Pa-1 - OmicsDI

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Unknown (6342)
Transcriptomics (5657)
Genomics (1317)
Proteomics (505)
Metabolomics (336)
Other (14)
Models (11)
Genomic (7)
Clinical (4)
Methylation profiling (3)

Organisms

Homo sapiens (2300)
Mus musculus (1531)
Caenorhabditis elegans (411)
Drosophila melanogaster (246)
Arabidopsis thaliana (246)
Rattus norvegicus (212)
Saccharomyces cerevisiae (162)
Danio rerio (87)
Gallus gallus (61)
Candida albicans (54)
Bos taurus (53)
Schizosaccharomyces pombe (48)
Sus scrofa (44)
Oryza sativa (34)
Ovis aries (34)
Oryza sativa Japonica Group (30)
Solanum tuberosum (28)
Zea mays (27)
Escherichia coli (26)
Escherichia coli str. K-12 substr. MG1655 (26)
Pimephales promelas (23)
Triticum aestivum (22)
Salmo salar (20)
Hordeum vulgare (19)
Solanum lycopersicum (19)
Daphnia magna (18)
Oncorhynchus mykiss (17)
Mycobacterium tuberculosis (16)
Influenza A virus (1)
Rattus (1)

Organisms

Homo sapiens (136)
Mus musculus (52)
Rattus norvegicus (16)
Ovis aries (6)
Arabidopsis thaliana (6)
Pseudomonas aeruginosa (5)
Bos taurus (4)
Phanerodontia chrysosporium (3)
freshwater metagenome (3)
Saccharomyces cerevisiae (3)
Sus scrofa (3)
Aspergillus nidulans (2)
Gallus gallus (2)
mouse gut metagenome (2)
Pneumocystis carinii (1)
Vitis sp. cv. 'Norton' (1)
Liberibacter crescens BT-1 (1)
Leishmania panamensis (1)
Fusobacterium hwasookii (1)
Pinus elliottii (1)
Schmidtea mediterranea (1)
unidentified (1)
Gelatoporia subvermispora (1)
Allium cepa (1)
Mus (1)
Malus domestica (1)
Corynebacterium glutamicum (1)
Macaca mulatta (1)
Plasmodium falciparum (1)
Candida albicans (1)

Repository

biostudies-arrayexpress (6557)
pride (370)
ENA (315)
MetaboLights (181)
MetabolomicsWorkbench (155)
geo (82)
MassIVE (61)
EGA (50)
jPOST (27)
iProX (12)
BioModels (10)
LINCS (10)
PeptideAtlas (8)
dbGaP (7)
NODE (5)
PanoramaPublic (5)
EVA (4)
GPMDB (4)
PAXDB (4)
Cell Collective (1)

Tissue

Blood (44)
Cultured cells (24)
Liver (14)
Muscle (11)
Eye tissue (10)
Brain (9)
Adipose tissue (8)
Macrophages (8)
Unspecified (4)
Lung (4)
Cells (3)
Heart (3)
Mesenteric lymph (2)
Neurons (2)
Colon (2)
B-cells (2)
Plant (2)
Hep G2 cells (2)
Optic nerve (1)
Ventricles (1)
Epididymal fat (1)
Follicular fluid (1)
Plasmodium cells (1)
Cyst fluid (1)
Tongue (1)
Mitochondria (1)
Fibroblast cells (1)
Prostate (1)
Bone marrow (1)
Insect tissue (1)

Disease

Normal (23)
Breast cancer (14)
Alzheimer's disease (7)
Neuroblastoma (4)
Amyotrophic lateral sclerosis (3)
Primary tumor (2)
Cancer (2)
Reference (2)
Murine hereditary hemochromatosis (2)
Prostate cancer (2)
Ovarian tumor (2)
Inoculated with P. syringae pv. tomato strain DC3000 + avrRps4 (1)
Sporadic ALS (1)
Pheochromocytoma (1)
Respiratory syncytial virus infection (1)
Psoriasis vulgaris (1)
Non diseased (1)
Oropharynx squamous-cell carcinoma in DiseaseLocation oropharynx has DiseaseStaging lymph node negative (N0) (1)
Hepatocellular carcinoma-non tumorous region (1)
Spindle cell tumor (1)
Not applicable (1)
VAT - Ventilated associated tracheobronchitis (1)
Blumeria graminis f.sp. Hordei inoculated (1)
Embryonic lethal at day 8.5 to 9.5 (1)
Chordoma (1)
Gliosarcoma (1)
Mild hyperglycemia, liver dysfunction, and renal glycosuria (1)
CAMN (1)
Insulin resistance (1)
Erythroleukemia (1)

Technology Type

Mass Spectrometry (525)
Shotgun proteomics (217)
Mass spectrometry (152)
ESI (149)
Bottom-up proteomics (64)
Data-dependent acquisition (38)
Affinity purification coupled with mass spectrometry proteomics (27)
Data-independent acquisition (22)
Mass spectrometry assay (20)
Gel-based experiment (19)
Top-down proteomics (13)
NMR spectroscopy (11)
SWATH MS (10)
EI (7)
SRM/MRM (7)
DNA sequencing (6)
RNA mass spectrometry (5)
SWATH-MS (4)
Mass spectrometry (4)
All-ion fragmentation (4)
HDMSE (4)
Chemical cross-linking coupled with mass spectrometry proteomics (4)
RNA-seq (3)
ATAC-seq (3)
Other (3)
Illumina MiSeq, ILLUMINA (1)
ILLUMINA, Illumina HiSeq 2500 (1)
Illumina HiSeq 2000, HiSeq X Ten, ILLUMINA (1)
Multiple (1)
APCI (1)

Instrument Platform

NextSeq 500 (61)
Illumina HiSeq 2000 (61)
Illumina NovaSeq 6000 (57)
Illumina HiSeq 2500 (47)
BGISEQ-500 (43)
Illumina HiSeq 4000 (40)
DNBSEQ-T7 (34)
NextSeq 2000 (11)
Illumina MiSeq (11)
Scanning hardware (10)
NextSeq 550 (9)
Affymetrix GeneChip Scanner 3000 7G (8)
Agilent G2505B scanner (8)
G2565AA DNA microarray scanner [Agilent] (8)
Illumina HiSeq 3000 (8)
Illumina HiSeq 1500 (7)
AB SOLiD 4 System (6)
G2500A Hewlett Packard (6)
Axon- GenePix4000B (6)
Agilent High resolution C scanner (5)
Maxwell 16 Instrument (5)
Illumina Genome Analyzer IIx (5)
GenePix 4000B [Axon Instruments] (5)
Genepix (4)
Agilent G2565AA and G2565BA Microarray Scanner (4)
Agilent high resolution C scanner (3)
Agilent Scanner G2505B (3)
The Agilent scanner G2565BA (3)
NanoDrop ND-1000 Spectrophotometer (NanoDrop Technologies) (3)
ScanArray 5000 [PerkinElmer] (3)

Publication Date

2013 (1092)
2014 (888)
2015 (876)
2012 (749)
2010 (622)
2016 (581)
2011 (574)
2008 (196)
2023 (190)
2021 (190)
2009 (186)
2022 (159)
2020 (139)
2025 (133)
2019 (117)
2018 (102)
2017 (102)
2026 (94)
2007 (93)
2024 (89)
2005 (56)
2006 (50)
2004 (24)
2003 (10)
2002 (5)

UNIPROT ID/AC

F207A_MOUSE (2)
ERF_MOUSE (2)
Q6NXK9_MOUSE (2)
CCD9B_MOUSE (2)
PP4P1_MOUSE (2)
RC3H1_MOUSE (2)
DNJB9_MOUSE (2)
MED19_MOUSE (2)
MFSD3_MOUSE (2)
ELF1_MOUSE (2)
SERC2_MOUSE (2)
CEFIP_MOUSE (2)
IPO13_MOUSE (2)
SCC4_MOUSE (2)
SIAT6_MOUSE (2)
G3X9M3_MOUSE (2)
RBM42_MOUSE (2)
KIF23_MOUSE (2)
TM147_MOUSE (2)
F241B_MOUSE (2)
E9Q3K4_MOUSE (2)
P01100 (1)
Q9Y6W6 (1)
P28562 (1)
Q05923 (1)
Q16690 (1)
Q13115 (1)
Q13202 (1)
P27361 (1)
P28482 (1)

CHEBI ID

CHEBI:15741 (35)
CHEBI:17596 (34)
CHEBI:17568 (33)
CHEBI:30769 (32)
CHEBI:17368 (32)
CHEBI:15428 (31)
CHEBI:18012 (31)
CHEBI:28044 (31)
CHEBI:16335 (29)
CHEBI:16708 (28)
CHEBI:16704 (28)
CHEBI:15756 (28)
CHEBI:16737 (27)
CHEBI:16027 (27)
CHEBI:17822 (27)
CHEBI:16750 (27)
CHEBI:6650 (27)
CHEBI:27897 (26)
CHEBI:26271 (26)
CHEBI:18237 (26)
CHEBI:16811 (25)
CHEBI:28842 (25)
CHEBI:15891 (25)
CHEBI:32816 (24)
CHEBI:25017 (24)
CHEBI:33508 (24)
CHEBI:28300 (24)
CHEBI:50211 (2)
CHEBI:9168 (1)
CHEBI:67079 (1)

Metabolite Name

Hypoxanthine (25)
Taurine (24)
Xanthine (23)
Uridine (23)
Glycine (21)
Uracil (20)
Inosine (20)
L-Tyrosine (20)
Adenine (19)
L-Phenylalanine (19)
Creatinine (18)
L-Valine (18)
Serine (17)
Ornithine (17)
Glyceric acid (17)
L-Threonine (17)
Proline (17)
Guanosine (17)
Glutamine (17)
Palmitic acid (17)
Citric acid (17)
Tryptophan (17)
Phenylalanine (17)
Adenosine (17)
L-Proline (17)
Pyroglutamic acid (16)
L-Leucine (16)
Stearic acid (16)
Creatine (16)
L-Histidine (15)

First Public Date

2025 (54)
2014 (52)
2024 (31)
2023 (29)
2021 (28)
2026 (27)
2022 (24)
2018 (17)
2020 (16)
2019 (10)
2015 (10)
2016 (7)
2013 (6)
2017 (3)
2012 (1)

Modelling Approach

Ordinary differential equation model (8)
Computational model (1)

Study status

Active, not recruiting (1)
Not provided (1)
Completed (1)
Not yet recruiting (1)

Lab affiliation

Centre for Proteome Research, University of Liverpool, Liverpool, UK (9)
Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, United States (5)
Pacific Northwest National Laboratory (5)
National Engineering Research Center for the Emergency Drug, Beijing Institute of Pharmacology and Toxicology, Beijing 100850, China (3)
University Hospital Cologne (3)
Michigan State University (3)
Institute of Neuroscience, College of Medicine, Xiamen University, Xiamen, Fujian 361005, China (2)
Inserm U1016, Institut Cochin, 24 rue du Faubourg Saint-Jacques, 75014 PARIS, FRANCE. (2)
Professor Emeritus Department of Chemistry The University of Texas at San Antonio Effective July 1, 2026: Johnson Foundation Professor of Chemical Enzymology Department of Biochemistry and Biophysics, Perelman School of Medicine Department of Chemistry, School of Arts and Sciences University of Pennsylvania, Philadelphia, PA 19104 (2)
Infection and Immunity Program, Biomedicine Discovery Institute & Department of Biochemistry and Molecular Biology, Monash University, Clayton, Victoria 3800, Australia (2)
Research Institute for Medicines (iMed.ULisboa), Faculty of Pharmacy, Universidade de Lisboa, Lisbon, Portugal. (2)
NREL (2)
Molekulare Genomanalyse (B050) Deutsches Krebsforschungszentrum Im Neuenheimer Feld 580 69120 Heidelberg Germany (2)
Tianjin Medical University General Hospital (2)
Division of Cell Matrix Biology & Regenerative Medicine (L5) / Division of Cell Matrix Biology & Regenerative Medicine, University of Manchester (2)
The Forsyth Institute (2)
Foetal Exposure Group School of Clinical Sciences University of Bristol United Kingdom (2)
Institute of Plant and Microbial Biology, Academia Sinica (2)
School of Pharmacy and Department of Chemistry, University of Wisconsin-Madison (2)
Internal Diseases Clinic, Faculty of Veterinary Medicine, University of Zagreb, Zagreb, Croatia (2)
Moffitt Cancer Center (2)
Head Proteomics Group, Leiden University Medical Center, Center for Proteomics and Metabolomics, PO Box 9600, Postal zone P1-Q, 2300 RC Leiden, The Netherlands (2)
BK21 FOUR Community-Based Intelligent Novel Drug Discovery Education Unit, College of Pharmacy and Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu 41566, Republic of Korea (2)
Texas Tech University (2)
Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02215, USA., Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA (2)
IMB Academia Sinica (2)
Molecular Biology and the Lewis-Sigler Institute for Integrative Genomics, Princeton University, USA (2)
Bioprocessing Technology Institute , Agency for Science, Technology and Research-A*STAR, 20 Biopolis Way 06-01, Singapore 138668, Republic of Singapore (1)
Department of Neuroscience , Tufts University (1)
Molecular Biology and Lewis-Sigler Institute for Intergrative Genomics, Princeton University, USA (1)

Keyword

Western pattern diet (1)
Acceptability (1)
Feasibility (1)
Sick-leave (1)
Hospital stay (1)
Behavioral intervention (1)
Cancer survivor (1)
Randomized controlled trial (1)
Morbidity (1)
Compliance (1)

IsPrivate

False (10)

Submitter Keywords

FAIR-AIML (1)
Machine Learning Model (1)

Classification

bacteria (7)
fungi (3)
protozoa (2)

Modification

4-tetrahydrothiazine-3-carboxylic acid (4)
N6 (2)
N6-dimethyl-L-lysine (1)
Not available (1)

Study type

Transcription profiling by array (4480)
ChIP-seq (829)
RNA-seq of coding RNA (244)
ChIP-chip by tiling array (235)
ChIP-chip by array (92)
Other (72)
DNA-seq (71)
Comparative genomic hybridization by array (65)
RNA-seq of non coding RNA (52)
Methylation profiling by array (51)
Unknown experiment type (48)
Genotyping by array (30)
Methylation profiling by high throughput sequencing (30)
Cell line - High-throughput sequencing (22)
Transcription profiling by tiling array (21)
RNA-seq of coding RNA from single cells (18)
Proteomic profiling by array (15)
CUT&RUN (15)
MicroRNA profiling by array (14)
High-throughput sequencing (11)
Animal - One-color microarray (9)
CLIP-seq (9)
RNA-seq of total RNA (9)
Cell line - One-color microarray (8)
Transcription profiling by RT-PCR (8)
RIP-seq (8)
Animal - Two-color microarray (7)
Plant - One-color microarray (7)
RNAi profiling by array (7)
RIP-chip by array (6)

Release Date

2013 (1214)
2015 (1140)
2014 (1139)
2012 (846)
2016 (792)
2022 (765)
2021 (709)
2025 (707)
2023 (701)
2010 (677)
2011 (632)
2024 (597)
2020 (579)
2019 (566)
2018 (504)
2017 (423)
2009 (235)
2008 (228)
2026 (117)
2007 (114)
2006 (74)
2005 (62)
2004 (31)
2003 (15)
2002 (15)
2000 (4)
1999 (4)
2001 (3)
1998 (2)
1996 (1)

Location

Australia (2)
China (1)
Sweden (1)

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Pseudomonas aeruginosa strain:PA-1 | isolate:PA-1

Pseudomonas aeruginosa strain:PA-1 | isolate:PA-1 Genome sequencing

PRJNA839732 | ENA

Pseudomonas aeruginosa strain:PA-1 | isolate:PA-1

Pseudomonas aeruginosa strain:PA-1 | isolate:PA-1 Genome sequencing

PRJNA839740 | ENA

Pseudomonas aeruginosa strain:PA-1

Pseudomonas aeruginosa strain:PA-1 Genome sequencing

PRJNA1427405 | ENA

Human PA-1 cells treated with scrambled or specific ASOs

We describe the discovery of sno-lncRNAs, a class of nuclear-enriched intron-derived long noncoding RNAs (lncRNAs) that are processed on both ends by the snoRNA machinery. During exonucleolytic trimming, the sequences between the snoRNAs are not degraded, leading to the accumulation of lncRNAs flank...

ORGANISM(S): Homo sapiens

2013-04-26 | E-GEOD-38541 | biostudies-arrayexpress

Effect of DGCR8 knockout and heterozygosity pri-miRNA processing in PA-1 cells

PRJNA810449 | ENA

Transcription profiling by array of Enterococcus faecalis V583 spontaneous pediocin PA-1 mutants MOP1, MOP2 and MOP5 and delta-mptD mutant MOM1 to study class IIa bacteriocin resistance

The transcriptional responses of class IIa bacteriocin resistance in 4 mutants of Enterococcus faecalis V583; three spontaneous pediocin PA-1 mutants; MOP1, MOP2 and MOP5 and one delta-mptD mutant called MOM1, studied by microarrays in E. faecalis V583.

ORGANISM(S): Enterococcus faecalis

2011-03-03 | E-TABM-934 | biostudies-arrayexpress

Transcriptomic effects of Ocean Acidification and their modulation by energy availability in the life-cycle stages of the coccolithophore Emiliania huxleyi

To investigate the effects of ocean acidification (OA) and their energy-dependent modulation in the life-cycle stages of E.huxleyi, diploid and haploid cells were acclimated to present and future CO2 partial pressures (pCO2; 38.5 Pa vs. 101.3 Pa CO2) under low and high light (50 vs. 300 M-5mol photo...

ORGANISM(S): Emiliania huxleyi

2012-11-01 | E-MEXP-3624 | biostudies-arrayexpress

Effect of DGCR8 heterozygosity on steady state RNA levels in embryonic teratocarcinoma PA-1 cells

PRJNA810447 | ENA

Effect of DGCR8 heterozygosity on steady state miRNA levels in embryonic teratocarcinoma PA-1 cells

PRJNA810448 | ENA

NMR-based metabolic profiling of children with premature adrenarche