chemostat - OmicsDI

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Genomics (556)
Unknown (410)
Transcriptomics (385)
Proteomics (47)
Models (41)
Metabolomics (5)
Other (4)

Organisms

Saccharomyces cerevisiae (195)
Escherichia coli (50)
Escherichia coli K-12 (16)
Penicillium chrysogenum (13)
Methanococcus maripaludis S2 (10)
Campylobacter jejuni (8)
Yarrowia lipolytica (7)
Lactococcus lactis (6)
Escherichia coli str. K-12 substr. MG1655 (6)
Clostridium acetobutylicum (5)
Rhodopirellula baltica (3)
Shewanella oneidensis MR-1 (3)
Ruegeria pomeroyi DSS-3 (3)
Mycobacterium tuberculosis (3)
Corynebacterium glutamicum ATCC 13032 (3)
Dinoroseobacter shibae DFL 12 = DSM 16493 (3)
Methanothermobacter thermautotrophicus (2)
Nitrosomonas europaea ATCC 19718 (2)
Aspergillus fumigatus (2)
Porphyromonas gingivalis (2)
Pseudomonas aeruginosa (2)
Nitrobacter winogradskyi (2)
Saccharomyces cerevisiae CEN.PK113-7D (2)
Caldicellulosiruptor saccharolyticus (2)
Methanothermobacter marburgensis str. Marburg (1)
Methanothermobacter thermautotrophicus str. Delta H (1)
Dinoroseobacter shibae (1)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (1)
Lactococcus lactis subsp. lactis Il1403 (1)
dechlorinating enrichment culture KB-1 (1)

Organisms

Acetivibrio thermocellus (171)
Saccharomyces cerevisiae (74)
pond metagenome (40)
Escherichia coli (27)
Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821 (14)
Zymomonas mobilis (11)
Penicillium chrysogenum (10)
Methanococcus maripaludis S2 (10)
bioreactor metagenome (6)
Clostridium autoethanogenum (4)
Escherichia coli str. K-12 substr. W3110 (4)
Escherichia coli str. K-12 substr. MG1655 (4)
Campylobacter jejuni (4)
Dinoroseobacter shibae DFL 12 = DSM 16493 (3)
Nitrosomonas europaea ATCC 19718 (3)
Pseudomonas aeruginosa UCBPP-PA14 (3)
Komagataella phaffii CBS 7435 (3)
Trichoderma reesei (3)
Desulfitobacterium hafniense Y51 (2)
Ogataea parapolymorpha (2)
Alicyclobacillus acidocaldarius (2)
Candidatus Methylacidiphilum infernorum (2)
Methanococcus maripaludis (2)
Geobacter sulfurreducens (2)
Shewanella oneidensis MR-1 (2)
Escherichia coli K-12 (2)
Komagataella phaffii (2)
Bacteroides thetaiotaomicron (2)
wastewater metagenome (2)
Lactiplantibacillus plantarum (2)

Repository

ENA (555)
biostudies-arrayexpress (254)
geo (136)
BioModels (39)
pride (35)
MassIVE (6)
iProX (4)
MetaboLights (3)
FAIRDOMHub (2)
GNPS (2)
PAXDB (2)

Tissue

Cell culture (5)
Prokaryotic cell (3)
Cell suspension culture (2)
Cell (1)
Bacterial protein (1)
Plant cell (1)
Photosynthetic cell (1)

Technology Type

Mass Spectrometry (35)
Shotgun proteomics (16)
Bottom-up proteomics (7)
SWATH MS (6)
Data-dependent acquisition (4)
Data-independent acquisition (3)
Mass spectrometry assay (2)
Mass spectrometry (1)
Proteogenomics (1)
All-ion fragmentation (1)

Instrument Platform

NextSeq 500 (6)
TripleTOF 6600 (4)
Trizol (Invitrogen); FastPrep (MP Biochemicals) (3)
DASGIP bioreactors (3)
Chemostat (3)
Ion Torrent Proton (3)
Illumina HiSeq 2500 (3)
RiboZero (2)
GeneChip Scanner 3000 [Affymetrix] (2)
Illumina NovaSeq 6000 (2)
Illumina HiSeq 3000 (2)
Infors-HT Labfors chemostat (1)
Labfors 2 chemostat (Infors AG, Bottmingen, Switzerland) (1)
DNA Microarray Scanner C (#G2505C; Agilent Technologies) (1)
Labfors 3 Chemostat (Infors, Switzerland) (1)
RiboZ (1)
Affymetrix 428 (1)
AB SOLiD 4 System (1)
Computerome (1)
Illumina MiSeq (1)
Illumina HiSeq 1500 (1)
Dionex instrument model (1)
TripleTOF 5600 (1)
Q Exactive HF-X (1)
LTQ Orbitrap Elite (1)
Gas Chromatography MS - positive - medium polarity - Agilent 6890 GC - LECO Pegasus III TOF MS (LECO) (1)
Q Exactive (1)
Gas Chromatography MS - positive (1)
Liquid Chromatography MS - alternating - reverse phase (1)

Publication Date

2016 (50)
2010 (45)
2013 (41)
2007 (36)
2008 (32)
2014 (31)
2011 (30)
2015 (28)
2009 (27)
2012 (22)
2006 (22)
2005 (16)
2023 (15)
2017 (14)
2022 (13)
2018 (10)
2019 (9)
2020 (9)
2026 (8)
2025 (7)
2024 (7)
2021 (6)
2004 (3)

UNIPROT ID/AC

SYT_LACLA (1)
Q9CDK4_LACLA (1)
Q9CH45_LACLA (1)
DEOD_LACLA (1)
Q9CJ13_LACLA (1)
Q9CIP3_LACLA (1)
Q9CG35_LACLA (1)
Q9CGX7_LACLA (1)
Q9CDZ9_LACLA (1)
Q9CIZ6_LACLA (1)
Q9CFM4_LACLA (1)
ADDB_LACLA (1)
Q9CE16_LACLA (1)
Q9CHJ2_LACLA (1)
Q9CJE9_LACLA (1)
Q9CFC1_LACLA (1)
ISPT_LACLA (1)
ECFA1_LACLA (1)
PEPT_LACLA (1)
Q9CEL4_LACLA (1)
GNGF_LACLA (1)
Q9CGD1_LACLA (1)
FTSK_LACLA (1)
RS10_LACLA (1)
YJFJ_LACLA (1)
Q9CIF1_LACLA (1)
SYS_LACLA (1)
GLA_LACLA (1)
Q9CDK3_LACLA (1)
ENO1_LACLA (1)

CHEBI ID

CHEBI:17268 (36)
CHEBI:16134 (35)
CHEBI:29985 (34)
CHEBI:32364 (34)
CHEBI:16240 (34)
CHEBI:32814 (34)
CHEBI:36242 (34)
CHEBI:16452 (34)
CHEBI:16630 (34)
CHEBI:15377 (34)
CHEBI:15980 (34)
CHEBI:36464 (34)
CHEBI:29748 (34)
CHEBI:11561 (34)
CHEBI:17865 (34)
CHEBI:30089 (34)
CHEBI:17172 (34)
CHEBI:17256 (34)
CHEBI:16335 (34)
CHEBI:15343 (34)
CHEBI:15361 (34)
CHEBI:16526 (34)
CHEBI:16551 (34)
CHEBI:16828 (33)
CHEBI:15380 (33)
CHEBI:44337 (33)
CHEBI:29123 (33)
CHEBI:13086 (33)
CHEBI:15971 (33)
CHEBI:17203 (33)

Metabolite Name

Trehalose (2)
Homoserine (2)
N-acetylalanine (2)
Mannose (2)
Glycerol (2)
Myo-inositol (2)
Valine (2)
Uracil (2)
Tyrosine (2)
Tryptophan (2)
Threonine (2)
Serine (2)
Phenylalanine (2)
Lysine (2)
Leucine (2)
Isoleucine (2)
Histidine (2)
Glycine (2)
Glutamine (2)
Glucose (2)
Cysteine (2)
Cystathionine (2)
Arginine (2)
Alanine (2)
Adenine (2)
3-phosphoglycerate (2)
Dehydroergosterol (1)
Sugar-phosphate (1)
Stearic acid-propyl ester (1)
Myo-inositol-6-phosphate (1)

First Public Date

2018 (181)
2014 (134)
2017 (51)
2026 (47)
2019 (22)
2024 (21)
2020 (18)
2023 (17)
2022 (14)
2021 (11)
2016 (11)
2025 (10)
2015 (9)
2013 (9)

Modelling Approach

Constraint-based model (6)

Lab affiliation

Department of Modeling of Biological Processes COS, Heidelberg University (2)
Competence Center for Food and Fermentation Technologies (2)
University of Calgary (2)
Australian Institute for Bioengineering and Nanotechnology, The University of Queensland (2)
Wageningen University (2)
University of New South Wales, School of Biotechnology and Biomolecular Sciences (1)
Helmholtz-Centrte for Environmental Research - UFZ GmbH Department of Molecular Systems Biology Permoserstr. 15 04318 Leipzig, Germany (1)
Department of Aquatic Ecology, Eawag, Überlandstrasse 133, 8600 Dübendorf, Switzerland (1)
Institute for Biological Resources and Marine Biotechnology (IRBIM) (CNR), Spianata San Raineri, 86, 98121 Messina, Italy (1)
Melbourne Dental School, University of Melbourne, Australia (1)
University of Virginia School of Medicine (1)
University of Manchester, Faculty of Life Sciences,B1072 Michael Smith Building, Oxford Road, Manchester, M13 9PT (1)
University of Tübingen Center for Applied Geosciences Environmental Biotechnology Group (1)
The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Building 220, Kemitorvet, 2800 Kgs. Lyngby, Denmark (1)
Department of Modeling of Biological Processes COS, Heidelberg University, Germany (1)
ERA Chair in Gas Fermentation Technologies, Institute of Technology, University of Tartu (1)
ValgepeaLab, Institute of Bioengineering, University of Tartu (1)
Delft University of Technology - TUD Department of Biotechnology, The Netherlands (1)
ERA Chair in Gas Fermentation Technologies, Institute of Technology, University of Tartu, Tartu, Estonia (1)
Department of Molecular Biology and Biotechnology The University of Sheffield Sheffield S10 2TN, UK (1)
Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland (1)
Department of Microbiology, University of Massachusetts Amherst (1)
Full Professor for Analytical Chemistry Institute of Chemical Technologies and Analytics TU Wien Getreidemarkt 9/E164 A-1060 Vienna Austria (1)
Professor. Department of Biology and Biological Engineering, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Wallenberg Center for Protein Research, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Novo Nordisk Foundation Center for Biosustainability, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Lyngby, Denmark (1)
Food Biotechnology Department, Instituto de Agroquímica y Tecnología de Alimentos (IATA), Consejo Superior de Investigaciones Científicas (CSIC), Valencia, Spain (1)
Department of Biotechnology, Delft University of Technology, The Netherlands. (1)
Department of Microbial Proteomics, Institute of Microbiology, University of Greifswald, Greifswald, Germany (1)
Department of Biotechnology, TU Delft, The Netherlands (1)
Head of Biochemistry Centre for Proteome Research G44, Biosciences Building| Institute of Integrative Biology University of Liverpool Crown Street Liverpool L69 7ZB (1)
Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, Australia (1)

IsPrivate

False (39)

Model Flag

Non Kinetic (35)

Submitter Keywords

FROG (3)

Classification

bacteria (55)
fungi (1)

Study type

Transcription profiling by array (192)
RNA-seq of coding RNA (27)
Unknown experiment type (14)
Transcription profiling by tiling array (12)
Comparative genomic hybridization by array (3)
High-throughput sequencing (2)
Other (1)
ChIP-seq (1)
RNA-seq of total RNA (1)
RNA-seq of non coding RNA (1)

Release Date

2010 (53)
2013 (45)
2022 (44)
2015 (42)
2008 (41)
2014 (39)
2019 (35)
2020 (33)
2016 (32)
2011 (32)
2018 (30)
2012 (30)
2007 (28)
2017 (26)
2023 (24)
2009 (23)
2025 (21)
2021 (20)
2005 (16)
2006 (15)
2024 (12)
2004 (5)
2001 (4)
2026 (3)
2002 (3)
1999 (3)
1998 (3)
2000 (2)

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PrePhage Chemostat

PrePhage Chemostat Metagenome

PRJNA1121201 | ENA

PrePhage4 Chemostat

PrePhage4 Chemostat Metagenome

PRJNA1130379 | ENA

Transcription profiling of S. cerevisiae after prolonged selection in aerobic, glucose-limited chemostat cultures

Prolonged cultivation of Saccharomyces cerevisiae in aerobic, glucose-limited chemostat cultures (dilution rate, 0Â·10 hâ€“1) resulted in a progressive decrease of the residual glucose concentration (from 20 to 8 mg lâ€“1 after 200 generations). This increase in the affinity for glucose was accompan...