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 4.8k

A big circuit model.

PMID 12940284 · PMC1316925 · Environmental health perspectives · 2003 · 8 claims · 8 setups

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In early prostate carcinogenesis, apoptosis signals are primarily suppressed rather than growth rate being increased.

prostate blood model genes microarray proteomic gene
Centromere-associated protein-E is essential for the mammalian mitotic checkpoint to prevent aneuploidy due to single chromosome loss.

PMID 12925705 · PMC2173788 · The Journal of cell biology · 2003 · 7 claims · 8 setups

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CENP-E-null cells cannot sustain a mitotic checkpoint arrest in response to one or a few unattached kinetochores, causing cells to enter anaphase with missegregating chromosomes and become aneuploid

embryonic mefs hepatocytes bubr1 real-time quantitative immunofluorescence
Recent segmental and gene duplications in the mouse genome.

PMID 12914656 · PMC193640 · Genome biology · 2003 · 8 claims · 8 setups

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33.6 Mb (1.2%) of the February 2003 mouse genome assembly (2,695 Mb) is involved in recent segmental duplications

genome gene ensembl-annotated chromosome pairwise gene blat
Assembling a jigsaw puzzle with 20,000 parts.

PMID 12801408 · PMC193613 · Genome biology · 2003 · 8 claims · 8 setups

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Re-routing the intracellular interaction domains of receptor tyrosine kinases can redirect their signaling output, e.g. converting a growth signal into an apoptosis signal.

yeast caenorhabditis escherichia proteome-wide microarray yeast rnai
A well-conserved Plasmodium falciparum var gene shows an unusual stage-specific transcript pattern.

PMID 12787360 · PMC2869446 · Molecular microbiology · 2003 · 8 claims · 8 setups

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Full-length var transcripts (detected by the complex var exon 2 probe) are present only in ring stages, not in pigmented trophozoites, across multiple parasite lines

falciparum red northern static rt-pcr
Genomic and proteomic profiling of responses to toxic metals in human lung cells.

PMID 12760830 · PMC1241504 · Environmental health perspectives · 2003 · 8 claims · 8 setups

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Toxic metals (Cd, Cr, Ni, As) each induce a largely distinct, metal-specific pattern of gene expression changes in BEAS-2B human bronchial epithelial cells

beas-2b cdna western kinetworks
A candidate metastasis-associated DNA marker for ductal mammary carcinoma.

PMID 12631399 · PMC154149 · Breast cancer research : BCR · 2003 · 8 claims · 8 setups

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RDA comparing normal and metastatic ductal breast carcinoma cell DNA identified 10 unique metastasis-associated DNA sequences (MADS) apparently lost in metastatic cells

microdissected h&e-stained metastatic cloned representational single laser
The application of basic science to translational cancer research.

PMID 12620114 · PMC151297 · Genome biology · 2003 · 8 claims · 8 setups

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Sister-chromatid separation at anaphase is triggered by degradation of securin, releasing the protease separase to cleave the cohesin ring holding chromatids together

yeast lamin tumor breast protease-cleavage rad53 brdu
From linear genome sequence to three-dimensional organization of the cell nucleus.

PMID 12620101 · PMC153456 · Genome biology · 2003 · 8 claims · 8 setups

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Chromosome conformation capture (3C) can quantify in vivo physical interaction frequencies between genomic loci by crosslinking, digestion, and intramolecular ligation followed by PCR

saccharomyces mitotic nucleoplasm hela chromosome translocation stretched
Defective DNA repair and increased genomic instability in Artemis-deficient murine cells.

PMID 12615897 · PMC2193825 · The Journal of experimental medicine · 2003 · 8 claims · 8 setups

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Artemis-deficient ES cells are severely impaired in VDJ coding joining but retain relatively normal RS (signal) joining

recombined southern rt-pcr colony
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
Leber's hereditary optic neuropathy--case report and literature review.

PMID 15692724 · PMC11126178 · Sao Paulo medical journal = Revista paulista de medicina · 2004 · 8 claims · 8 setups

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Genetic testing confirmed a homoplasmic G11778A mitochondrial DNA mutation in the patient, confirming the diagnosis of LHON

peripheral left optic visual pcr muscle visual
Application of proteomics in the study of tumor metastasis.

PMID 15862116 · PMC5172469 · Genomics, proteomics & bioinformatics · 2004 · 8 claims · 8 setups

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Cell function is directly regulated through proteins, not genes or mRNA, so metastasis-related gene findings need protein-level validation via proteomics.

young metastatic hepatocellular lines microarray 2de cdna
The truth about mouse, human, worms and yeast.

PMID 15601543 · PMC3525071 · Human genomics · 2004 · 8 claims · 8 setups

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Comparing genomes in pairs or larger sets (mouse-human, C. elegans-C. briggsae, multiple Saccharomyces, human-pufferfish, etc.) reveals unsuspected genes and helps eliminate false-positive gene predictions

mouse-human homo tetraodon region comparative est cross-species
Chromosomal phenotypes and submicroscopic abnormalities.

PMID 15601540 · PMC3525070 · Human genomics · 2004 · 8 claims · 8 setups

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Microdeletion syndromes are flanked by region-specific low-copy repeats (LCRs), and non-allelic homologous recombination (NAHR) between these LCRs, via interchromosomal or intrachromosomal mechanisms, causes the deletions.

patients parents vegf164 zebrafish breakpoint parental inversion
Development of an integrated genome informatics, data management and workflow infrastructure: a toolbox for the study of complex disease genetics.

PMID 15601538 · PMC3525068 · Human genomics · 2004 · 8 claims · 8 setups

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An integrated system combining Ensembl, ACeDB, Gbrowse and custom relational databases provides a scalable genome informatics and workflow infrastructure for complex disease gene discovery.

pcr candidate embl clinical snp manual homology
Neuronal Small RNAs Control Behavior Transgenerationally.

PMID 31178120 · PMC6579485 · Cell · 2019 · 8 claims · 8 setups

Has reproduction · 49

Neuron-specific synthesis of RDE-4-dependent small RNAs regulates germline amplified endogenous siRNAs and germline gene expression for multiple generations

elegans prab-3 dissected worms small sequencing facs
RNAseq analysis of the parasitic nematode Strongyloides stercoralis reveals divergent regulation of canonical dauer pathways.

PMID 23145190 · PMC3493385 · PLoS neglected tropical diseases · 2012 · 8 claims · 8 setups

Has reproduction · 66

S. stercoralis possesses homologs of nearly all C. elegans dauer genes, but with significant differences in protein structure, developmental regulation, and gene family expansion.

strongyloides stercoralis mongolian adapter-ligated polyadenylated novo comparative
A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms.

PMID 15592405 · PMC2263125 · Nature · 2004 · 8 claims · 8 setups

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A genetic variation map of 2.8 million SNPs was constructed for chicken by comparing 3 domestic breeds to Red Jungle Fowl

domestic red same white partial comparative pcr
Polymorphic segmental duplications at 8p23.1 challenge the determination of individual defensin gene repertoires and the assembly of a contiguous human reference sequence.

PMID 15588320 · PMC544879 · BMC genomics · 2004 · 8 claims · 8 setups

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The hg16 automatic assembly of the 8p23.1 DEF locus contains misassemblies caused by segmental duplications and interindividual/intraindividual genetic variation

bac genome metaphase overlapping manual repeat fluorescence

Experiments

A big circuit model.

Centromere-associated protein-E is essential for the mammalian mitotic checkpoint to prevent aneuploidy due to single chromosome loss.

Recent segmental and gene duplications in the mouse genome.

Assembling a jigsaw puzzle with 20,000 parts.

A well-conserved Plasmodium falciparum var gene shows an unusual stage-specific transcript pattern.

Genomic and proteomic profiling of responses to toxic metals in human lung cells.

A candidate metastasis-associated DNA marker for ductal mammary carcinoma.

The application of basic science to translational cancer research.

From linear genome sequence to three-dimensional organization of the cell nucleus.

Defective DNA repair and increased genomic instability in Artemis-deficient murine cells.

Physiology engages with functional genomics - at last.

Leber's hereditary optic neuropathy--case report and literature review.

Application of proteomics in the study of tumor metastasis.

The truth about mouse, human, worms and yeast.

Chromosomal phenotypes and submicroscopic abnormalities.

Development of an integrated genome informatics, data management and workflow infrastructure: a toolbox for the study of complex disease genetics.

Neuronal Small RNAs Control Behavior Transgenerationally.

RNAseq analysis of the parasitic nematode Strongyloides stercoralis reveals divergent regulation of canonical dauer pathways.

A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms.

Polymorphic segmental duplications at 8p23.1 challenge the determination of individual defensin gene repertoires and the assembly of a contiguous human reference sequence.