Tolerance engineering

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Unknown (6793)
Transcriptomics (778)
Proteomics (605)
Genomics (277)
Metabolomics (49)
Models (7)
Other (5)
Genomic (1)
Multiomics (1)

Organisms

Mus musculus (129)
Homo sapiens (114)
Arabidopsis thaliana (82)
Saccharomyces cerevisiae (48)
Oryza sativa (26)
Escherichia coli (23)
Rattus norvegicus (15)
Drosophila melanogaster (15)
Glycine max (14)
Zea mays (12)
Triticum aestivum (10)
Oryza sativa Japonica Group (10)
Chlamydomonas reinhardtii (9)
Caenorhabditis elegans (8)
Solanum tuberosum (7)
Bacillus cereus (6)
Apis mellifera (6)
Solanum lycopersicum (6)
Streptococcus mutans (5)
Oryza sativa Indica Group (5)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (4)
Streptococcus mutans UA159 (4)
Brassica juncea (4)
Listeria monocytogenes (4)
Hordeum vulgare (4)
Plasmodium falciparum (4)
Sorghum bicolor (4)
Citrus limonia (3)
Olea europaea (3)
Aspergillus niger (3)

Organisms

Saccharomyces cerevisiae (15)
Escherichia coli (12)
Arabidopsis thaliana (11)
Mus musculus (9)
Homo sapiens (7)
Caenorhabditis elegans (5)
Arachis hypogaea (5)
Escherichia coli str. K-12 substr. MG1655 (4)
Glycine max (4)
Lactobacillus acetotolerans (3)
Pseudomonas putida (3)
Escherichia coli K-12 (3)
Oryza sativa (3)
Oryza sativa Japonica Group (3)
Clostridium acetobutylicum (2)
Reaumuria songarica (2)
Synechocystis sp. PCC 6803 (2)
Corynebacterium glutamicum ATCC 13032 (2)
Triticum aestivum (2)
Oryza sativa Indica Group (2)
Levilactobacillus brevis (2)
Deinococcus sp. CRN13 (1)
Metallosphaera sedula (1)
Paraburkholderia caffeinilytica (1)
Anoxybacillus ayderensis (1)
Salicornia europaea (1)
Rhodococcus jostii (1)
Brettanomyces bruxellensis CBS 2499 (1)
Agriophyllum squarrosum (1)
Escherichia coli W (1)

Repository

biostudies-arrayexpress (730)
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geo (71)
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jPOST (2)
dbGaP (1)
EGA (1)
EVA (1)
GNPS (1)
GPMDB (1)
PAXDB (1)

Tissue

Cell culture (93)
Blood (64)
Epithelial cell (26)
Brain (20)
Whole body (19)
Leaf (18)
T cell (18)
Liver (17)
Plant cell (15)
Permanent cell line cell (13)
Cell suspension culture (12)
B cell (12)
Blood plasma (9)
Lung (9)
HeLa cell (8)
Kidney (8)
Seed (7)
Bone marrow (7)
Hepatocyte (7)
Early embryonic cell (6)
Root (6)
Colon (6)
Macrophage (5)
Blood serum (5)
Stem cell (5)
Fibroblast (5)
Neutrophil (5)
Peripheral blood mononuclear cell (4)
Tendon (4)
Monocyte (4)

Disease

Disease free (77)
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Breast cancer (5)
Alzheimer's disease (4)
Glioblastoma (4)
Acute leukemia (4)
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Type 2 diabetes mellitus (3)
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Miscarriage (2)
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Non-small cell lung carcinoma (2)
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Human papillomavirus infectious disease (2)
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Osteoarthritis (2)
Brain cancer (2)
Tuberculosis (2)
Bacterial infectious disease (1)
Gliosarcoma (1)
Kaposi's sarcoma (1)
Pre-diabetic (1)
Temporal lobe epilepsy (1)
Not Available (1)
Vulvovaginal candidiasis (1)
Azoospermia (1)
Neurotrophic keratoconjunctivitis (1)
Myotonic dystrophy type 1 (1)
Congenital heart disease (1)
Progressive supranuclear palsy (1)

Technology Type

Mass Spectrometry (550)
Shotgun proteomics (279)
Bottom-up proteomics (99)
Top-down proteomics (79)
Data-dependent acquisition (66)
Affinity purification coupled with mass spectrometry proteomics (36)
Mass spectrometry (35)
Gel-based experiment (29)
Data-independent acquisition (14)
Mass spectrometry assay (13)
Chemical cross-linking coupled with mass spectrometry proteomics (11)
SWATH MS (9)
SRM/MRM (6)
All-ion fragmentation (5)
Mass spectrometry imaging (3)
Affinity proteomics (3)
Immunopeptidomics (3)
MSE (3)
HDMSE (3)
NMR spectroscopy assay (1)
Glycoproteomics (1)
RNA mass spectrometry (1)

Instrument Platform

LTQ Orbitrap (13)
Illumina HiSeq 2000 (9)
Illumina NovaSeq 6000 (5)
Agilent high resolution C scanner (3)
Illumina NovaSeq X (3)
Agilent Scanner G2505B (2)
Agilent G2565AA and G2565BA Microarray Scanner (2)
Illumina HiSeq 2500 (2)
NextSeq 500 (2)
ISQ (2)
Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice/ Thermo Fisher Scientific (1)
Macrogen (1)
Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice (1)
Ilumina HiScan H166 (1)
Agilent High resolution C scanner (1)
Maxwell 16 Instrument (1)
PacBio RS II (1)
Illumina iScan (1)
Tissuelyser(Qiagen) Maxwell 16 Robot (Promega) (1)
ScanArray [PerkinElmer] (1)
GenePix 4000A [Axon Instruments] (1)
G2565AA DNA microarray scanner [Agilent] (1)
418 [Affymetrix] (1)
GenePix 4000B [Axon Instruments] (1)
Scanning hardware (1)
Ion Torrent Proton (1)
Illumina MiSeq (1)
Illumina HiSeq 4000 (1)
- (1)
Instrument (1)

Publication Date

2022 (134)
2014 (114)
2010 (114)
2013 (110)
2012 (109)
2015 (107)
2026 (88)
2025 (86)
2023 (83)
2024 (77)
2021 (77)
2011 (67)
2016 (65)
2020 (53)
2019 (41)
2018 (38)
2017 (30)
2008 (23)
2009 (21)
2007 (11)
2005 (4)
2006 (3)

UNIPROT ID/AC

P0A7L0 (1)
P0AG67 (1)
A0A1S4C5Z3_TOBAC (1)
A1XEL4_TOBAC (1)
SAHH_TOBAC (1)
A0A1S4BAB4_TOBAC (1)
A0A1S4CJ42_TOBAC (1)
A0A1S4ALI5_TOBAC (1)
A0A1S3YAA4_TOBAC (1)
A0A1S4AAJ0_TOBAC (1)
A0A1S4AZF8_TOBAC (1)
A0A1S3XZ12_TOBAC (1)
A0A1S4ASU6_TOBAC (1)
A0A1S4AT66_TOBAC (1)
A0A1S4C8X1_TOBAC (1)
A0A1S4B1W8_TOBAC (1)
A0A1S4AQ88_TOBAC (1)
A0A1S3YC29_TOBAC (1)
A0A1S4AGI8_TOBAC (1)
A0A1S4D1D4_TOBAC (1)
A0A1S4AGZ2_TOBAC (1)
A0A1S4A638_TOBAC (1)
A0A1S3XUV5_TOBAC (1)
A0A1S4BBR9_TOBAC (1)
A0A1S3X2Z3_TOBAC (1)
A0A1S3ZJN1_TOBAC (1)
A0A1S3ZUM6_TOBAC (1)
A0A1S4CKU1_TOBAC (1)
A0A1S3ZIA8_TOBAC (1)
A0A1S4CEY5_TOBAC (1)

CHEBI ID

CHEBI:30769 (10)
CHEBI:15741 (9)
CHEBI:25094 (8)
CHEBI:16335 (8)
CHEBI:29016 (8)
CHEBI:17992 (7)
CHEBI:17822 (7)
CHEBI:26271 (7)
CHEBI:16708 (7)
CHEBI:15428 (7)
CHEBI:27266 (7)
CHEBI:18183 (7)
CHEBI:17295 (7)
CHEBI:18095 (6)
CHEBI:16113 (6)
CHEBI:16856 (6)
CHEBI:27570 (6)
CHEBI:18186 (6)
CHEBI:26986 (6)
CHEBI:16811 (6)
CHEBI:6650 (6)
CHEBI:28044 (6)
CHEBI:16919 (4)
CHEBI:16761 (4)
CHEBI:7044 (1)
CHEBI:7861 (1)
CHEBI:17287 (1)
CHEBI:15379 (1)
CHEBI:18367 (1)
CHEBI:15422 (1)

Metabolite Name

Guanine (7)
Adenosine (6)
Adenine (6)
Guanosine (6)
Sucrose (6)
L-Phenylalanine (6)
Uracil (5)
Valine (5)
Cholesterol (5)
Choline (5)
Citric acid (5)
Cytosine (5)
Threonine (5)
Proline (5)
Xanthine (5)
Uridine (5)
Isoquercitrin (4)
Arbutin (4)
Phenol (4)
Phosphoric acid (4)
Leucine (4)
Glycerol (4)
Betaine (4)
Pyroglutamic acid (4)
Lumichrome (4)
Carnitine (4)
Pantothenic acid (4)
Nicotinamide (4)
Quercitrin (4)
L-Serine (4)

First Public Date

2025 (47)
2026 (46)
2014 (30)
2024 (24)
2020 (19)
2023 (15)
2022 (15)
2021 (15)
2018 (13)
2017 (12)
2015 (10)
2016 (8)
2019 (4)
2013 (4)

Modelling Approach

Ordinary differential equation model (4)
Constraint-based model (2)

Lab affiliation

Departments of Chemical and Biological Engineering, Chemistry, and Molecular Biosciences, the Chemistry of Life Processes Institute, and the Proteomics Center of Excellence, Northwestern University, Evanston, Illinois 60208, United States (60)
State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China (9)
State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan,Hubei 430062, China (5)
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 (4)
Laboratory of Microbiology Oceanography, State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, State Key Laboratory of Ocean Engineering, Shanghai Jiao Tong University, School of Oceanography, Shanghai JiaoTong University (4)
Department of Synthetic Chemistry & Biological Chemistry, Graduate School of Engineering, Kyoto Univ. Katsura, Kyoto 615-8510, JAPAN (3)
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 (3)
Centre de recherche du Centre Hospitalier Universitaire (CHU) de Quebec-Université Laval, Québec, QC, Canada Centre de recherche sur le cancer de l’Université Laval, Québec, QC, Canada PROTEO-Quebec Network for Research on Protein Function, Engineering, and Applications, Québec, QC, Canada Department of Molecular Biology, Medical Biochemistry and Pathology, Université Laval, Québec, QC, Canada (3)
Industrial Biotechnology & Biocatalysis Group, Biotechnology Laboratory, School of Chemical Engineering, National Technical University of Athens, Athens, Greece (3)
State Key Laboratory of Genetic Engineering, Department of Biochemistry and Biophysics, School of Life Sciences, Fudan University, Shanghai 200438, China (3)
School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China (3)
State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, Hubei 430062, China (3)
Staff Scientist Biological Systems & Engineering Division Lawrence Berkeley National Laboratory Berkeley CA 94720 (3)
Åbo Akademi University, Faculty of Science and Engineering, Finland (3)
Chemical and Biological Engineering, The Hong Kong University of Science and Technology (HKUST) (3)
Chemical and Biological Engineering Department, The Hong Kong University of Science and Technology (HKUST) (2)
Cancer Research UK Manchester Institute (2)
Div. Clinical Protein Science and Imaging, Dept. of Clinical Sciences and Dept. of Biomedical Engineering, Lund University, Sweden (2)
Lund University, Dept. Biomedical Engineering (2)
Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China. (2)
School of Engineering, Westlake University (2)
Research Centre for Genetic Engineering and Biotechnology “Georgi D Efremov”, Macedonian Academy of Sciences and Arts, Skopje, Krste Misirkov 2, 1000 Skopje, Republic of North Macedonia (2)
Chemical and Biological Engineering, Hong Kong University of Science and Technology (HKUST) (2)
Shanghai Stomatological Hospital & School of Stomatology, State Key Lab of Genetic Engineering, MOE Engineering Research Center of Gene Technology, Shanghai Engineering Research Center of Industrial Microorganisms, School of Life Sciences, Fudan University (2)
BioBix, Faculty of Bioscience Engineering, Ghent University, Coupure Links 653, Ghent, Belgium (2)
Institut für Mikrobiologie, Universität Greifswald, Felix-Hausdorff-Str. 8, 17489 Greifswald (2)
State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, Hubei,China (2)
Turku Bioscience Centre, University of Turku and Åbo Akademi University, Turku, Finland Faculty of Science and Engineering, Cell Biology, Åbo Akademi University, Turku, Finland (2)
Department of Biomedical Engineering, University of Wisconsin-Madison (2)
Department of Chemical and Biological Engineering, The Hong Kong University of Science and Technology (HKUST) (2)

IsPrivate

False (7)

Model Flag

Non Kinetic (2)

Classification

bacteria (27)
fungi (4)
viruses (2)

Modification

2x(15)N labeled L-lysine (2)
4x(15)N labeled L-arginine (2)
45.029395 (1)
-18.010565 (1)
-17.026549 (1)
42.010565 (1)
15.994915 (1)
N6 (1)
57.021464 (1)
+3amu) (1)
4-tetrahydrothiazine-3-carboxylic acid (1)
Not available (1)

Study type

Transcription profiling by array (587)
RNA-seq of coding RNA (78)
Unknown experiment type (12)
ChIP-chip by tiling array (7)
Comparative genomic hybridization by array (7)
ChIP-seq (6)
RNA-seq of non coding RNA (5)
MicroRNA profiling by array (4)
Transcription profiling by tiling array (3)
Other (3)
Methylation profiling by array (2)
Proteomic profiling by array (2)
RNA-seq of coding RNA from single cells (2)
FAIRE-seq (1)
Cell line - Two-color microarray (1)
One-color microarray (1)
Plant - One-color microarray (1)
ChIP-chip by array (1)
Antigen profiling (1)
Transcription profiling by RT-PCR (1)
DNA-seq (1)
RNA-seq of total RNA (1)

Release Date

2025 (926)
2022 (868)
2023 (791)
2021 (715)
2024 (685)
2020 (549)
2019 (480)
2018 (402)
2017 (322)
2016 (310)
2015 (299)
2014 (272)
2013 (228)
2012 (174)
2010 (137)
2026 (133)
2011 (106)
2009 (46)
2008 (37)
2007 (17)
2005 (13)
2006 (6)
2003 (4)
2004 (2)
2000 (1)

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Natural polymorphism of ZmICE1 contributes to amino acid metabolism that impacts cold tolerance in maize

Cold stress negatively affects maize (Zea mays L.) growth, development and yield. Metabolic adjustments contribute to the adaptation of maize under cold stress. We show here that the transcription factor INDUCER OF CBF EXPRESSION 1 (ZmICE1) plays a prominent role in reprogramming amino a...

2022-10-31 | MTBLS4404 | MetaboLights

Adaptive Evolution Reveals Mechanisms of Isobutanol Tolerance in Zymomonas mobilis

Isobutanol production has been demonstrated in E. coli and Z. mobilis using heterologous pathways, with titers reaching up to 60% of the theoretical yield under optimized conditions. However, these results often depend on impractical setups, such as continuous product extraction, oxygenation, or ...

2026-03-18 | MTBLS14081 | MetaboLights

Evolutionary engineering of Saccharomyces cerevisiae for enhanced tolerance to hydrolysates of lignocellulosic biomass Samples vs Reference

Adaptive evolution experiment for enhaced tolerance to hydrolysates of lignocellulosic biomass in S. cerevisiae. The samples involves a batch culture in YNB and Hydrolysates. Cells were harvested at mid-exponential phase. Three biological replicas of 8 samples vs reference Samples 1-8 are the first...

ORGANISM(S): Saccharomyces cerevisiae

2013-04-26 | E-GEOD-44085 | biostudies-arrayexpress

Comparison of transcriptome profile between wild-type and dst mutant plants

Drought and salinity are two main abiotic-stresses negatively affecting crop growth and productivity worldwide with largely decreasing crop yields. The understanding of plant responses to stresses in physiology, genetics, and molecular biology will be greatly helpful to improve the tolerance of crop...

ORGANISM(S): Oryza sativa Japonica group

2009-07-29 | E-GEOD-11175 | biostudies-arrayexpress

Reducing the use of chemical fertilizers and improving crop salt stress tolerance by acetoin and 2,3-butanediol produced by Bacillus subtilis

Small volatile molecules are considered to play a role in promoting plant growth, with acetoin and 2,3-butanediol being representative examples. In this study, we employed metabolic engineering of Bacillus subtilis to enhance the production of acetoin and 2,3-butanediol, and investigated the...

2025-10-16 | MTBLS13110 | MetaboLights

Indices of Tolerance (IOT): Cross-platform biomarkers that identify kidney transplant tolerance

Being able to identify patients in whom immunological tolerance has been established or is developing would allow an individually tailored approach to post-transplant management of kidney allograft recipients. Ex vivo immunological monitoring was performed on samples from five groups of European ren...

ORGANISM(S): Homo sapiens

2010-05-25 | E-GEOD-14655 | biostudies-arrayexpress

Genomic Library Enrichment for n-Butanol tolerance in E. coli. Samples vs Reference

Genomic Library Enrichment to determine the n-Butanol Tolerant related genes in E. coli. The samples involves a series of batch transfers to increasing concentrations of n-butanol and controls (always grew in absence of the solvent) Two technical replicas. Samples 1, 3, 5, and 7 are the serial tra...

ORGANISM(S): Escherichia coli

2012-09-19 | E-GEOD-26223 | biostudies-arrayexpress

Adaptive lab evolution and omics characterization enable tolerance engineering of Pseudomonas putida KT2440 to produce the jet-fuel precursor isoprenol

Pseudomonas putida KT2440 (KT2440) has been established as an industrially relevant chassis for the production of the jetfuel precursor isoprenol. However, this strain assimilated isoprenol as sole carbon source and also showed impaired growth at isoprenol concentrations > 2 g/L which is a significa...

ORGANISM(S): Pseudomonas putida KT2440

2025-05-28 | PXD054609 | Pride

Comparison between syngeneic kidney transplant and a model of allogeneic kidney transplant tolerance induced by anti-classII regimen in the rat

The goal is to identify new molecules implicated in tolerance, to determine the implication of these molecules in immune responses to transplantation by gene expression comparison of 27,088 individual rat genes between tolerated kidney allotransplant and syngeneic kidney transplant. In this study 27...

ORGANISM(S): Rattus norvegicus

2011-04-09 | E-GEOD-28474 | biostudies-arrayexpress

The Submergence Tolerance Regulator Sub1A Mediates Stress-responsive Expression of AP2/ERF Transcription Factors

Rice NSF45K microarray experiment to dissect submergence tolerance response in submergence tolerant rice plant, M202(Sub1): We previously characterized the rice (Oryza sativa L.) Sub1 locus encoding three Ethylene Responsive Factor (ERF) transcriptional regulators. Genotypes carrying the Sub1A-1 a...

ORGANISM(S): Oryza sativa

2010-03-08 | E-GEOD-17704 | biostudies-arrayexpress

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