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 20

System / cell line: pcr ✕ Assay: threshold ✕ Clear

Autoimmune disease in a DFNA6/14/38 family carrying a novel missense mutation in WFS1.

PMID 18688868 · PMC2586182 · American journal of medical genetics. Part A · 2008 · 8 claims · 5 setups

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A novel missense mutation c.2576G→A (p.R859Q) in WFS1 exon 8 causes autosomal dominant LFSNHL in this American family

genomic wfs1 ceph affected pcr sanger population
Frequency of common HFE variants in the Saudi population: a high throughput molecular beacon-based study.

PMID 16672055 · PMC1468397 · BMC medical genetics · 2006 · 6 claims · 5 setups

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Molecular beacon-based real-time PCR assays for p.C282Y and p.H63D achieve complete genotype concordance with restriction enzyme digestion and direct sequencing

genomic anonymized dried pcr-restriction direct molecular
iMapper: a web application for the automated analysis and mapping of insertional mutagenesis sequence data against Ensembl genomes.

PMID 18974167 · PMC2639305 · Bioinformatics (Oxford, England) · 2008 · 6 claims · 3 setups

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iMapper is a web application for automated analysis and mapping of insertional mutagenesis sequence data against vertebrate and invertebrate Ensembl genomes (human, mouse, rat, zebrafish, Drosophila, S. cerevisiae).

piggybac splinkerette-pcr-derived sequence splinkerette genome throughput
A method for accurate detection of genomic microdeletions using real-time quantitative PCR.

PMID 16351727 · PMC1327677 · BMC genomics · 2005 · 8 claims · 5 setups

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A qPCR method using unique-sequence primers can reproducibly detect chromosomal microdeletions and microduplications

genomic genome pcr real-time fluorescence sequence
Statistical analysis of real-time PCR data.

PMID 16504059 · PMC1395339 · BMC bioinformatics · 2006 · 8 claims · 2 setups

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Four statistical models (multiple regression, ANCOVA, t-test, Wilcoxon test) were developed to estimate ΔΔCt with associated significance/confidence intervals

real-time linear
In vivo antiviral host transcriptional response to SARS-CoV-2 by viral load, sex, and age.

PMID 32898168 · PMC7478592 · PLoS biology · 2020 · 8 claims · 6 setups

Has reproduction · 89

SARS-CoV-2 infection induces a strong interferon-mediated antiviral response in the nasopharynx, up-regulating antiviral factors (OAS1-3, IFIT1-3, MX2, RSAD2, HERC5) and Th1 chemokines CXCL9/10/11, while down-regulating ribosomal protein transcripts.

nasopharyngeal airway patient-matched swab shotgun bulk rt-pcr
Expression of p73, a novel protein related to the p53 tumour suppressor p53, and apoptosis in cholangiocellular carcinoma of the liver.

PMID 10362118 · PMC2363034 · British journal of cancer · 1999 · 7 claims · 6 setups

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p73 protein is expressed (nuclear immunostaining) in a substantial subset of cholangiocellular carcinomas

cholangiocellular ccc lysates immunohistochemistry direct western
Identification and characterization of HLA-A*0301 epitopes in HIV-1 gag proteins using a novel approach.

PMID 19903485 · PMC2836169 · Journal of immunological methods · 2010 · 7 claims · 7 setups

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PS mutations V7I and I34L (p17) and K403R (p7) in HIV-1 gag significantly correlate with HLA-A*0301

hiv-1-infected genomic hiv-1 hla-a*0301 statistical pcr gag
Gene signature discovery and systematic validation across diverse clinical cohorts for TB prognosis and response to treatment.

PMID 37471455 · PMC10393163 · PLoS computational biology · 2023 · 8 claims · 7 setups

Has reproduction · 100

A network-based meta-analysis of 27 discovery cohorts identified a common 45-gene signature specific to active TB disease across studies.

blood aggregated 45-gene independent bulk network-based gene
Comparative gene finding in chicken indicates that we are closing in on the set of multi-exonic widely expressed human genes.

PMID 15809229 · PMC1074396 · Nucleic acids research · 2005 · 8 claims · 6 setups

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Comparative gene finding (SGP2) between human and chicken, followed by RT-PCR verification, adds at most ~0.2% new genes to the multi-exonic human gene catalog

chicken predicted human-chicken cdna comparative blastp pairwise
Reusable building blocks in biological systems.

PMID 30958230 · PMC6303794 · Journal of the Royal Society, Interface · 2018 · 8 claims · 5 setups

Has reproduction · 82

Biological systems can be decomposed into phenotypic building blocks (PBBs) whose reusability ranges from single-use (condition-specific) to constitutive

tissues mirna randomized est-based quantitative computational
A novel mutation in the WFS1 gene identified in a Taiwanese family with low-frequency hearing impairment.

PMID 17517145 · PMC1890544 · BMC medical genetics · 2007 · 7 claims · 6 setups

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A novel heterozygous missense mutation Y669H (2005T>C) in exon 8 of WFS1 was identified in affected family members but not in 100 controls (200 chromosomes)

family genomic 10-member wfs1 pure direct pcr-rflp
Are gene expression microarray analyses reliable? A review of studies of retinoic acid responsive genes.

PMID 15626329 · PMC5171945 · Genomics, proteomics & bioinformatics · 2003 · 6 claims · 8 setups

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Published microarray studies aiming to identify RA-responsive genes show substantial, often contradictory, differences in results across research groups.

nb4 tf1 tracheobronchial moser affymetrix cdna microarray
Transcriptome profiling of Giardia intestinalis using strand-specific RNA-seq.

PMID 23555231 · PMC3610916 · PLoS computational biology · 2013 · 8 claims · 8 setups

Has reproduction · 74

Most of the G. intestinalis genome is transcribed in in vitro-grown trophozoites, but at vastly different expression levels.

intestinalis same rna-seq strand-specific technical reverse
The RHNumtS compilation: features and bioinformatics approaches to locate and quantify Human NumtS.

PMID 18522722 · PMC2447851 · BMC genomics · 2008 · 8 claims · 4 setups

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A consensus Reference Human NumtS compilation (RHNumtS) was produced by comparing Blastn, MegaBlast and BLAT results with previously published compilations.

genome genomic blastn megablast blat
RNA-sequence analysis of primary alveolar macrophages after in vitro infection with porcine reproductive and respiratory syndrome virus strains of differing virulence.

PMID 24643046 · PMC3958415 · PloS one · 2014 · 8 claims · 8 setups

Has reproduction · 41

Infection of PAMs with either LV or Lena affects signaling pathways directly linked to the innate immune response, including IRF activation, RIG1-like receptors, TLRs and PKR pathways.

pulmonary prrsv-infected lena-infected 3-week-old rna-seq immunoperoxidase quantitative
A role of SCN9A in human epilepsies, as a cause of febrile seizures and as a potential modifier of Dravet syndrome.

PMID 19763161 · PMC2730533 · PLoS genetics · 2009 · 7 claims · 8 setups

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A heterozygous SCN9A missense mutation (p.N641Y) cosegregates with febrile seizures in the large K4425 family and is absent from ethnically matched population controls

family k4425 embryonic scn9a-n641y linkage copy deletion
Characterization of a new full length TMPRSS3 isoform and identification of mutant alleles responsible for nonsyndromic recessive deafness in Newfoundland and Pakistan.

PMID 15447792 · PMC523852 · BMC medical genetics · 2004 · 8 claims · 8 setups

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TMPRSS3 mutations were identified in four additional Pakistani families with recessive, nonsyndromic congenital deafness co-segregating with DFNB8/B10 haplotypes

pakistani affected retina tissues linkage sanger race
Adaptive optics scanning laser ophthalmoscopy images in a family with the mitochondrial DNA T8993C mutation.

PMID 18997096 · PMC4836613 · Investigative ophthalmology & visual science · 2009 · 7 claims · 8 setups

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High T8993C mutant load (>77%) is associated with severe neurologic and/or retinal abnormalities, while low mutant load (42-54%) causes no detectable abnormalities.

retina blood visual adaptive real-time genetic
Rapid detection of ERG11 gene mutations in clinical Candida albicans isolates with reduced susceptibility to fluconazole by rolling circle amplification and DNA sequencing.

PMID 19682357 · PMC2782262 · BMC microbiology · 2009 · 8 claims · 5 setups

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The RCA assay correctly identified all ERG11 mutations in eight 'reference' azole-resistant C. albicans isolates with known mutations.

clinical pcr template padlock sequencing antifungal

Experiments

Autoimmune disease in a DFNA6/14/38 family carrying a novel missense mutation in WFS1.

Frequency of common HFE variants in the Saudi population: a high throughput molecular beacon-based study.

iMapper: a web application for the automated analysis and mapping of insertional mutagenesis sequence data against Ensembl genomes.

A method for accurate detection of genomic microdeletions using real-time quantitative PCR.

Statistical analysis of real-time PCR data.

In vivo antiviral host transcriptional response to SARS-CoV-2 by viral load, sex, and age.

Expression of p73, a novel protein related to the p53 tumour suppressor p53, and apoptosis in cholangiocellular carcinoma of the liver.

Identification and characterization of HLA-A*0301 epitopes in HIV-1 gag proteins using a novel approach.

Gene signature discovery and systematic validation across diverse clinical cohorts for TB prognosis and response to treatment.

Comparative gene finding in chicken indicates that we are closing in on the set of multi-exonic widely expressed human genes.

Reusable building blocks in biological systems.

A novel mutation in the WFS1 gene identified in a Taiwanese family with low-frequency hearing impairment.

Are gene expression microarray analyses reliable? A review of studies of retinoic acid responsive genes.

Transcriptome profiling of Giardia intestinalis using strand-specific RNA-seq.

The RHNumtS compilation: features and bioinformatics approaches to locate and quantify Human NumtS.

RNA-sequence analysis of primary alveolar macrophages after in vitro infection with porcine reproductive and respiratory syndrome virus strains of differing virulence.

A role of SCN9A in human epilepsies, as a cause of febrile seizures and as a potential modifier of Dravet syndrome.

Characterization of a new full length TMPRSS3 isoform and identification of mutant alleles responsible for nonsyndromic recessive deafness in Newfoundland and Pakistan.

Adaptive optics scanning laser ophthalmoscopy images in a family with the mitochondrial DNA T8993C mutation.

Rapid detection of ERG11 gene mutations in clinical Candida albicans isolates with reduced susceptibility to fluconazole by rolling circle amplification and DNA sequencing.