Genomic integrity

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Unknown (2837)
Transcriptomics (1513)
Genomics (1155)
Proteomics (82)
Other (73)
Methylation profiling (26)
Genomic (16)
Metabolomics (6)
Models (3)
Clinical (1)

Organisms

Homo sapiens (731)
Mus musculus (477)
Arabidopsis thaliana (65)
Drosophila melanogaster (57)
Rattus norvegicus (46)
Danio rerio (44)
Saccharomyces cerevisiae (40)
Caenorhabditis elegans (30)
Bos taurus (22)
Streptomyces coelicolor (18)
Sus scrofa (17)
Schizosaccharomyces pombe (17)
Gallus gallus (12)
Escherichia coli (11)
Carassius auratus (9)
Meleagris gallopavo (8)
Ovis aries (8)
Mycobacterium tuberculosis (7)
Oncorhynchus mykiss (7)
Candida albicans (7)
Macaca mulatta (6)
Dinoroseobacter shibae DFL 12 = DSM 16493 (5)
Haemophilus influenzae (5)
Plasmodium falciparum (5)
Oryza sativa (5)
Shewanella oneidensis MR-1 (4)
Listeria monocytogenes (4)
Glycine max (4)
Oryza sativa Japonica Group (4)
Macaca fascicularis (4)

Organisms

Homo sapiens (277)
Mus musculus (192)
Drosophila melanogaster (45)
Arabidopsis thaliana (26)
Caenorhabditis elegans (21)
Saccharomyces cerevisiae (19)
Schizosaccharomyces pombe (11)
Rattus norvegicus (8)
Oscheius tipulae (4)
Escherichia coli (3)
Danio rerio (3)
Bos taurus (3)
Nomascus leucogenys (2)
Caulobacter vibrioides (2)
Komagataella phaffii (2)
Megalobrama amblycephala (2)
Paramecium tetraurelia (2)
Sus scrofa (2)
Vitis vinifera (2)
Gallus gallus (2)
Acrossocheilus yunnanensis (1)
Roseovarius tolerans (1)
Fukomys damarensis (1)
Thermococcus paralvinellae (1)
Martinezella tropici (1)
Mustela nigripes (1)
Bacillus sp. W6(2025) (1)
Hippophae rhamnoides subsp. yunnanensis (1)
Bacillus acidovorans (1)
Gopherus morafkai (1)

Repository

biostudies-arrayexpress (1372)
ENA (874)
geo (502)
pride (71)
EGA (19)
dbGaP (16)
MetaboLights (6)
MassIVE (5)
BioModels (3)
iProX (3)
jPOST (3)
NODE (2)

Tissue

Cell culture (21)
Epithelial cell (7)
Brain (4)
Fibroblast (3)
Embryonic stem cell (2)
Plant cell (2)
Umbilical cord (1)
Ascocarp (1)
Blood (1)
Blood cell (1)
Colorectal cancer cell line (1)
Diploid cell (1)
Egg (1)
Embryo (1)
Embryonic kidney cell line (1)
Endothelial cell of coronary artery (1)
Endothelial cell of vascular tree (1)
Extracellular vesicle (1)
HeLa cell (1)
JURKAT cell (1)
Kidney (1)
Leukocyte (1)
Lung (1)
Motoneuron (1)
Peripheral blood (1)
Permanent cell line cell (1)
Pollen (1)
Prokaryotic cell (1)
Stem cell (1)
Stomach (1)

Disease

Normal (5)
Breast adenocarcinoma (3)
Breast cancer (3)
Disease free (2)
DNA damage (1)
Pseudomonas aeruginosa rsmA mutant infected (1)
Anaplastic large cell lymphoma has DiseaseStaging II (1)
Rett syndrome (1)
Spinal muscular atrophy (1)
Schizophrenia (1)
CAMN (1)
Limited cutaneous subset (1)
Colon Cancer (1)
Scrapie infected (1)
Pancreatic cancer (1)
Crohn's disease (1)
Bladder tumour (1)
Spinal muscular atrophy (NCI Metathesaurus C0026847) has DiseaseStaging postsymptomatic (1)
Secondary myelofibrosis (1)
Intracranial aneurysm and subarachnoid haemorrhage (1)
Embryonal carcinoma (1)
Adenocarcinoma (1)
Acute leukemia (1)
Atherosclerosis (1)
Brain cancer (1)
Brain glioblastoma multiforme (1)
Colorectal cancer (1)
Gastric adenocarcinoma (1)
Neuroblastoma (1)
Plasmodium falciparum malaria (1)

Technology Type

Mass Spectrometry (71)
Shotgun proteomics (29)
Affinity purification coupled with mass spectrometry proteomics (22)
Bottom-up proteomics (14)
Data-dependent acquisition (6)
Gel-based experiment (5)
Mass spectrometry assay (4)
Data-independent acquisition (3)
Illumina HiSeq 2000 (2)
Mass spectrometry (2)
SWATH MS (2)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (38)
Illumina HiSeq 2500 (33)
Illumina HiSeq 4000 (33)
Illumina HiSeq 2000 (30)
NextSeq 500 (22)
NextSeq 2000 (7)
Illumina NovaSeq X (6)
Illumina MiSeq (5)
ArrayWoRx Biochip Reader [Applied Precision] (4)
NextSeq 550 (4)
PromethION (3)
Illumina Genome Analyzer IIx (3)
GenePix 4000B [Axon Instruments] (3)
Illumina Genome Analyzer II (3)
Controlled-environment growth chamber (short-day; 8 h light / 16 h dark) (2)
454 GS FLX+ (2)
Axon- GenePix4000B (2)
DNBSEQ-G400 (2)
Illumina HiSeq 3000 (2)
Maxwell® RSC 48 Instrument (Promega, AS8500) (1)
Transrectal ultrasound-guided systematic sampling of prostate tissue (TRUS biopsy) (1)
University College Dublin Animal Research Ethics Committee approval, a licence from the Department of Health (B100/3525) and explicit owner/trainer informed consent were obtained for the use of all horses and procedures in this study. (1)
Thermal cycler; magnetic separation rack; Qubit Fluorometer; Agilent TapeStation 4200 (1)
Microcentrifuge; magnetic separation rack; Qubit Flu/spectrophotometer; Agilent TapeStation 4200 (1)
Incubator shaker; spectrophotometer; Cmag measurement system; flow cytometer (1)
Covaris sonicator, PCR thermocycler, magnetic rack for SPRI bead clean-up (1)
Liquid-nitrogen mortar and pestle, benchtop microcentrifuge, vortex mixer (1)
Dissecting tools, liquid nitrogen, −80 °C freezer (1)
Thermocycler; magnetic rack for SPRI bead clean-up (1)
Liquid-nitrogen grinding tools; benchtop centrifuge (1)

Publication Date

2014 (229)
2015 (212)
2013 (174)
2012 (140)
2010 (136)
2025 (128)
2026 (108)
2016 (107)
2011 (99)
2024 (80)
2023 (80)
2021 (75)
2008 (71)
2009 (57)
2022 (54)
2020 (43)
2018 (42)
2019 (39)
2017 (37)
2007 (29)
2006 (12)
2005 (8)
2004 (3)

UNIPROT ID/AC

P04637 (3)
Q00987 (3)

CHEBI ID

CHEBI:20607 (2)
CHEBI:17562 (2)
CHEBI:16750 (2)
CHEBI:16335 (2)
CHEBI:16704 (2)
CHEBI:17596 (2)
CHEBI:155861 (1)
CHEBI:182450 (1)
CHEBI:181240 (1)
CHEBI:211833 (1)
CHEBI:181274 (1)
CHEBI:181275 (1)
CHEBI:65897 (1)
CHEBI:101064 (1)
CHEBI:67537 (1)
CHEBI:181311 (1)
CHEBI:182461 (1)
CHEBI:181514 (1)
CHEBI:72289 (1)
CHEBI:181516 (1)
CHEBI:92234 (1)
CHEBI:182330 (1)
CHEBI:135374 (1)
CHEBI:63564 (1)
CHEBI:38737 (1)
CHEBI:198502 (1)
CHEBI:193584 (1)
CHEBI:44460 (1)
CHEBI:189208 (1)
CHEBI:156197 (1)

Metabolite Name

Adenosine (3)
5-methylcytidine (2)
Cytidine (2)
Kynurenic acid (2)
(+)-(s)-carvone (1)
6-[(3e,5e,7s)-5,7-dimethyl-2-oxo-3,5-nonadien-1-yl]-2,4-dihydroxy-3-methylbenzaldehyde (1)
(3ar,4s,6r,11ar)-6,9-dihydroxy-6,10-dimethyl-3-methylene-2,7-dioxo-2,3,3a,4,5,6,7,8,9,11a-decahydrocyclodeca[b]furan-4-yl methacrylate (1)
Dipropyl adipate (1)
Isochlorogenic acid c (1)
Al 8810 methyl ester (1)
(8e)-11,13-dihydroxy-4-methyl-4,5,6,7-tetrahydro-2h-3-benzoxacyclododecine-2,10(1h)-dione (1)
(+)-ar-turmerone (1)
Isorhamnetin-3-o-nehesperidine (1)
Glycerol tributyrate (1)
(+)-catechin (hydrate) (1)
R-1 methanandamide phosphate (1)
(1r,9r)-5-cyclohexyl-11-(propylsulfonyl)-7,11-diazatricyclo[7.3.1.02,7]trideca-2,4-dien-6-one (1)
(-)-a-pinene (1)
3',5,7-trihydroxy-4'-methoxyflavanone (1)
Kaempferol-3-o-rutinoside (1)
Methyl 4-[(4,6-dihydroxy-5-methoxy-2,5-dimethyl-3-oxo-1-cyclohexen-1-yl)oxy]-2-hydroxy-3,6-dimethylbenzoate (1)
1,9b-dihydroxy-6,6,9a-trimethyl-5,5a,6,7,8,9,9a,9b-octahydronaphtho[1,2-c]furan-3(1h)-one (1)
Atractylenolide ii (1)
A-pinene-2-oxide (1)
3,5-dimethoxy-4-hydroxybenzaldehyde (1)
2-acetyl-6-(3-butyryl-2,4,6-trihydroxy-5-methylbenzyl)-3,5-dihydroxy-4,4-dimethyl-2,5-cyclohexadien-1-one (1)
Senkyunolide a (1)
4-ethoxy ethylbenzoate (1)
4-methyl-6,7-dihydroxycoumarin (1)
Bruceine d (1)

First Public Date

2026 (143)
2025 (141)
2014 (103)
2024 (95)
2023 (62)
2021 (55)
2022 (46)
2020 (45)
2015 (40)
2018 (35)
2017 (30)
2019 (27)
2016 (25)
2013 (25)
2012 (1)
2010 (1)

Modelling Approach

Ordinary differential equation model (3)

Study status

Not provided (1)

Lab affiliation

Center for Genomic Integrity, Institute for Basic Science, Ulsan, Korea (2)
Indiana University School of Medicine (2)
6Department of Biochemistry, College of Medicine, Hallym University, Chuncheon 24252, Gangwon-do, Republic of Korea (1)
Associate Professor, Mycobacteria Research Laboratories Dept of Microbiology, Immunology,& Pathology (http://www.cvmbs.colostate.edu/DirectorySearch/Search/MemberProfile/CVMBS/3607) Associate Director, Research Integrity and Compliance Review Office (http://ricro.colostate.edu/) Colorado State University (1)
Basic Research Lab for “Epigenetic Regeneration of Aged Skeleto-Muscular System (ERASMUS)”, Department of Molecular Genetics and Dental Pharmacology, School of Dentistry, Dental Research Institute, Seoul National University, Seoul, South Korea (1)
Beckman Research Institute of City of Hope (1)
Biology department, Washington University in St Louis, MO, USA (1)
Cancer Research Center of Toulouse (CRCT) TEAM "RNA-binding proteins and post-transcriptional regulation in cancer" UMR1037 (1)
Cancer Science Institute of Singapore, National University of Singapore, Singapore (1)
Cardiovascular Biology Research Program, Oklahoma Medical Research Foundation, US (1)
Center for Genomic Integrity, Institute for Basic Science, Ulsan 44919, Republic of Korea (1)
Centre for MND Research, Macquarie Medical School, Faculty of Medicine Health and Human Sciences, Macquarie University, North Ryde NSW 2109 Australia (1)
Department of Biological Chemistry and Pharmacology, The Ohio State University, Columbus, OH 43210, USA. Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA. (1)
Department of Biological Regulation, Weizmann Institute, Rehovot, Israel. (1)
Department of Biological Sciences, Ulsan National Institute of Science and Technology,50 UNIST-gil, Ulju-gun, Ulsan 44919, Republic of Korea (1)
Department of Chemistry, University of California Riverside (1)
Department of Internal Medicine, School of Medicine, Kyungpook National University, Kyungpook National University Hospital, Daegu, Republic of Korea (1)
Department of Internal Medicine, School of Medicine, Kyungpook National University, Kyungpook National University Hospital, Daegu, Republic of Korea (1)
Department of Life Science, College of Natural Sciences, Ajou University, 206, Worldcup-ro, Yeongtong-gu, Suwon, Gyeoggi-do 16499, Korea (1)
Department of Life Sciences, Pohang University of Science and Technology, Pohang, South Korea (1)
Department of Medical Oncology, University Medical Center Groningen, University of Groningen, Hanzeplein 1, 9713GZ, Groningen, the Netherlands (lab head) (1)
Department of Microbial Proteomics, Institute of Microbiology, University of Greifswald, Greifswald, Germany (1)
Department of Molecular & Medical Genetics, Oregon Health & Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA (1)
Department of Proteomics and Signal Transduction Max Planck Institute of Biochemistry (1)
Department of Structural Biology, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Robert-Rössle-Straße 10, 13125 Berlin, Germany (1)
Division of Food and Bioscience College of Biomedical and Health Science Konkuk University Glocal Campus, Republic of Korea (1)
Faculty of Biology, Technion Israel Institute of Technology (1)
Federal State Budgetary Institution “Research Institute for Complex Issues of Cardiovascular Diseases” (1)
Fred Hutchinson Cancer Research Center (1)
Gansu Key Laboratory of Biomonitoring and Bioremediation for Environmental Pollution, School of Life Sciences, Lanzhou University, Lanzhou, China (1)

Keyword

Exhaustive genetic and immunological analyses (1)
Targeted therapies (1)
Immunological tumor microenvironment (1)
Tumor microenvironment heterogeneity (1)
Kidney cancer (1)
Liver cancer (1)

IsPrivate

False (3)

Classification

bacteria (7)
fungi (4)
protozoa (3)

Modification

N6 (1)
N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (766)
RNA-seq of coding RNA (268)
Comparative genomic hybridization by array (54)
ChIP-seq (52)
Methylation profiling by array (32)
RNA-seq of non coding RNA (29)
Methylation profiling by high throughput sequencing (28)
ChIP-chip by tiling array (15)
DNA-seq (14)
RNA-seq of total RNA (14)
Transcription profiling by tiling array (13)
Other (13)
Unknown experiment type (11)
Genotyping by array (8)
Cell line - High-throughput sequencing (6)
Animal - High-throughput sequencing (4)
Transcription profiling by RT-PCR (4)
Cell line - One-color microarray (3)
Human - One-color microarray (3)
ChIP-chip by array (3)
Bisulfite-seq (3)
RIP-seq (3)
Animal - One-color microarray (2)
High-throughput sequencing (2)
MicroRNA profiling by high throughput sequencing (2)
Spatial transcriptomics by high-throughput sequencing (2)
RNA-seq of coding RNA from single cells (2)
MNase-seq (1)
RNA-seq of non coding RNA from single cells (1)
Cell line - Two-color microarray (1)

Release Date

2025 (338)
2014 (329)
2015 (324)
2021 (268)
2023 (260)
2016 (250)
2013 (249)
2024 (236)
2020 (236)
2022 (225)
2012 (223)
2010 (190)
2019 (185)
2018 (166)
2011 (153)
2017 (152)
2008 (103)
2009 (94)
2026 (81)
2007 (52)
2006 (35)
2005 (20)
2004 (11)
2003 (8)
2000 (8)
2001 (5)
2002 (3)
1998 (3)
1999 (1)

Location

France (1)

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Measure transcript integrity using RNA-seq data

Achieved biospecimens annotated with patient clinical characteristics are unique resources for translational research. However, RNA extracted from the achieved tissues is often degraded. RNA degradation can have a significant impact on the measure of transcript abundance that can lead to an increase...

ORGANISM(S): Homo sapiens

2016-02-19 | E-GEOD-70285 | biostudies-arrayexpress

Assessment of genome integrity with array CGH of cattle transgenic cell lines produced by homologous recombination and somatic cell cloning

Background Transgenic cattle carrying multiple genomic modifications have been produced by sequential gene targeting and serial rounds of somatic cell chromatin transfer (cloning). However, cloning efficiency tends to decline with the increase of rounds of cloning. It is possible that multiple round...

ORGANISM(S): Bos taurus

2011-05-23 | E-GEOD-26132 | biostudies-arrayexpress

PCNA Ser46-Leu47 residues are crucial in preserving genomic integrity.

Not available

S-EPMC10198555 | biostudies-literature

Comparative genomic hybridization of mouse cell lines MMTV-cdc25a;MMTV-neu murine cell line

CDC25A is a critical target of checkpoint, and its overexpression is observed in various cancers. Here we demonstrate that in vivo levels of Cdc25A expression determine the efficiency of transformation and tumorigenesis. Transgenic expression of CDC25A in murine mammary glands cooperates with tumor...

ORGANISM(S): Mus musculus

2008-06-13 | E-GEOD-4767 | biostudies-arrayexpress

Genomic integrity safeguards pluripotency in embryonic stem cells

PRJNA438830 | ENA

The age and genomic integrity of neurons after cortical stroke in humans

It has been unclear whether ischemic stroke induces neurogenesis or neuronal DNA-rearrangements in the human neocortex. We show here that neither is the case, using immunohistochemistry, transcriptome-, genome- and ploidy-analyses, and determination of nuclear bomb test-derived 14C-concentration in ...

ORGANISM(S): Homo sapiens

2014-03-28 | E-GEOD-56267 | biostudies-arrayexpress

Array-based comparative genomic hybridization study of human embryonic stem cell lines

G-banding of human embryonic stem cells (hESC) has proved their predisposition to aneuploidy of chromosomes 12, 17 and X. Now, using array-based comparative genomic hybridization, we find that hESC also accumulate other recurrent chromosomal abnormalities, such as duplications of stemness genes, sub...

ORGANISM(S): Homo sapiens

2010-05-17 | E-GEOD-13422 | biostudies-arrayexpress

Genomic integrity of P493 cells

We compared the genomic integrity of human P493 cells grown in vitro with those recovered from xenografts of P493 cells. Keywords: single nucleotide polymorphism, array comparative genomic hybridization

ORGANISM(S): Homo sapiens

2007-07-31 | GSE8627 | GEO

Genomic landscape of meningiomas

This SuperSeries is composed of the following subset Series: GSE16581: Genomic landscape of meningiomas: gene expression GSE16583: Genomic landscape of meningiomas: genotyping Refer to individual Series

ORGANISM(S): Homo sapiens

2010-12-01 | E-GEOD-16584 | biostudies-arrayexpress

Caveat Mutator

The use of whole genome microarrays for monitoring mutagenised or otherwise engineered genetic derivatives is a potentially powerful tool for checking genomic integrity. Using comparative genomic hybridization of a number of unrelated, directed deletion mutants in Escherichia coli K-12 MG1655 we ide...

ORGANISM(S): Escherichia coli

2007-09-30 | E-GEOD-7695 | biostudies-arrayexpress

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