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 61

Assay: sensitive ✕ Clear

Target cell APOBEC3C can induce limited G-to-A mutation in HIV-1.

PMID 17967058 · PMC2042017 · PLoS pathogens · 2007 · 8 claims · 8 setups

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APOBEC3C is necessary and sufficient to induce G-to-A mutation in some HIV-1 strains despite Vif expression

magi pbmc 293t supt1 sensitive rt-pcr western
Mutation analysis of SDHB and SDHC: novel germline mutations in sporadic head and neck paraganglioma and familial paraganglioma and/or pheochromocytoma.

PMID 16405730 · PMC1343542 · BMC medical genetics · 2006 · 8 claims · 4 setups

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Germline mutations of SDHB and SDHC play a minor role in sporadic head and neck paraganglioma

peripheral genomic ebv-transformed conformation pira-pcr rt-pcr
Recovery of bisulfite-converted genomic sequences in the methylation-sensitive QPCR.

PMID 17439964 · PMC1888819 · Nucleic acids research · 2007 · 8 claims · 7 setups

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Bisulfite treatment causes DNA strand breakage (via abasic site formation and beta-elimination) in addition to cytosine deamination.

genomic synthetic bisulfite-treated cloned methylation-sensitive quantitative gel
Mutation analysis of the AATF gene in breast cancer families.

PMID 20025740 · PMC2806411 · BMC cancer · 2009 · 6 claims · 6 setups

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No AATF sequence alteration identified was predicted to be pathogenic or showed significant association with breast cancer risk

genomic showing aatf case conformation direct pathogenicity
Expression of neurofibromin 1 in colorectal cancer and cetuximab resistance.

PMID 34779495 · PMC8611403 · Oncology reports · 2022 · 8 claims · 8 setups

Has reproduction · 73

NF1 is highly expressed in cetuximab-sensitive CRC cell lines and minimally expressed in cetuximab-resistant ones

crc cetuximab-sensitive sirna ffpe western growth colony
Rapid detection, cloning and molecular cytogenetic characterisation of sequences from an MRP-encoding amplicon by chromosome microdissection.

PMID 8018546 · PMC2033297 · British journal of cancer · 1994 · 7 claims · 6 setups

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Chromosome microdissection can be used to rapidly detect, clone and cytogenetically characterise amplified sequences from hsrs/dmins in drug-resistant cells

ht1080 normal h69ar hsr micro-fish chromosome southern
Disturbed interaction of p21-rac with mutated p67-phox causes chronic granulomatous disease.

PMID 8879195 · PMC2192830 · The Journal of experimental medicine · 1996 · 6 claims · 8 setups

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The patient is a compound heterozygote for a p67-phox gene mutation: an in-frame deletion of lysine 58 on one allele and an 11-13 kb genomic deletion on the other allele.

granulocytes granulocyte mononuclear leukocyte nbt cell-free western
Autoantibody profiling for the study and treatment of autoimmune disease.

PMID 12223102 · PMC128938 · Arthritis research · 2002 · 8 claims · 8 setups

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Custom-fabricated antigen microarrays (spotted on poly-L-lysine-coated glass slides) enable multiplex profiling of autoantibody responses in autoimmune disease sera.

serum antigen-antibody antigens fetal spotted elisa microarray
Mutation analysis of the ATR gene in breast and ovarian cancer families.

PMID 15987455 · PMC1175065 · Breast cancer research : BCR · 2005 · 8 claims · 5 setups

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ATR mediates the DNA damage response by phosphorylating tumor suppressors such as p53, BRCA1 and CHK1, making it a plausible candidate breast/ovarian cancer susceptibility gene

index atr variant mutation direct variant
Microarray-based DNA methylation profiling: technology and applications.

PMID 16428248 · PMC1345696 · Nucleic acids research · 2006 · 7 claims · 6 setups

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A microarray-based method enriching unmethylated and methylated DNA fractions via methylation-sensitive restriction enzymes followed by hybridization enables high-throughput DNA methylation profiling of large genomic regions.

genomic postmortem ligated custom cpg tiling
Genomic diversity among drug sensitive and multidrug resistant isolates of Mycobacterium tuberculosis with identical DNA fingerprints.

PMID 19823582 · PMC2756628 · PloS one · 2009 · 8 claims · 8 setups

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M. tuberculosis isolates with identical DNA fingerprints can harbour substantial genomic diversity at the whole-genome level

tuberculosis whole-genome is6110 spoligotyping
Somatic mutations of KIT in familial testicular germ cell tumours.

PMID 15150569 · PMC2410291 · British journal of cancer · 2004 · 6 claims · 3 setups

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No germline KIT mutations were found in constitutional DNA from 240 familial TGCT pedigrees

blood ffpe familial csge direct contingency
Policy implications of genetic information on regulation under the Clean Air Act: the case of particulate matter and asthmatics.

PMID 16507451 · PMC1392222 · Environmental health perspectives · 2006 · 8 claims · 4 setups

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The Clean Air Act mandates protection of sensitive subpopulations, including asthmatics, from air pollution health effects, creating an opening for genetic susceptibility data in regulation.

u.s epa asthma asthmatic statutory regulatory literature
A genetically hard-wired metabolic transcriptome in Plasmodium falciparum fails to mount protective responses to lethal antifolates.

PMID 19023412 · PMC2581438 · PLoS pathogens · 2008 · 7 claims · 5 setups

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WR99210 treatment does not overproduce protective levels of DHFR-TS RNA, the gene's principal target

falciparum microarray qrt-pcr clonal
A mechanistic model captures the emergence and implications of non-genetic heterogeneity and reversible drug resistance in ER+ breast cancer cells.

PMID 34316714 · PMC8271219 · NAR cancer · 2021 · 7 claims · 8 setups

Has reproduction · 85

EMT and tamoxifen-resistance (TamR) regulatory axes can drive one another, enabling non-genetic heterogeneity via six co-existing phenotypes (ES, ER, HS, HR, MS, MR)

gene same randomized publicly racipe stochastic randomized
Evaluation of NTHL1, NEIL1, NEIL2, MPG, TDG, UNG and SMUG1 genes in familial colorectal cancer predisposition.

PMID 17029639 · PMC1624846 · BMC cancer · 2006 · 6 claims · 4 setups

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Coding sequences and intron-exon boundaries of NTHL1, NEIL1, NEIL2, MPG, TDG, UNG and SMUG1 were screened in 94 familial CRC cases with known genes excluded

genomic predicted archival mutation targeted functional
CellFishing.jl: an ultrafast and scalable cell search method for single-cell RNA sequencing.

PMID 30744683 · PMC6371477 · Genome biology · 2019 · 8 claims · 8 setups

Has reproduction · 97

CellFishing.jl searches prebuilt databases for cells with similar expression patterns with high accuracy and throughput using locality-sensitive hashing.

baron2016 shekhar2016 plass2018 tabulamuris scrna-seq benchmarking self-mapping
Improved eukaryotic detection compatible with large-scale automated analysis of metagenomes.

PMID 37032329 · PMC10084625 · Microbiome · 2023 · 8 claims · 7 setups

Has reproduction · 89

MAPQ ≥30 filtering improves precision but substantially reduces recall, especially for unrepresented/divergent eukaryotic taxa

eukdetect simulated zymobiomics read holdout mutation-rate
Physiology engages with functional genomics - at last.

PMID 16086845 · PMC1273626 · Genome biology · 2005 · 8 claims · 8 setups

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Large-scale QTL phenotyping in rat strains reveals that most hypertension-related traits are sexually dimorphic

wild-type caenorhabditis kidney pcr qtl enu copas
Alterations in candidate genes PHF2, FANCC, PTCH1 and XPA at chromosomal 9q22.3 region: pathological significance in early- and late-onset breast carcinoma.

PMID 18990233 · PMC2633285 · Molecular cancer · 2008 · 8 claims · 5 setups

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PHF2, FANCC and PTCH1 show high frequency of alterations (deletion/methylation) compared to XPA in both early- and late-onset breast carcinoma groups

invasive breast normal microsatellite methylation sscp

Experiments

Target cell APOBEC3C can induce limited G-to-A mutation in HIV-1.

Mutation analysis of SDHB and SDHC: novel germline mutations in sporadic head and neck paraganglioma and familial paraganglioma and/or pheochromocytoma.

Recovery of bisulfite-converted genomic sequences in the methylation-sensitive QPCR.

Mutation analysis of the AATF gene in breast cancer families.

Expression of neurofibromin 1 in colorectal cancer and cetuximab resistance.

Rapid detection, cloning and molecular cytogenetic characterisation of sequences from an MRP-encoding amplicon by chromosome microdissection.

Disturbed interaction of p21-rac with mutated p67-phox causes chronic granulomatous disease.

Autoantibody profiling for the study and treatment of autoimmune disease.

Mutation analysis of the ATR gene in breast and ovarian cancer families.

Microarray-based DNA methylation profiling: technology and applications.

Genomic diversity among drug sensitive and multidrug resistant isolates of Mycobacterium tuberculosis with identical DNA fingerprints.

Somatic mutations of KIT in familial testicular germ cell tumours.

Policy implications of genetic information on regulation under the Clean Air Act: the case of particulate matter and asthmatics.

A genetically hard-wired metabolic transcriptome in Plasmodium falciparum fails to mount protective responses to lethal antifolates.

A mechanistic model captures the emergence and implications of non-genetic heterogeneity and reversible drug resistance in ER+ breast cancer cells.

Evaluation of NTHL1, NEIL1, NEIL2, MPG, TDG, UNG and SMUG1 genes in familial colorectal cancer predisposition.

CellFishing.jl: an ultrafast and scalable cell search method for single-cell RNA sequencing.

Improved eukaryotic detection compatible with large-scale automated analysis of metagenomes.

Physiology engages with functional genomics - at last.

Alterations in candidate genes PHF2, FANCC, PTCH1 and XPA at chromosomal 9q22.3 region: pathological significance in early- and late-onset breast carcinoma.