Microbiology - OmicsDI

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Unknown (231644)
Genomics (12780)
Transcriptomics (2332)
Proteomics (1538)
Metabolomics (381)
Models (57)
Other (9)
Genomic (6)
Clinical (5)

Organisms

Homo sapiens (227)
Mus musculus (149)
Escherichia coli (117)
Caenorhabditis elegans (114)
Staphylococcus aureus (64)
Pseudomonas aeruginosa (58)
Mycobacterium tuberculosis (50)
Escherichia coli str. K-12 substr. MG1655 (40)
Arabidopsis thaliana (36)
Burkholderia cenocepacia (32)
Streptococcus pneumoniae (32)
Pseudomonas aeruginosa PAO1 (26)
Danio rerio (25)
Neisseria meningitidis (24)
Campylobacter jejuni (24)
Streptomyces coelicolor (23)
Salmonella enterica subsp. enterica serovar Typhimurium (23)
Sinorhizobium meliloti (23)
Saccharomyces cerevisiae (22)
Yersinia pestis (21)
Medicago truncatula (21)
Helicobacter pylori (21)
Listeria monocytogenes (21)
Blattabacterium sp. (2)
bacterium (1)
Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 (1)
Lactococcus cremoris subsp. cremoris MG1363 (1)
Plasmodium falciparum (1)
Saccharomyces cerevisiae S288C (1)
Rattus (1)

Organisms

Mus musculus (1516)
Homo sapiens (1138)
Pseudomonas aeruginosa (233)
soil metagenome (151)
Escherichia coli (148)
Saccharomyces cerevisiae (126)
Staphylococcus aureus (110)
Klebsiella pneumoniae (93)
Acinetobacter baumannii (67)
Mycobacterium tuberculosis (64)
annelid metagenome (60)
Candida albicans (55)
Bacillus subtilis (46)
Vibrio cholerae (41)
Streptococcus pyogenes (38)
Salmonella enterica subsp. enterica serovar Typhimurium (33)
Macaca mulatta (33)
Vibrio parahaemolyticus (31)
marine metagenome (31)
Bacteria (28)
human gut metagenome (28)
Arabidopsis thaliana (28)
Mycobacterium tuberculosis H37Rv (27)
Drosophila melanogaster (27)
Corynebacterium pseudotuberculosis (25)
Pseudomonas aeruginosa PAO1 (24)
Listeria monocytogenes (23)
sediment metagenome (23)
Escherichia coli str. K-12 substr. MG1655 (22)
Salmonella enterica subsp. enterica serovar Enteritidis (22)

Repository

ENA (12671)
biostudies-arrayexpress (2378)
pride (1449)
MetaboLights (362)
BioModels (57)
MassIVE (49)
geo (45)
EGA (33)
iProX (29)
GNPS (19)
jPOST (8)
dbGaP (6)
GPMDB (3)
PanoramaPublic (2)
PAXDB (1)

Tissue

Cell culture (208)
Epithelial cell (48)
Macrophage (25)
Cell suspension culture (23)
Permanent cell line cell (23)
Colon (19)
Brain (17)
Blood serum (16)
Blood (16)
Fibroblast (15)
Whole body (14)
Prokaryotic cell (13)
Lung (13)
Kidney (13)
Liver (12)
Leaf (11)
T cell (10)
Spleen (9)
Skin (8)
Hepatocyte (8)
B cell (8)
Saliva (7)
Fungal cell (6)
Extracellular vesicle (6)
Plant cell (6)
Root (6)
Primary cell (6)
Hyphal cell (5)
Bone (5)
Fungus (5)

Disease

Disease free (20)
Tuberculosis (7)
Human immunodeficiency virus infectious disease (6)
Pulmonary tuberculosis (6)
Influenza (6)
Malaria (6)
COVID-19 (6)
Cystic fibrosis (5)
Normal (4)
Toxoplasmosis (4)
Bordetella parapertussis whooping cough (4)
Plasmodium falciparum malaria (4)
Severe acute respiratory syndrome (4)
Pertussis (4)
Not Available (3)
Colorectal cancer (2)
Primary bacterial infectious disease (1)
Sham infected (1)
2h after infection with wildtype Streptococcus pyogenes (1)
Germ-free (1)
IRAK-4 Q293X mutation (1)
SS2-infected (1)
Bordetella pertussis inoculated (1)
Not infected (1)
Non-diabetic (1)
S enteritidis (1)
Acute promyelocytic leukemia (1)
Ovarian cancer (1)
Colorectal tumor (1)
Colorectal Neoplasms (1)

Technology Type

Mass Spectrometry (1449)
Shotgun proteomics (750)
Bottom-up proteomics (322)
Mass spectrometry (253)
Data-dependent acquisition (157)
Affinity purification coupled with mass spectrometry proteomics (136)
Gel-based experiment (122)
Mass spectrometry assay (98)
Top-down proteomics (61)
Data-independent acquisition (51)
SWATH MS (29)
MSE (27)
HDMSE (25)
Chemical cross-linking coupled with mass spectrometry proteomics (19)
SRM/MRM (13)
NMR spectroscopy (12)
Metaproteomics (10)
All-ion fragmentation (10)
Affinity proteomics (6)
DiaPASEF (6)
Proteogenomics (3)
Illumina HiSeq 2500, ILLUMINA (1)
ILLUMINA, Illumina MiSeq (1)
NMR spectroscopy assay (1)
Sodium dodecyl sulfate polyacrylamide gel electrophoresis (1)
Olink affinity proteomics (1)
PAcIFIC (1)
Glycoproteomics (1)
Mass spectrometry imaging (1)

Instrument Platform

NextSeq 500 (82)
Illumina NovaSeq 6000 (49)
Illumina MiSeq (48)
Illumina HiSeq 2500 (46)
Illumina HiSeq 2000 (45)
Illumina HiSeq 1500 (30)
NextSeq 550 (17)
Illumina HiSeq 4000 (13)
GenePix 4000B [Axon Instruments] (11)
ScanArray Express HT (9)
Illumina NovaSeq X (9)
ScanArray [PerkinElmer] (8)
Bioanalyser (7)
Illumina HiSeq 3000 (7)
Axon- GenePix4000B (6)
Variable Atmosphere Incubator (6)
Illumina Genome Analyzer II (6)
Illumina HiSeq 1000 (6)
AB SOLiD 4 System (5)
Generation III Array Scanner [Amersham] (5)
NextSeq 2000 (5)
MinION (5)
AB SOLiD 3 Plus System (4)
GenePix Professional 4200A [Axon Instruments] (4)
GenePix 4000A [Axon Instruments] (4)
G2505A DNA microarray scanner [Agilent] (3)
NanoDrop (3)
Bio-Rad T100 Thermocycler (2)
. (2)
Ultrospec 3000 (2)

Publication Date

2010 (360)
2025 (349)
2013 (325)
2026 (320)
2012 (265)
2023 (263)
2024 (261)
2022 (254)
2014 (220)
2021 (219)
2011 (215)
2016 (181)
2015 (178)
2020 (170)
2019 (156)
2008 (134)
2018 (127)
2009 (115)
2017 (96)
2007 (75)
2005 (45)
2006 (38)
2004 (6)
2003 (6)

UNIPROT ID/AC

Q00055 (6)
P23900 (6)
P39932 (6)
P32485 (6)
P31057 (2)
P0ABQ4 (2)
P0A825 (2)
P08192 (2)
P0AC13 (2)
P26281 (2)
P25106 (1)
Q718F0 (1)
P48061 (1)
P32121 (1)
P61073 (1)
P60568 (1)
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)

CHEBI ID

CHEBI:30769 (66)
CHEBI:15428 (60)
CHEBI:17822 (40)
CHEBI:17754 (38)
CHEBI:16027 (38)
CHEBI:17234 (35)
CHEBI:16761 (25)
CHEBI:16236 (9)
CHEBI:15361 (8)
CHEBI:17665 (8)
CHEBI:25728 (6)
CHEBI:27082 (6)
CHEBI:30089 (6)
CHEBI:16905 (6)
CHEBI:15422 (5)
CHEBI:15343 (3)
CHEBI:17835 (3)
CHEBI:17794 (3)
CHEBI:16001 (3)
CHEBI:16908 (3)
CHEBI:16474 (3)
CHEBI:16526 (3)
CHEBI:15846 (3)
CHEBI:18021 (3)
CHEBI:38793 (2)
CHEBI:38797 (2)
CHEBI:67016 (2)
CHEBI:29987 (2)
CHEBI:57451 (2)
CHEBI:17836 (2)

Metabolite Name

Hypoxanthine (71)
Uracil (65)
Adenine (61)
Uridine (61)
Adenosine (60)
Inosine (60)
Ornithine (54)
Guanine (52)
Cytosine (52)
Guanosine (51)
Creatine (51)
Glycine (49)
Citric acid (49)
Thymidine (49)
Thymine (48)
Creatinine (47)
L-Tyrosine (47)
Taurine (46)
Cytidine (46)
Xanthine (45)
L-Phenylalanine (45)
Stearic acid (44)
Azelaic acid (44)
Myristic acid (44)
Sucrose (44)
Succinic acid (42)
Xanthosine (42)
Palmitic acid (42)
Betaine (41)
Choline (40)

First Public Date

2014 (1622)
2024 (1189)
2023 (1134)
2025 (1034)
2022 (965)
2021 (951)
2020 (922)
2026 (895)
2017 (843)
2019 (834)
2013 (693)
2018 (639)
2016 (477)
2015 (462)
2012 (8)
2011 (2)
2010 (1)

Modelling Approach

Ordinary differential equation model (25)
Constraint-based model (25)
Computational model (2)
Differential equation model (1)

Study status

Not yet recruiting (3)
Ongoing (1)
Recruiting (1)

Lab affiliation

Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne 3000, Australia (29)
Max Planck Institute for Terrestrial Microbiology Karl-von-Frisch Str. 10 35043 Marburg Germany (26)
Department of Microbiology and Immunology, The University of Melbourne, Victoria, Australia (19)
General and molecular microbiology, Institute for chemistry and biology of the marine environment (ICBM), Carl von Ossietzky University of Oldenburg, Oldenburg, Germany (14)
Centre for Genomic Regulation (11)
Institute of Microbiology (10)
Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for infection and immunity, Melbourne, 3000, Australia (10)
University of Greifswald, Institute of Microbiology, Department of Microbial Physiology and Molecular Biology (9)
University of Greifswald, Institute of Microbiology, Department of Microbial Proteomics, Felix-Hausdorff-Str. 8, 17489 Greifswald, Germany (7)
Institute of Microbiology - BioCeV, Academy of Sciences of the Czech Republic (7)
Institute of Medical Microbiology, University of Zurich (6)
Medical Microbiology, Faculty of Medicine, University of Malaya (6)
Department of Molecular Ecology MPI for Marine Microbiology Celsiusstr. 1 D-28359 Bremen Germany (6)
Molecular and Applied Microbiology, Leibniz Institute for Natural Product Research and Infection Biology / Hans Knöll Institute Jena (Leibniz-HKI), Jena, Germany (6)
Institute for Microbiology (6)
Department of Molecular Microbiology, Washington University School of Medicine, St Louis, MO 63110, USA. (5)
Infection Program, Monash Biomedicine Discovery Institute, Department of Microbiology, Monash University, VIC 3800, Australia (5)
School of Computer Science Department of Microbiology and Plant Biology University of Oklahoma, Norman, OK (5)
Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden. (5)
Department of Microbiology and Immunology, University of Melbourne, Peter Doherty Institute for Infection and Immunity, Melbourne, Victoria, Australia (5)
Department of Molecular and Applied Microbiology Leibniz Institute for Natural Product Research and Infection Biology - Hans Knöll Institute Jena, Germany (5)
Max Planck Institute for terrestrial Microbiology Karl-von-Frisch Str. 10 35043 Marburg Germany (5)
Department of Microbial Proteomics, Institute of Microbiology, University of Greifswald, Greifswald, Germany (5)
University of Greifswald, Institute of Microbiology, Department of Microbial Proteomics, Greifswald, Germany (5)
Institute of microbiology, University of Greifswald (5)
Department of Biology, Institute of Microbiology, ETH Zürich, Switzerland (5)
North Carolina State University (5)
Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, SE-751 23 Uppsala, Sweden. (4)
Professor, Microbiology, Immunology, and Pathology Mycobacteria Research Laboratories Scientific Director, Rocky Mountain Regional Biocontainment Laboratory Editor-in-chief, BMC Mycobacteria (4)
Ottawa Institute of Systems Biology and Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, Ottawa, Ontario, Canada (4)