Prokaryotes - OmicsDI

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Organisms

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Bradyrhizobium barranii subsp. barranii (7)
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aquatic metagenome (7)
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symbiont metagenome (3)
uncultured prokaryote (3)

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Technology Type

Mass spectrometry (198)
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Instrument Platform

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UNIPROT ID/AC

3880.AES58538 (6)
3880.AES58539 (6)
3880.AES58557 (6)
3880.AES58577 (6)
3880.AES58595 (6)
3880.AES58596 (6)
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3880.AES58766 (6)
3880.AES58788 (6)
3880.AES58833 (6)
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Q59E16 (1)
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P00936 (1)
P69783 (1)
P08839 (1)
O61734 (1)
O61735 (1)
P07663 (1)

CHEBI ID

CHEBI:15741 (43)
CHEBI:17568 (42)
CHEBI:18257 (40)
CHEBI:16750 (40)
CHEBI:30769 (40)
CHEBI:17596 (39)
CHEBI:17368 (39)
CHEBI:16708 (38)
CHEBI:15428 (38)
CHEBI:16335 (38)
CHEBI:16704 (38)
CHEBI:15940 (35)
CHEBI:18012 (35)
CHEBI:15756 (35)
CHEBI:15891 (34)
CHEBI:18237 (33)
CHEBI:16811 (33)
CHEBI:6650 (33)
CHEBI:17154 (33)
CHEBI:17992 (32)
CHEBI:28044 (32)
CHEBI:30915 (32)
CHEBI:32816 (31)
CHEBI:17748 (31)
CHEBI:44897 (16)
CHEBI:17489 (1)
CHEBI:4170 (1)
CHEBI:4167 (1)
CHEBI:15422 (1)
CHEBI:33699 (1)

Metabolite Name

Hypoxanthine (57)
Uracil (54)
Adenine (52)
Uridine (51)
Inosine (49)
Adenosine (48)
Ornithine (46)
Guanosine (45)
Thymine (43)
Guanine (42)
Cytosine (42)
Thymidine (42)
Glycine (39)
Taurine (39)
Citric acid (39)
Cytidine (39)
L-Tyrosine (39)
Stearic acid (38)
Palmitic acid (38)
Azelaic acid (38)
Myristic acid (38)
Creatinine (38)
Creatine (38)
Xanthosine (37)
Xanthine (37)
Succinic acid (36)
Sucrose (36)
L-Phenylalanine (36)
Oleic acid (35)
Pentadecanoic acid (33)

First Public Date

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2017 (52)
2013 (43)
2014 (42)
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2015 (24)
2012 (3)

Modelling Approach

Ordinary differential equation model (2)
Constraint-based model (2)
Differential equation model (1)

Lab affiliation

Plant Physiology Group Westfälische WIlhelms-Universität Münster Germany (3)
Albert-Ludwigs-Universität Freiburg, Institut für Biologie III, Schänzlestr. 1, 79104 Freiburg, Germany (2)
Department of Biotechnology, Faculty of Converging Sciences and Technologies, Islamic Azad University, Science and Research Branch, Tehran, Iran, Mailbox: 775/14515, Postcode: 1477893855, ORCID: 0000-0001-6656-777X (2)
-Harry Perkins Institute of Medical Research, Nedlands, Western Australia 6009, Australia -School of Pharmacy and Biomedical Sciences, Curtin University, Bentley, Western Australia 6102, Australia -Curtin Health Innovation Research Institute, Curtin University, Bentley, WA 6102, Australia (1)
2The Key Laboratory of Integrated Crop Pest Management of Shandong Province, College of Agronomy and Plant Protection, Qingdao Agricultural University, Qingdao 266109, China (1)
4Cellular Proteome Research, Helmholtz Centre for Infection Research, Braunschweig, Germany (1)
ARC Centre of Excellence in Plant Energy Biology at The University of Western Australia (1)
Academia Sinica Institute of Biological Chemistry(IBC), Dr. Shih-Hsiung Wu's lab, Taipei, Taiwan (R.O.C.) (1)
Anesthesiology Department, The First Affiliated Hospital of Ningbo University, Ningbo, China (1)
Bavarian Center for Biomolecuar Mass Spectrometry (BayBioMS, Technical University of Munich (TUM), Freising, Germany (1)
Biochemistry III – Institute for Biochemistry, Genetics and Microbiology – University of Regensburg – Germany (1)
Boston College, Department of Chemistry (1)
Capital Institute of Pediatrics (1)
Centre scientifique de Monaco, Monaco (1)
Civil and Environmental Engineering, Virginia Tech, Blacksburg, VA, USA (1)
College of Biological Engineering, Henan University of Technology, Zhengzhou, China (1)
College of Chemistry and Molecular Engineering, Peking University, Beijing, China. (1)
De[artment of Molecular and Cellular Bioanalysis, Graduate School of Pharmaceutical Sciences, Kyoto University (1)
Departamento de Bioquímica e Biologia Molecular, UFPR Curitiba, PR, Brazil (1)
Department of Biochemistry University of Cambridge Cambridge UK CB2 1GA (1)
Department of Biochemistry and Molecular Biology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA 2Sylvester Comprehensive Cancer Center, Miller School of Medicine, University of Miami, Miami, FL 33136, USA (1)
Department of Biochemistry and Molecular Pharmacology, NYU Grossman School of Medicine, New York, US (1)
Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for terrestrial Microbiology, Marburg, Germany (1)
Department of Bioinformatics and Genomics, College of Computing and Informatics, The University of North Carolina at Charlotte, 9201 University City Blvd., Charlotte, NC 28223, USA (1)
Department of Biotechnology, TU Delft, The Netherlands (1)
Department of Biotechnology, Technical University Delft, Julianalaan 67. 2682 BC Delft, The Netherlands (1)
Department of Cell Biology, Harvard Medical School, Boston MA 02115 (1)
Department of Chemical Biology, Key Laboratory for Chemical Biology of Fujian Province, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, Fujian, China (1)
Department of Chemistry and Biochemistry, Florida Atlantic University, Boca Raton, Florida. (1)
Department of Dental Implant Center, Beijing Stomatological Hospital, School of Stomatology, Capital Medical University, Beijing, China (1)

IsPrivate

False (7)

Model Flag

Non Kinetic (2)

Submitter Keywords

FROG (2)

Classification

bacteria (106)
viruses (2)
fungi (1)
protozoa (1)

Study type

Transcription profiling by array (1911)
RNA-seq of coding RNA (509)
Unknown experiment type (87)
Comparative genomic hybridization by array (85)
Other (65)
Transcription profiling by tiling array (56)
ChIP-seq (49)
RNA-seq of non coding RNA (45)
RNA-seq of total RNA (32)
ChIP-chip by tiling array (31)
High-throughput sequencing (31)
DNA-seq (31)
ChIP-chip by array (15)
Methylation profiling by high throughput sequencing (15)
RIP-seq (11)
RNA-seq of coding RNA from single cells (8)
Cell line - High-throughput sequencing (7)
Animal - High-throughput sequencing (5)
Genotyping by array (5)
Ribo-seq (4)
Genotyping by high throughput sequencing (4)
Cell line - One-color microarray (3)
MicroRNA profiling by array (3)
RNAi profiling by array (2)
Transcription profiling by RT-PCR (2)
Transcription profiling by high throughput sequencing (1)
Transcription profiling by SAGE (1)
Two-color microarray (1)
One-color microarray (1)
Plant - High-throughput sequencing (1)

Release Date

2010 (602)
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2001 (22)
1999 (16)
2000 (14)
1998 (9)
1997 (3)

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Suboxic DOM is bioavailable to surface prokaryotes in a simulated overturn of an oxygen minimum zone, Devil’s Hole, Bermuda

Oxygen minimum zones (OMZs) are expanding due to increased sea surface temperatures, subsequent increased oxygen demand through respiration, reduced oxygen solubility, and thermal stratification driven in part by anthropogenic climate change. Devil's Hole, Bermuda is a model ecosystem to study OMZ m...

2024-02-27 | MTBLS8122 | MetaboLights

Soil prokaryotes

Soil prokaryotes in Australia

PRJNA891463 | ENA

Lysine 2-hyroxyisobutyrylome, acetylome and succinylome in prokaryotes

identification of lysine 2-hyroxyisobutyrylome, acetylome and succinylome in prokaryotes

ORGANISM(S): Proteus Mirabilis Atcc 29906 Escherichia Coli

PXD013377 |

NWPO prokaryotes

Western North Pacific Ocean Prokaryotes

PRJNA832528 | ENA

Devils Hole Prokaryotes

Devils Hole Prokaryotes Raw sequence reads

PRJNA1011910 | ENA

The Epigenomic Landscape of Prokaryotes

DNA methylation is an important regulator of genome function in the eukaryotes, but it is currently unclear if the same is true in prokaryotes. While regulatory functions have been demonstrated for a small number of bacteria, there have been no large-scale studies of prokaryotic methylomes and the f...

ORGANISM(S): Flexibacter litoralis DSM 6794

2016-01-20 | E-GEOD-69872 | biostudies-arrayexpress

prokaryotes

prokaryotes Raw sequence reads

PRJNA818534 | ENA

prokaryotes

prokaryotes Raw sequence reads

PRJNA819230 | ENA

prokaryotes

prokaryotes Raw sequence reads

PRJNA819492 | ENA

The Epigenomic Landscape of Prokaryotes