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 21

System / cell line: chromosome ✕ Assay: expressed ✕ Clear

A chromosome-level genome assembly provides insights into the environmental adaptability and outbreaks of Chlorops oryzae.

PMID 36028584 · PMC9418232 · Communications biology · 2022 · 8 claims · 8 setups

Has reproduction · 80

A high-quality chromosome-level genome assembly of C. oryzae was generated using PacBio, Illumina, and Hi-C sequencing

oryzae whole-genome genome orthology
The DNA sequence and analysis of human chromosome 13.

PMID 15057823 · PMC2665288 · Nature · 2004 · 8 claims · 8 setups

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95.5 Mb of finished sequence from chromosome 13 was completed, containing 633 genes and 296 pseudogenes.

chromosome rpci-11 genomic comparative fluorescence
Involvement of HTLV-I Tax and CREB in aneuploidy: a bioinformatics approach.

PMID 16822311 · PMC1553470 · Retrovirology · 2006 · 8 claims · 6 setups

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CTLL cells stably expressing wild-type Tax (CTLL/WT) show higher aneuploidy than a CREB-transactivation-deficient Tax clone (CTLL/703)

ctll gene promoter metaphase microarray bioinformatics
Effects of DNA-targeted ionizing radiation produced by 5-[125I]iodo-2'-deoxyuridine on global gene expression in primary human cells.

PMID 17594496 · PMC1934370 · BMC genomics · 2007 · 8 claims · 7 setups

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125I-IUdR-induced DNA damage alters expression of only a limited subset of genes in primary human cells

ag09319 gm05388 nhfk whole-genome quantitative dna-associated
Stem rust resistance in wheat is suppressed by a subunit of the mediator complex.

PMID 32111840 · PMC7048732 · Nature communications · 2020 · 6 claims · 8 setups

Has reproduction · 95

SuSr-D1 encodes Med15b.D, a subunit of the conserved Mediator complex that regulates transcription of protein-coding genes.

wheat cth chromosome ns1 stem adult-plant flow-sorted
A global view of protein expression in human cells, tissues, and organs.

PMID 20029370 · PMC2824494 · Molecular systems biology · 2009 · 7 claims · 6 setups

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A high fraction (>65%) of proteins is expressed in most human cells and tissues, while very few proteins (<2%) are detected in any single cell type.

normal computational hepatocytes same immunohistochemistry immunofluorescence unsupervised
Cohesion is established during DNA replication utilising chromosome associated cohesin rings as well as those loaded de novo onto nascent DNAs.

PMID 32515737 · PMC7282809 · eLife · 2020 · 7 claims · 3 setups

Has reproduction · 90

In S. cerevisiae cohesion is established during S phase by two independent, genetically distinct pathways operating in parallel: conversion of chromosomal cohesin and Scc2-dependent de novo loading at forks

cerevisiae mini-chromosome flow calibrated
Phylogenomic approaches to common problems encountered in the analysis of low copy repeats: the sulfotransferase 1A gene family example.

PMID 15752422 · PMC555591 · BMC evolutionary biology · 2005 · 8 claims · 8 setups

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A previously unidentified fourth human SULT1A gene (SULT1A4) exists on chromosome 16 and is transcriptionally active

genome chimpanzee sult1a3 est blast-like comparative pairwise
Asthma investigators begin to reap the fruits of genomics.

PMID 14611649 · PMC329104 · Genome biology · 2003 · 7 claims · 8 setups

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Microarray profiling of animal models of allergic asthma can identify novel differentially expressed candidate genes involved in inflammation and airway remodeling.

monkey models lung inbred cdna oligonucleotide northern
The diagnosis and management of pre-invasive breast disease: promise of new technologies in understanding pre-invasive breast lesions.

PMID 14580250 · PMC314415 · Breast cancer research : BCR · 2003 · 8 claims · 8 setups

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ADH and ductal carcinoma in situ (DCIS) are precursor lesions molecularly similar to adjacent invasive breast cancer

locally adh brca1 malignant array chromosome-based cdna
Ancient gene duplicates in Gossypium (cotton) exhibit near-complete expression divergence.

PMID 24558256 · PMC3971588 · Genome biology and evolution · 2014 · 8 claims · 8 setups

Has reproduction · 50

Nearly all (99.4%) ancient paralog pairs in Gossypium raimondii are differentially expressed in at least one of three tissues (petal, leaf, seed), indicating massive, near-complete expression-level divergence.

gossypium transcripts uq-normalized differentially comparative coding bulk
GenBank.

PMID 16381837 · PMC1347519 · Nucleic acids research · 2006 · 8 claims · 8 setups

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GenBank is a comprehensive public database of nucleotide sequences with supporting bibliographic and biological annotation, built and distributed by NCBI.

sapiens organisms genbank large-scale genome expressed blast
Insights into vertebrate evolution from the chicken genome sequence.

PMID 15693954 · PMC551526 · Genome biology · 2005 · 8 claims · 6 setups

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Chicken has expanded gene families involved in egg production (e.g., avidin) and feather/scale/claw formation (avian-specific keratins) not present or lost in mammals

red chicken whole-genome comparative synteny
Gene function in the mammalian genome, courtesy of the mouse.

PMID 12537544 · PMC151280 · Genome biology · 2003 · 8 claims · 8 setups

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Mosaicism of Mus musculus domesticus and Mus musculus musculus haplotypes exists across the inbred laboratory mouse genome, and genome-wide haplotype mapping can enhance positional cloning

inbred genome mice model genome-wide large-scale phenotypic
Bacillus Calmette-Guérin Treatment Changes the Tumor Microenvironment of Non-Muscle-Invasive Bladder Cancer.

PMID 35311085 · PMC8930202 · Frontiers in oncology · 2022 · 8 claims · 8 setups

Has reproduction · 30

BCG therapy has bidirectional effects on tumor evolution and immune checkpoint landscape, with a significant reduction in neoantigen burden percentage in relapsed tumors

tur matched nmibc relapsed whole-exome sequencing immune
The revolution of the biology of the genome.

PMID 15040884 · PMC7091781 · Cell research · 2004 · 8 claims · 6 setups

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Polyploidization and gene duplication are the major mechanisms increasing eukaryotic genome size.

genome drosophila schizosaccharomyces gene est mount comparative
Coexistence of two different pseudohypoparathyroidism subtypes (Ia and Ib) in the same kindred with independent Gs{alpha} coding mutations and GNAS imprinting defects.

PMID 19858129 · PMC3030964 · Journal of medical genetics · 2010 · 7 claims · 5 setups

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Two unrelated PHP-I families each include at least one patient with a Gsα coding mutation (PHP-Ia) and another with GNAS imprinting defects (PHP-Ib)

genomic erythrocyte gnas sanger methylation-specific microsatellite
CGH-Profiler: data mining based on genomic aberration profiles.

PMID 16042799 · PMC1183191 · BMC bioinformatics · 2005 · 8 claims · 3 setups

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CGH-Profiler circumvents ISCN nomenclature by importing CGH data from different vendor systems and converting it into a table format suitable for statistical analysis.

tumour cgh metaphase comparative metaphase
Cryptosporidium: genomic and biochemical features.

PMID 19187778 · PMC2819285 · Experimental parasitology · 2010 · 8 claims · 8 setups

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C. parvum lacks a plastid and mitochondrial genome, unlike other apicomplexans, limiting plastid-targeted drug strategies

parvum yeast recombinant gp40 pulsed-field happy genome
Exposure to the widely used herbicide atrazine results in deregulation of global tissue-specific RNA transcription in the third generation and is associated with a global decrease of histone trimethylation in mice.

PMID 27655631 · PMC5175363 · Nucleic acids research · 2016 · 8 claims · 8 setups

Has reproduction · 10

Embryonic ATZ exposure affects meiosis, spermiogenesis and reduces spermatozoa number in F3 generation male mice

testis dissociated epididymis chip-seq strand-specific h&e

Experiments

A chromosome-level genome assembly provides insights into the environmental adaptability and outbreaks of Chlorops oryzae.

The DNA sequence and analysis of human chromosome 13.

Involvement of HTLV-I Tax and CREB in aneuploidy: a bioinformatics approach.

Effects of DNA-targeted ionizing radiation produced by 5-[125I]iodo-2'-deoxyuridine on global gene expression in primary human cells.

Stem rust resistance in wheat is suppressed by a subunit of the mediator complex.

A global view of protein expression in human cells, tissues, and organs.

Cohesion is established during DNA replication utilising chromosome associated cohesin rings as well as those loaded de novo onto nascent DNAs.

Phylogenomic approaches to common problems encountered in the analysis of low copy repeats: the sulfotransferase 1A gene family example.

Asthma investigators begin to reap the fruits of genomics.

The diagnosis and management of pre-invasive breast disease: promise of new technologies in understanding pre-invasive breast lesions.

Ancient gene duplicates in Gossypium (cotton) exhibit near-complete expression divergence.

GenBank.

Insights into vertebrate evolution from the chicken genome sequence.

Gene function in the mammalian genome, courtesy of the mouse.

Bacillus Calmette-Guérin Treatment Changes the Tumor Microenvironment of Non-Muscle-Invasive Bladder Cancer.

The revolution of the biology of the genome.

Coexistence of two different pseudohypoparathyroidism subtypes (Ia and Ib) in the same kindred with independent Gs{alpha} coding mutations and GNAS imprinting defects.

CGH-Profiler: data mining based on genomic aberration profiles.

Cryptosporidium: genomic and biochemical features.

Exposure to the widely used herbicide atrazine results in deregulation of global tissue-specific RNA transcription in the third generation and is associated with a global decrease of histone trimethylation in mice.