Cca - OmicsDI

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Unknown (2535)
Genomics (338)
Transcriptomics (229)
Proteomics (87)
Metabolomics (11)
Methylation profiling (5)
Other (4)
Clinical (1)

Organisms

Homo sapiens (240)
Mus musculus (45)
Rattus norvegicus (15)
Saccharomyces cerevisiae (4)
uncultured bacterium (4)
Manihot esculenta (3)
Caenorhabditis elegans (3)
Arabidopsis thaliana (3)
Mycobacterium tuberculosis (3)
Drosophila melanogaster (2)
Escherichia coli (2)
Bacteria (2)
Mayaro virus (1)
Tetrahymena thermophila (1)
Neurospora crassa (1)
Clonorchis sinensis (1)
Streptomyces coelicolor A3(2) (1)
Schizosaccharomyces pombe (1)
Nicotiana langsdorffii x Nicotiana sanderae (1)
Exiguobacterium artemiae (1)
Planococcus halocryophilus (1)
Geobacillus stearothermophilus (1)
Mus musculus cytomegalovirus 2 (1)
Tetranychus urticae (1)
Murid gammaherpesvirus 4 (1)
Saccharomyces cerevisiae BY4741 (1)
JC polyomavirus (1)
Betapolyomavirus macacae (1)
human gammaherpesvirus 4 (1)
Human alphaherpesvirus 1 (1)

Organisms

Homo sapiens (111)
Mus musculus (23)
uncultured bacterium (2)
Saccharomyces cerevisiae (2)
Escherichia coli (2)
Vibrio maerlii (1)
Vibrio rhodolitus (1)
Lentzea (1)
Porolithon onkodes (1)
Acropora millepora (1)
Eimeria tenella (1)
Pseudomonas citronellolis (1)
Opisthorchis viverrini (1)
Myzus persicae (1)
Chrysanthemum x morifolium (1)
Manihot esculenta (1)
Tetranychus urticae (1)
periphyton metagenome (1)
Clostridioides difficile (1)
Pseudomonadota (1)
human oral metagenome (1)
freshwater metagenome (1)
algae metagenome (1)
Enterococcus faecalis (1)
Mycobacterium tuberculosis (1)
coral metagenome (1)
Solanum tuberosum (1)
Danio rerio (1)
gut metagenome (1)
Saccharomyces cerevisiae BY4741 (1)

Repository

ENA (264)
biostudies-arrayexpress (140)
geo (127)
pride (46)
EGA (45)
jPOST (21)
MassIVE (14)
GNPS (7)
iProX (6)
MetaboLights (4)

Tissue

Brain (8)
Liver (8)
Epithelial cell (4)
Cell culture (4)
Bile duct (3)
Cholangiocarcinoma cell line (2)
Bile (2)
Blood serum (2)
Blood plasma (2)
Kidney (2)
Cholangiocarcinoma cell (1)
Pancreatic ductal adenocarcinoma cell line (1)
3-D shape (1)
Pancreatic ductal adenocarcinoma cell (1)
Primary cell line cell (1)
Intestine (1)
Urine (1)
Plant cell (1)
Heart (1)
Spleen (1)
Leaf (1)
Hepatocyte (1)
Lung (1)
Permanent cell line cell (1)
Saliva (1)
Blood (1)

Disease

Cholangiocarcinoma (15)
Primary sclerosing cholangitis (3)
Pancreas adenocarcinoma (2)
Trypanosomiasis (2)
HPV positive (1)
Rett syndrome (1)
Giant cell glioblastoma (1)
Normal (1)
Colonic Neoplasms (1)
Carotid artery occlusion (1)
Progressive familial intrahepatic cholestasis 3 (1)
Cerebrovascular disease (1)
Renal clear cell carcinoma (1)

Technology Type

Mass Spectrometry (46)
Shotgun proteomics (24)
Bottom-up proteomics (13)
Data-dependent acquisition (7)
Mass spectrometry (3)
HDMSE (3)
Gel-based experiment (3)
Top-down proteomics (2)
Illumina CytoSNP 12 bead array, nanostring (1)
Illumina HiSeq 2000, HiSeq X Ten, Illumina HiSeq 2500, ILLUMINA (1)
NMR spectroscopy (1)
MSE (1)
All-ion fragmentation (1)
Data-independent acquisition (1)
SRM/MRM (1)

Instrument Platform

Illumina NovaSeq 6000 (6)
NextSeq 500 (5)
Compact (4)
TimsTOF fleX (4)
Illumina NovaSeq X (3)
Illumina HiSeq 2500 (3)
Illumina HiSeq 4000 (3)
Q Exactive (3)
Chemostat (2)
NextSeq 2000 (2)
Impact (2)
BD Rhapsody Express Instrument (1)
High-performance computing workstation (1)
Protocol computer workstation running R statistical software (1)
Thermal cycler (PCR); Covaris ME220 focused ultrasonicator; magnetic separation rack; Agilent TapeStation system (D5000 and D1000 ScreenTape assays); Qubit fluorometer or equivalent; microcentrifuge. (1)
JANUS® G3 MDT automated liquid handling workstation (PerkinElmer); thermal cycler or incubator (42 °C); Zymo DNA Clean & Concentrator columns; AMPure XP magnetic bead purification system; magnetic separation rack. (1)
Multichannel pipettes or automated liquid handler; 384-well tissue culture plates; Class II biological safety cabinet; CO₂ incubator (37 °C, 5% CO₂). (1)
Microsyringe for intraperitoneal injection (1)
Computational server/cluster, Software: R (v4.3.x), Seurat package (v5.1.0) (1)
Biological safety cabinet, Centrifuge, Cell strainer, Automated cell counter/Hemocytometer (1)
Surgical dissection tools (1)
BD Rhapsody system (1)
BAS-1800 [FUJIFILM] (1)
ScanArray 5000 [PerkinElmer] (1)
GenePix Professional 4200A [Axon Instruments] (1)
DNBSEQ-G400 (1)
Illumina HiSeq 1500 (1)
NextSeq 550 (1)
Orbitrap Exploris 240 (1)
Orbitrap IQ-X (1)

Publication Date

2026 (51)
2025 (38)
2023 (29)
2024 (27)
2013 (24)
2020 (21)
2022 (20)
2010 (17)
2016 (16)
2015 (16)
2012 (16)
2014 (15)
2021 (11)
2017 (10)
2008 (9)
2019 (7)
2011 (7)
2007 (6)
2009 (5)
2018 (4)
2006 (1)
2004 (1)

CHEBI ID

CHEBI:17268 (2)
CHEBI:15366 (2)
CHEBI:16040 (2)
CHEBI:17568 (2)
CHEBI:16919 (2)
CHEBI:16704 (2)
CHEBI:15354 (2)
CHEBI:4307 (1)
CHEBI:47954 (1)
CHEBI:17522 (1)
CHEBI:17396 (1)
CHEBI:14648 (1)
CHEBI:28804 (1)
CHEBI:18047 (1)
CHEBI:42717 (1)
CHEBI:55501 (1)
CHEBI:7101 (1)
CHEBI:17158 (1)
CHEBI:37051 (1)
CHEBI:16069 (1)
CHEBI:4593 (1)
CHEBI:18202 (1)
CHEBI:16891 (1)
CHEBI:86396 (1)
CHEBI:12575 (1)
CHEBI:17604 (1)
CHEBI:128477 (1)
CHEBI:144365 (1)
CHEBI:28123 (1)
CHEBI:63581 (1)

Metabolite Name

Creatine (2)
Choline (2)
Lipid alpha-CH2 (1)
Lipid -CH2-CH= (1)
Lipid beta-CH2 (1)
Lipid (-CH2)n (1)
Lipid omega-CH3 (1)
Monomethyl glutaric acid (1)
Ethylmalonic acid (1)
1-[(1R)-2-[(4-chlorophenyl)methyl]-1-(hydroxymethyl)-7-methoxy-1'-spiro[3,9-dihydro-1H-pyrido[3,4-b]indole-4,4'-piperidine]yl]-1-butanone (1)
L-erythro-biopterin (1)
Isoguanine (1)
Ubiquinone-2 (1)
3-hydroxy-2-methylbutanoic acid (1)
D-2-aminopentanoic acid (1)
Hydroxyacetone (1)
S-sulfo-L-cysteine (1)
N-methyl-6-pyridone-3-carboxamide (1)
N(2),N(2)-dimethylguanosine (1)
Quinaldic acid (1)
Dihydrolipoic acid (1)
D-glucitol (1)
N(6)-acetyl-L-lysine (1)
Sphingomyelin d18:1 (1)
N(6)-methyl-L-lysine (1)
Valeric acid (1)
(R)-prunasin (1)
N(6),N(6),N(6)-trimethyl-L-lysine (1)
Imidazol-4-ylacetic acid (1)
D-serine (1)

First Public Date

2026 (51)
2025 (36)
2024 (29)
2023 (24)
2021 (21)
2014 (20)
2022 (18)
2020 (18)
2017 (13)
2019 (9)
2016 (9)
2018 (6)
2013 (6)
2015 (4)

Classification

bacteria (7)
helminths (1)

Study status

Completed (1)

Study type

Transcription profiling by array (71)
RNA-seq of coding RNA (13)
RNA-seq of non coding RNA (10)
RNA-seq of coding RNA from single cells (9)
Comparative genomic hybridization by array (7)
ChIP-seq (6)
ChIP-chip by array (5)
Transcription profiling by RT-PCR (4)
DNA-seq (4)
Methylation profiling by array (4)
ChIP-chip by tiling array (2)
Whole chromosome random sequencing (1)
Cell line - High-throughput sequencing (1)
ATAC-seq (1)
Other (1)
RNA-seq of total RNA (1)
Interventional (1)

Release Date

2022 (360)
2021 (302)
2023 (292)
2025 (291)
2024 (287)
2020 (198)
2019 (172)
2018 (125)
2016 (111)
2017 (110)
2015 (93)
2014 (60)
2013 (54)
2026 (46)
2010 (39)
2012 (37)
2011 (23)
2008 (23)
2009 (16)
2007 (14)
2006 (6)
2004 (4)
2003 (4)
2000 (3)
2005 (2)
2002 (2)
2001 (1)

Lab affiliation

College of Biology, Hunan University, China (3)
Department of Chemistry and Biochemistry University of Bern Switzerland (2)
Hubei University of Medicine, Taihe Hospital (2)
State Key Laboratory of Coordination Chemistry, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center (ChemBIC), Nanjing University, Nanjing, China. (1)
Charles University in Prague Faculty of Science Department of Cell Biology (1)
Faculty of Medecine, University Paris Cité SFR Necker INSERM US24 160 rue de Vaugirard | 75015 Paris (1)
Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota (1)
Anastasios Vourekas 131 Life Science Life Building Department of Biological Sciences Louisiana State University Baton Rouge, LA 70803 office at A108 (225-578-1737) lab at A151-A149 (225-578-9103) (1)
Khon Kaen University National Phenome Institute, Regional Science Park Northeast 1, Khon Kaen University, Khon Kaen, 40002, Thailand (1)
ESALQ (1)
Hepatology Program, CIMA, University of Navarra. Avda. Pio XII, n55. 31008 Pamplona, Spain. (1)
Professor of Biochemistry Proteomics Unit Centro Nacional de Biotecnología (CSIC) Darwin 3, 28049, Madrid (1)
Molecular Oncology Lab, Hospital Universitario La Paz-IdiPAZ, Madrid, Spain (1)
Pedro R. Cutillas Professor of Cell Signalling & Proteomics Centre for Genomics and Computational Biology Barts Cancer Institute Queen Mary, University of London John Vane Science Centre, Charterhouse Square, London EC1M 6BQ (1)
Core Unit Proteomics, Berlin Institute of Health at Charite - Universitaetsmedizin Berlin and Max Delbrueck Center for Molecular Medicine, Berlin, Germany (1)
Department of Biology, Massachusetts Institute of Technology, Building 68, 31 Ames St., Cambridge, MA 02139 Howard Hughes Medical Institute, Chevy Chase, MD (1)
Faculty of Technical Chemistry, Institute of Chemical Technologies and Analytics, Technische Universität Wien (TU Wien), 1060 Vienna, Austria; Diagnostic and Research Institute of Pathology, Medical University of Graz, 8036 Graz, Austria; BiotechMed-Graz, 8010 Graz, Austria; (1)
Protemics Service CIC bioGUNE Bizkaia Tech. Park Build. 800 48160 Derio (Spain) (1)
Hospital of Stomatology, Guanghua School of Stomatology, Sun Yat-sen University, Guangzhou 510055, China (1)
Department of Biochemistry, Faculty of Medicine, Khon Kaen University, Khon Kaen, Thailand 40002 (1)
Functional Proteomics Laboratory, Centro Nacional de Biotecnologia (CSIC), Madrid 28049, Spain. (1)
Proteomics Service CIC bioGUNE Bizkaia Tech. Park Build. 800 48160 Derio (Spain) (1)
Hepatology Laboratory, Solid Tumors Program, CIMA, CCUN, University of Navarra (Pamplona). Spain (1)
Department of Laboratory Medicine and Pathology, Mayo Clinic (1)
Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology (1)
School of Health Preservation and Rehabilitation, Chengdu University of Traditional Chinese Medicine, Chengdu, China. (1)
Proteomics Platform CIC bioGUNE Bizkaia Tech. Park Build. 800 Derio 48160 Spain (1)
Taihe Hospital, Hubei University of Medicine, Shiyan 442000, Hubei, China (1)
Dept. of Biochemistry & Molecular Biology, Cumming School of Medicine, University of Calgary, Calgary Canada (1)
Philipps-Universität Marburg Faculty of Chemistry Hans-Meerwein-Str. 4 35043 Marburg GERMANY (1)

Location

United States (1)

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tRNAs marked with CCACCA are targeted for degradation

The CCA-adding enzyme adds CCA to the 3' ends of transfer RNAs (tRNAs), a critical step in tRNA biogenesis that generates the amino acid attachment site. We found that the CCA-adding enzyme plays a key role in tRNA quality control by selectively marking unstable tRNAs and tRNA-like small RNAs for de...

ORGANISM(S): Saccharomyces cerevisiae

2011-11-17 | E-GEOD-33756 | biostudies-arrayexpress

Proteomic analysis of serum EVs derived from PSC, CCA and PSC-CCA patients

Cholangiocarcinomas (CCAs) are heterogeneous biliary cancers with dismal prognosis. Their etiologies remain mostly unclear, although primary sclerosing cholangitis (PSC) is a well-known risk factor. There is an urgent need of accurate non-invasive biomarkers for early CCA diagnosis and to predict pa...

ORGANISM(S): Homo sapiens (Human)

2023-07-20 | PXD026197 | Pride

FOSL1 target genes in cholangiocarcinoma (CCA) cells

PRJNA648044 | ENA

beta catenin in CCA cell lines and patient samples

PRJNA841664 | ENA

16S V4V5 sequencing of Tara Pacific crustose coralline algae (CCA) samples

PRJEB74197 | ENA

MiRNA expression profiling in cholangiocarcinoma (CCA) cells treated with TGF-b

PRJNA413372 | ENA

Treatment of cholangiocarcinoma using humanized monoclonal antibodies targeting Claudin-1(CCA organoids)

PRJNA1090004 | ENA

Treatment of cholangiocarcinoma using humanized monoclonal antibodies targeting Claudin-1 (CCA patient tissues)

PRJNA1090499 | ENA

Serum proteomics analysis of CCA

Differential plasma proteomes of the patients with Opisthorchiasis viverrini and cholangiocarcinoma identifies polymeric immunoglobulin receptor as potential biomarker

ORGANISM(S): Homo sapiens (Human)

2023-03-10 | PXD028152 | Pride

Cca Plasma Orbitrap Serum Lc-ms/ms

ena-DATASET-DUKE-NUS-01-04-2016-09:56:06:868-175 - samples

CCA targeted sequencing

EGAD00001001994 | EGA

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3210 Results

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