMC548953 · PLoS biology · 2005 · 8 claims · 3 setups
Discovery-based genomics research can be integrated into an undergraduate curriculum, engaging large numbers of students in professional-quality research without compromising didactic training
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miRBase: tools for microRNA genomics.
PMID 17991681 · PMC2238936 · Nucleic acids research · 2008 · 8 claims · 6 setups
miRBase release 10.0 contains 5071 miRNA hairpin loci from 58 species, expressing 5922 distinct mature miRNA sequences, a growth of over 2000 sequences in 2 years
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Trans-natural antisense transcripts including noncoding RNAs in 10 species: implications for expression regulation.
PMID 18653530 · PMC2528163 · Nucleic acids research · 2008 · 8 claims · 7 setups
A new computational pipeline identifies trans-SAs using ESTs (not just mRNAs) across 10 animal species, improving coverage over prior methods
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Has reproduction · 83
SIRE 2.0: a novel method for estimating polygenic host effects underlying infectious disease transmission, and analytical expressions for prediction accuracies.
PMID 40169992 · PMC11963337 · Genetics, selection, evolution : GSE · 2025 · 8 claims · 2 setups
SIRE 2.0 is a novel Bayesian methodology and software tool for estimating polygenic contributions (variance components and additive genetic effects) to host susceptibility, infectivity and recoverability from temporal epidemic data using pedigree/genomic relationship matrices.
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The key role of genomics in modern vaccine and drug design for emerging infectious diseases.
PMID 19855822 · PMC2752168 · PLoS genetics · 2009 · 8 claims · 8 setups
Reverse vaccinology (in silico genome screening for surface/secreted proteins) can identify vaccine candidates far faster than conventional approaches, as demonstrated by the MenB project.
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Bioinformatics in Malaysia: hope, initiative, effort, reality, and challenges.
PMID 19714208 · PMC2723929 · PLoS computational biology · 2009 · 8 claims · 4 setups
Bioinformatics in Malaysia began informally in the early 1990s but its systematic development was curtailed by an early focus on the biotechnology industry, leaving gaps in human capital, research, and commercialization.