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).

Publications 1.3k Datasets 392.5k Experiments 312

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A small-cell lung cancer genome with complex signatures of tobacco exposure.

PMID 20016488 · PMC2880489 · Nature · 2010 · 8 claims · 7 setups

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22,910 somatic substitutions, including 132 in coding exons, were identified genome-wide in the NCI-H209 SCLC genome.

nci-h209 sclc lu-135 massively pcr multiplex
Tandem repeats modify the structure of human genes hosted in segmental duplications.

PMID 19954527 · PMC2812944 · Genome biology · 2009 · 8 claims · 6 setups

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Around 7% of primate-specific genes located within segmental duplications contain variable internal tandem repeats (ITRs).

genome genomic est paired genome-wide comparative cnv
Genetics of autistic disorders: review and clinical implications.

PMID 19941018 · PMC2839494 · European child & adolescent psychiatry · 2010 · 8 claims · 8 setups

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AD are predominantly genetically determined disorders with heritability of around 90%.

families individuals parietal post-mortem genome-wide candidate standard
Widespread dysregulation of MiRNAs by MYCN amplification and chromosomal imbalances in neuroblastoma: association of miRNA expression with survival.

PMID 19924232 · PMC2773120 · PloS one · 2009 · 8 claims · 5 setups

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37 miRNAs are significantly differentially expressed between MYCN-amplified (MNA) and non-MNA neuroblastoma tumors, suggesting direct or indirect regulation by MYCN

neuroblastoma shep-tet21 stem-loop array tlda
Patrocles: a database of polymorphic miRNA-mediated gene regulation in vertebrates.

PMID 19906729 · PMC2808989 · Nucleic acids research · 2010 · 8 claims · 6 setups

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Patrocles is a database compiling DSPs predicted to perturb miRNA-mediated gene regulation across seven vertebrate species, covering targets, miRNA precursors and silencing machinery.

3'-utr mirbase hapmap comparative snp mirna
Discovery of molecular subtypes in leiomyosarcoma through integrative molecular profiling.

PMID 19901961 · PMC2820592 · Oncogene · 2010 · 8 claims · 6 setups

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Unsupervised gene expression clustering identifies 3 reproducible molecular subtypes of LMS (Group I/muscle-enriched, Group II, Group III)

lms independent soft gene array immunohistochemistry
MEROPS: the peptidase database.

PMID 19892822 · PMC2808883 · Nucleic acids research · 2010 · 8 claims · 5 setups

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MEROPS is a manually curated hierarchical classification of peptidases and protein inhibitors organized into protein species, families, and clans based on sequence and structural homology.

archaean holotype c-x-c proteins comparative domain substrate
An integrative approach to reveal driver gene fusions from paired-end sequencing data in cancer.

PMID 19881495 · PMC3086882 · Nature biotechnology · 2009 · 8 claims · 8 setups

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A 'concept signature' (ConSig) score algorithm ranks genes by association with molecular concepts characteristic of fusion or mutation cancer genes, nominating biologically important fusions from large candidate sets.

lung known leukemia tumor paired-end computational snp
Preferential access to genetic information from endogenous hominin ancient DNA and accurate quantitative SNP-typing via SPEX.

PMID 19864251 · PMC2811011 · Nucleic acids research · 2010 · 7 claims · 8 setups

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SPEX-type approaches preferentially access genetic information from damaged, degraded endogenous ancient DNA templates over modern human contaminant DNA

iceman hb50 pe168 lq4 relative pcr spex
Search for genomic alterations in monozygotic twins discordant for cleft lip and/or palate.

PMID 19803774 · PMC2893889 · Twin research and human genetics : the official journal of the International Society for Twin Studies · 2009 · 7 claims · 5 setups

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Postzygotic genomic alterations are not a common cause of monozygotic twin discordance for isolated cleft lip and/or palate.

peripheral array custom snp
Exon deletions and intragenic insertions are not rare in ataxia with oculomotor apraxia 2.

PMID 19744353 · PMC2749023 · BMC medical genetics · 2009 · 8 claims · 6 setups

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Gross mutations (exon deletions and intragenic insertions) are a frequent, not rare, cause of AOA2

genomic peripheral setx sanger dosage long-range
The promise and reality of personal genomics.

PMID 19723346 · PMC2768970 · Genome biology · 2009 · 7 claims · 6 setups

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Despite being the most complete and accurate individually sequenced human genome to date, AK1 sequencing still misses a substantial fraction of variants, showing sequencing technology remains far from complete/reliable.

ak1 six whole-genome copy-number genotyping-based
Genomic and mutational profiling to assess clonal relationships between multiple non-small cell lung cancers.

PMID 19671847 · PMC2892178 · Clinical cancer research : an official journal of the American Association for Cancer Research · 2009 · 8 claims · 5 setups

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Genomic profiling by aCGH can distinguish clonal tumors from independent primaries with high confidence by identifying matching versus non-matching regions of allelic gain/loss.

fresh-frozen same banked resected array mutational pcr
High-throughput molecular analysis in lung cancer: insights into biology and potential clinical applications.

PMID 19648524 · PMC4648268 · The European respiratory journal · 2009 · 8 claims · 8 setups

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High-throughput -omics technologies have revolutionised understanding of lung cancer biology and hold promise for personalised management of lung cancer

tumour serum nsclc comparative snp methylation
PIK3CA alterations in Middle Eastern ovarian cancers.

PMID 19638206 · PMC2724395 · Molecular cancer · 2009 · 8 claims · 7 setups

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PIK3CA gene amplification is frequent in Middle Eastern EOC, found in 54/152 (35.5%) cases

eoc fluorescence pcr step-down
The Chromosome-Scale Genome Assembly of the Redlip Blenny, Ophioblennius macclurei (Blenniidae).

PMID 41378738 · PMC12758960 · Genome biology and evolution · 2026 · 8 claims · 12 setups

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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.

blood muscle tissues assembled oxford illumina hi-c
Diverse Cyanopeptides follow distinct temporal succession patterns in freshwater harmful algal blooms.

PMID 41711085 · PMC13196583 · The ISME journal · 2026 · 8 claims · 7 setups

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Shifts from Microcystis to Dolichospermum dominance occur later in the bloom season, coinciding with lower temperatures

natural lake microcystis western shotgun hrms metagenomic
The dynamic distribution of genetic tandem amplifications in a heteroresistant Escherichia coli population revealed by ultra-deep long read sequencing.

PMID 41760616 · PMC12953903 · Nature communications · 2026 · 8 claims · 6 setups

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Ultra-deep Nanopore sequencing of I-SceI-linearized plasmid DNA can detect and quantify full tandem amplification arrays at single-molecule resolution down to frequencies of 10^-5

coli ultra-deep short-read digital
pmid-41882239

PMID 41882239 · PMC13181027 · 8 claims · 7 setups

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Substantial intra-patient heterogeneity exists between GCPM and primary tumors at both genetic and functional (transcriptomic) levels

gastric wgs paired genes whole-genome whole-transcriptome mutational
pmid-41882801

PMID 41882801 · PMC13137713 · 8 claims · 4 setups

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Surplus TM feeding did not significantly affect overall microbial diversity (richness, phylogenetic diversity, evenness) in any sampled matrix

rumen pooled dietary 16s shotgun droplet

Experiments

A small-cell lung cancer genome with complex signatures of tobacco exposure.

Tandem repeats modify the structure of human genes hosted in segmental duplications.

Genetics of autistic disorders: review and clinical implications.

Widespread dysregulation of MiRNAs by MYCN amplification and chromosomal imbalances in neuroblastoma: association of miRNA expression with survival.

Patrocles: a database of polymorphic miRNA-mediated gene regulation in vertebrates.

Discovery of molecular subtypes in leiomyosarcoma through integrative molecular profiling.

MEROPS: the peptidase database.

An integrative approach to reveal driver gene fusions from paired-end sequencing data in cancer.

Preferential access to genetic information from endogenous hominin ancient DNA and accurate quantitative SNP-typing via SPEX.

Search for genomic alterations in monozygotic twins discordant for cleft lip and/or palate.

Exon deletions and intragenic insertions are not rare in ataxia with oculomotor apraxia 2.

The promise and reality of personal genomics.

Genomic and mutational profiling to assess clonal relationships between multiple non-small cell lung cancers.

High-throughput molecular analysis in lung cancer: insights into biology and potential clinical applications.

PIK3CA alterations in Middle Eastern ovarian cancers.

The Chromosome-Scale Genome Assembly of the Redlip Blenny, Ophioblennius macclurei (Blenniidae).

Diverse Cyanopeptides follow distinct temporal succession patterns in freshwater harmful algal blooms.

The dynamic distribution of genetic tandem amplifications in a heteroresistant Escherichia coli population revealed by ultra-deep long read sequencing.

pmid-41882239

pmid-41882801