Pha - OmicsDI

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Organisms

Homo sapiens (60)
activated sludge metagenome (14)
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bioreactor metagenome (7)
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soil metagenome (4)
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plastic metagenome (2)
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Acidovorax sp. A1169 (1)
Candidatus Competibacter denitrificans Run_A_D11 (1)
Aeromonas hydrophila 4AK4 (1)
Thauera mechernichensis (1)
Halomonas qinghailakensis (1)
Massilia sp. UMI-21 (1)
PHA-producing enrichment culture (1)
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Leucobacter sp. TV5 (1)
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Repository

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pride (33)
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Technology Type

Mass Spectrometry (33)
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Instrument Platform

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CHEBI ID

CHEBI:24846 (1)
CHEBI:89628 (1)
CHEBI:45212 (1)
CHEBI:28518 (1)
CHEBI:17544 (1)
CHEBI:6731 (1)
CHEBI:16489 (1)
CHEBI:1230 (1)
CHEBI:33942 (1)
CHEBI:17992 (1)
CHEBI:33508 (1)
CHEBI:4170 (1)
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CHEBI:15824 (1)
CHEBI:15428 (1)
CHEBI:14336 (1)
CHEBI:16551 (1)
CHEBI:4167 (1)
CHEBI:15741 (1)
CHEBI:30746 (1)
CHEBI:17497 (1)
CHEBI:17821 (1)
CHEBI:30835 (1)
CHEBI:17196 (1)
CHEBI:17115 (1)

Metabolite Name

3-hydroxypentanoic acid (1)
3-hydroxybutyric acid (1)

First Public Date

2026 (41)
2014 (35)
2025 (34)
2024 (30)
2021 (27)
2022 (25)
2023 (24)
2020 (17)
2013 (13)
2019 (12)
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2015 (10)
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Modelling Approach

Constraint-based model (2)

Study status

Completed (1)

Lab affiliation

University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (6)
Professor in Microbiology and Biochemistry School of Biomolecular and Biomedical Science https://www.ucd.ie/sbbs/ BiOrbic https://biorbic.com UCD O'Brien Centre for Science 4th Floor, room E4.09 University College Dublin Belfield D4, Ireland (2)
Aalborg University Department of Chemistry and Bioscience 9220 Aalborg, Denmark (1)
Biochemistry and Molecular Biology, University of Arkansas for Medical Sciences, Little Rock, AR (1)
Chair of Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany (1)
Department of Biology Institute of Molecular Systems Biology ETH Zurich Switzerland (1)
Department of Medicine I (1)
Department of Molecular Science and Technology and College of Advanced Bio-convergence Engineering, Ajou University, Suwon 16499, Republic of Korea (1)
Head Proteomics Group, Leiden University Medical Center, Center for Proteomics and Metabolomics, PO Box 9600, Postal zone P1-Q, 2300 RC Leiden, The Netherlands (1)
Institute of Human Nutrition and Food Science, Department of Metabolomics, University of Kiel, Germany Max Planck Institute for Marine Microbiology, Bremen, Germany (lab head) (1)
Instituto Politécnico Nacional, Mexico, Mexico (1)
Instituto de Biotecnología y Biología Molecular (IBBM-CONICET). La Plata, Buenos Aires, Argentina. (1)
Medicity Research Laboratories and Institute of Biomedicine, Faculty of Medicine, University of Turku, Finland Turku Bioscience Center, University of Turku and Åbo Akademi University, Finland (1)
Polymer Biotechnology Lab Centro de Investigaciones Biologicas(CIB) Consejo Superior de Investigaciones Científicas (CSIC) C/ Ramiro de Maeztu, 9. 28040 Madrid, Spain (1)
Proteomics and Mass Spectrometry lab Max Planck Institute of Biophysics Max Planck Institute for Brain Research Max von Laue Strasse 3/4 60438 Frankfurt am Main Germany (1)
Research Faculty of Agriculture, Hokkaido University, Sapporo, Japan (1)
School of Biomolecular and Biomedical Science, University College Dublin, Belfield, Dublin 4, Ireland (1)
State Key Laboratory of Virology and Hubei Province Key Laboratory of Allergy and Immunology, Institute of Medical Virology, School of Basic Medical Sciences, Wuhan University, Wuhan, China (1)
The Institute of Cardiovascular Sciences College of Medical and Dental Sciences Institute of Biomedical Research (IBR) room 229 University of Birmingham Edgbaston, Birmingham, B15 2TT (1)
UCD Earth Institute and School of Biomolecular and Biomedical Science, University College Dublin, Belfield, Dublin 4, Ireland BEACON - Bioeconomy Research centre, Ireland, University College Dublin, Belfield, Dublin 4, Ireland (1)
UCD Earth Institute and School of Biomolecular and Biomedical Science, University College Dublin, Belfield, Dublin 4, Ireland BiOrbic - Bioeconomy Research centre, Ireland, University College Dublin, Belfield, Dublin 4, Ireland (1)
UCSF (1)
University College Dublin, School of Biomolecular and Biomedical Science, Conway Institute Belfield Dublin 4 (1)
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University of Idaho, Department of Civil Engineering (1)
Universität Greifswald Institut für Pharmazie, AG Pharmazeutische Biotechnologie Greifswald, Germany (1)
Universitätsklinikum Heidelberg Medizinische Klinik - Med.V Im Neuenheimer Feld 410 69120 Heidelberg (1)

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False (2)

Model Flag

Non Kinetic (1)

Submitter Keywords

Manuscript Accepted (1)

Classification

bacteria (5)
viruses (1)

Modification

15.994915 (1)
57.021464 (1)

Study type

Transcription profiling by array (91)
ChIP-seq (41)
RNA-seq of coding RNA (16)
ChIP-chip by tiling array (6)
RNA-seq of coding RNA from single cells (3)
ChIP-chip by array (2)
Comparative genomic hybridization by array (2)
Methylation profiling by array (2)
RNA-seq of non coding RNA (2)
Animal - Two-color microarray (1)
Unknown experiment type (1)
Cell line - One-color microarray (1)
Transcription profiling by tiling array (1)
Other (1)
MicroRNA profiling by array (1)
Methylation profiling by high throughput sequencing (1)
Interventional (1)

Release Date

2022 (162)
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2011 (62)
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1999 (6)
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1998 (5)
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2003 (1)

Location

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Transcriptional analysis of an E2F gene signature as a biomarker of activity of the cyclin-dependent kinase inhibitor PHA-793887 in tumor and skin biopsies from a phase I clinical study

Microarray analysis of transcriptional changes in biopsies of solid tumors from patients treated in a Phase I study with the Cdk inhibitor PHA-793887. 7 patient biopsies pre- and post-treatment in dye swap. Tumors are of different origins, and are described in the accompanying manuscript.

ORGANISM(S): Homo sapiens

2010-05-28 | E-GEOD-18553 | biostudies-arrayexpress

PHA-4 organogenesis

The pha-4 locus encodes a forkhead box A (FoxA/HNF3) transcription factor homolog that specifies organ identity for Caenorhabditis elegans pharyngeal cells. We used microarrays to identify pharyngeal genes and analyzed those genes to determine which were direct PHA-4 targets. Our data suggest that P...

ORGANISM(S): Caenorhabditis elegans

2005-11-25 | E-GEOD-3681 | biostudies-arrayexpress

Bradyrhizobium sp. Pha-3

Bradyrhizobium sp. Pha-3 Genome sequencing

PRJNA1160011 | ENA

A New Wave of Industrialization of PHA Biopolyesters.

Not available

S-EPMC8869736 | biostudies-literature

CDK inhibitors PHA-848125 and PHA-690509 profiling on A2780

The effects of the CDK inhibitors PHA-848125 and PHA-690509 on the A2780 cell line were analysed by gene expression profiling. The A2780 cell line was treated with PHA-848125 (CDk-125) or PHA-690509 (CDk-509) for 6 hours at a dose equal to 5 times the IC50. Untreated A2780 cells were used as a contr...

ORGANISM(S): Homo sapiens

2010-07-14 | E-GEOD-18486 | biostudies-arrayexpress

LysR type transcriptional regulator TtdR regulates both ethylene glycol and polyhydroxyalkanoate (PHA) metabolism in Pseudomonas umsongensis GO16 Dataset 1

Proteomic analysis was employed to elucidate the regulatory role of TtdR, a LysR-type transcriptional regulator located upstream of the glyoxylate carboligase gene (gcl) in Pseudomonas umsongensis GO16. While the wildtype strain can utilize ethylene glycol (EG) as a sole carbon and energy source, th...

ORGANISM(S): Pseudomonas umsongensis

2026-09-07 | PXD075284 | Pride

LysR type transcriptional regulator TtdR regulates both ethylene glycol and polyhydroxyalkanoate (PHA) metabolism in Pseudomonas umsongensis GO16 Dataset 2

ORGANISM(S): Pseudomonas umsongensis

2026-09-07 | PXD075327 | Pride

Pseudomonas umsongensis go16 terephthalic acid glucose lysr-type transcriptional regulator polyhydroxyalkanoates

Direct PHA accumulation

Enhanced polyhydroxyalkanoate (PHA) production by a combined growth and storage response in waste activated sludge

PRJEB75957 | ENA

Mammal diversity survey of Ko Pha-ngan in Surat Thani Province, Thailand.

Not available

S-EPMC11880819 | biostudies-literature

PHA production mixed cultures

PHA production mixed cultures Raw sequence reads

PRJNA718021 | ENA

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