Systems immunology

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Unknown (12040)
Genomics (331)
Proteomics (147)
Transcriptomics (108)
Models (20)
Metabolomics (7)
Other (2)

Organisms

Aerococcus urinae NBRC 15544 = CCUG 36881 (129)
Andropogon gerardi (129)
Bacteria (129)
Canis lupus familiaris (129)
Cnidaria (129)
Ectopseudomonas oleovorans CECT 5344 (129)
Ensifer adhaerens (129)
Enterococcus faecalis (129)
Globicatella sanguinis (129)
Halictus scabiosae (129)
Homo sapiens (78)
Mus musculus (48)
Rattus norvegicus (3)
Macaca mulatta (3)
Clostridioides difficile (2)
Oncorhynchus mykiss (2)
synthetic construct (2)
Influenza A virus (1)
Bacteria (1)
Oreochromis niloticus (1)
Schistosoma japonicum (1)
Anopheles gambiae (1)
Aedes aegypti (1)
Salmo salar (1)
Oryctolagus cuniculus (1)
Plasmodium falciparum (1)
Gallus gallus (1)
Mycobacterium tuberculosis H37Rv (1)
Danio rerio (1)
Burkholderia pseudomallei K96243 (1)

Organisms

Mus musculus (126)
Homo sapiens (109)
Severe acute respiratory syndrome coronavirus 2 (5)
Danio rerio (5)
Rattus norvegicus (3)
Porphyromonas gingivalis (2)
Mesocricetus auratus (2)
Macaca mulatta (2)
Bos taurus (2)
Escherichia coli (2)
Proteus mirabilis HI4320 (1)
Prodigiosinella confusarubida (1)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (1)
Treponema denticola (1)
Bat coronavirus (1)
Burkholderia thailandensis (1)
Geobacter sulfurreducens (1)
Respiratory syncytial virus (1)
Vibrio harveyi (1)
Serratia marcescens (1)
Chlamydomonas reinhardtii (1)
Salmonella enterica subsp. enterica serovar Typhi (1)
Macaca fascicularis (1)
Anopheles gambiae (1)
Aedes aegypti (1)
Proteus mirabilis (1)
Saccharomyces cerevisiae (1)
Drosophila melanogaster (1)
Staphylococcus aureus (1)

Repository

ENA (321)
pride (129)
biostudies-arrayexpress (77)
geo (40)
BioModels (20)
MassIVE (10)
MetaboLights (7)
EGA (5)
iProX (4)
PanoramaPublic (2)

Tissue

Cell culture (18)
T cell (9)
Blood (8)
Brain (8)
Colon (7)
Epithelial cell (7)
Neutrophil (6)
Macrophage (5)
Osteoblast (4)
Blood serum (3)
Valve cell (3)
Aortic valve (2)
Arterial system endothelium (2)
B cell (2)
Blood cell (2)
Blood plasma (2)
Bone marrow (2)
CD8-positive (2)
Endothelial cell of umbilical vein (2)
Feces (2)
Fibroblast (2)
Heart valve cell (2)
Ileum (2)
Lymph node (2)
Microglial cell (2)
Pancreas (2)
Acute myeloid leukemia cell line (1)
HeLa cell (1)
HuH-7-Lunet cell (1)
JURKAT cell (1)

Disease

Aortic valve stenosis (3)
Disease free (3)
Inflammatory bowel disease (3)
Crohn's disease (2)
Pancreatic ductal adenocarcinoma (2)
Ulcerative colitis (2)
Bacterial infectious disease (1)
Clostridium difficile colitis (1)
Chicken Anaemia Virus infected (1)
Acute promyelocytic leukemia (1)
Acute myeloid leukemia (1)
Amyotrophic lateral sclerosis (1)
Aortic valve disease (1)
Atherosclerosis (1)
Breast cancer (1)
Cancer (1)
Cardiovascular system disease (1)
Focal segmental glomerulosclerosis (1)
Inflammatory bowel disease 1 (1)
Influenza (1)
Leukemia (1)
Lung adenocarcinoma (1)
Lung cancer (1)
Multiple sclerosis (1)
Narcolepsy (1)
Nephrolithiasis (1)
Ovarian carcinoma (1)
Plasmodium falciparum malaria (1)

Technology Type

Mass Spectrometry (129)
Shotgun proteomics (83)
Bottom-up proteomics (32)
Data-dependent acquisition (10)
Mass spectrometry (7)
Data-independent acquisition (6)
Affinity purification coupled with mass spectrometry proteomics (5)
Gel-based experiment (4)
Top-down proteomics (3)
ILLUMINA, Illumina HiSeq 2500 (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
Immunopeptidomics (1)
SRM/MRM (1)
SWATH MS (1)

Instrument Platform

Orbitrap Fusion Lumos (5)
Illumina NovaSeq 6000 (4)
Illumina MiSeq (3)
Illumina HiSeq 4000 (3)
Q Exactive (3)
Liquid Chromatography MS - positive - reverse phase (3)
Q Exactive HF (2)
Liquid Chromatography MS - negative - reverse phase (2)
ScanArray 5000 [PerkinElmer] (1)
NextSeq 500 (1)
TimsTOF Pro (1)
TimsTOF SCP (1)
TimsTOF Ultra (Bruker Daltonics timsTOF series) (1)
TripleTOF 5600 (1)
Liquid Chromatography MS - - - Q Exactive (1)
Flow injection analysis MS - negative (1)
Flow injection analysis MS - positive (1)

Publication Date

2025 (42)
2024 (31)
2022 (30)
2023 (29)
2014 (21)
2020 (17)
2021 (13)
2026 (13)
2017 (12)
2013 (11)
2010 (11)
2016 (9)
2018 (8)
2019 (8)
2015 (8)
2005 (6)
2009 (6)
2012 (5)
2011 (5)
2008 (1)
2007 (1)

UNIPROT ID/AC

P29476 (1)
P25106 (1)
Q718F0 (1)
P48061 (1)
P52633 (1)
P23772 (1)
Q5PSB0 (1)
O35716 (1)
P42225 (1)
P42228 (1)
Q61727 (1)
Q61190 (1)
Q8K4B4 (1)
Q9JHX3 (1)
Q61098 (1)
Q60837 (1)
P15261 (1)
P16382 (1)
P01590 (1)
Q00560 (1)
P70380 (1)
P43431 (1)
Q60943 (1)
P43432 (1)
Q9EQ14 (1)
Q6GU14 (1)
Q62406 (1)
P01574 (1)
P42230 (1)
P52332 (1)

CHEBI ID

CHEBI:16704 (3)
CHEBI:18132 (3)
CHEBI:17562 (3)
CHEBI:17126 (2)
CHEBI:18186 (2)
CHEBI:16811 (2)
CHEBI:16708 (2)
CHEBI:25017 (2)
CHEBI:16610 (2)
CHEBI:28044 (2)
CHEBI:16566 (2)
CHEBI:16393 (2)
CHEBI:17012 (2)
CHEBI:18211 (2)
CHEBI:18107 (2)
CHEBI:27480 (2)
CHEBI:29016 (2)
CHEBI:82969 (2)
CHEBI:17750 (2)
CHEBI:15318 (2)
CHEBI:17568 (2)
CHEBI:17632 (1)
CHEBI:16480 (1)
CHEBI:17627 (1)
CHEBI:29034 (1)
CHEBI:29033 (1)
CHEBI:16474 (1)
CHEBI:18009 (1)
CHEBI:16349 (1)
CHEBI:15379 (1)

Metabolite Name

Choline (2)
Uridine (2)
CITICOLINE (1)
GUANOSINE 5'-DIPHOSPHOGLUCOSE (1)
N-ACETYLGALACTOSAMINE (1)
7,8-dimethylalloxazine (1)
3-METHOXYTYROSINE (1)
N-TRIMETHYLLYSINE (1)
DFMO (1)
CYS-GLY (1)
N-Methylhistidine (1)
P-OCTOPAMINE (1)
Tetradecanoyl-L-Carnitine (1)
Triethylphosphate (1)
OPHTHALMATE (1)
O-ACETYLCARNITINE (1)
ADENOSINE 5'-MONOPHOSPHATE (1)
SPERMIDINE (1)
Tris(2-chloroethyl)phosphate (1)
Adenosine_Diphosphate (1)
5-Aminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (1)
N-acetylkynurenine (1)
Margaroylcarnitine (1)
Glycocholate glucuronide (1)
Glycochenodeoxycholate glucuronide (1)
5alpha-androstan-3alpha,17beta-diol monosulfate (1)
1,2,3-benzenetriol sulfate (1)
Beta-Nicotinamide mononucleotide (1)
Maleylacetoacetic acid (1)
URIDINE 5'-DIPHOSPHO-N-ACETYLGALACTOSAMINE (1)

First Public Date

2023 (52)
2022 (43)
2014 (38)
2025 (37)
2024 (32)
2021 (29)
2026 (17)
2020 (17)
2015 (15)
2019 (13)
2018 (13)
2017 (9)
2013 (4)
2016 (2)

Modelling Approach

Ordinary differential equation model (15)
Constraint-based model (1)

Lab affiliation

Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for infection and immunity, Melbourne, 3000, Australia (10)
Department of Microbiology and Immunology, University of Melbourne, Peter Doherty Institute for Infection and Immunity, Melbourne, Victoria, Australia (5)
Ottawa Institute of Systems Biology and Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, Ottawa, Ontario, Canada (4)
Division of Cell Signalling and Immunology, School of Life Sciences, University of Dundee, UK (3)
Experimental Systems Immunology, Max Planck Institute of Biochemistry, Martinsried, Germany (3)
Molecular Systems Immunology Group Turku Bioscience University of Turku P.O. Box 123, BioCity (Street adr. Tykistökatu 6 A, 7th floor) FIN-20521 Turku, Finland +358-40-718 4813 (Mobile) (3)
Ottawa Institute of Systems Biology and Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, 451 Smyth Road, Ottawa, Ontario K1H 8M5, Canada (3)
Department of Systems Immunology, Weizmann Institute of Science, Rehovot, Israel (2)
Dept. of Molecular and Cellular Biology, University of Geneva (2)
Division of Cell Signalling and Immunology, University of Dundee, Dundee, UK. (2)
Head of research group Quantitative and Systems Biology; Max Planck Institute for Multidisciplinary Sciences; Goettingen (D); Germany (lab head). (2)
Institute of Innate Immunity, Department of Systems Immunology and Proteomics, Medical Faculty, University of Bonn, Bonn, Germany (2)
Laboratory of Molecular, Translational and Digital Medicine, Research Institute for Complex Issues of Cardiovascular Diseases, Kemerovo, Russia (2)
Translational Research in Inflammation and Immunology Research Unit (TRIRU), Department of Mi-crobiology, Faculty of Medicine, Chulalongkorn University, 1873 Rama 4 Road, Pathumwan, Bangkok 10330, Thailand (2)
head of Laboratory of Regenerative Biomedicine, Institute of Cytology, Russian Academy of Sciences (2)
1 - i3S – Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Rua Alfredo Allen 208, 4200-135 Porto, Portugal; 2 - Cancer Drug Resistance Group, IPATIMUP – Institute of Molecular Pathology and Immunology, University of Porto, Rua Júlio Amaral de Carvalho 45, 4200-135 Porto, Portugal; 3 - Department of Biological Sciences, FFUP – Faculty of Pharmacy, University of Porto, Rua de Jorge Viterbo Ferreira 228, 4050-313 Porto, Portugal (1)
Associate Professor Microbiology and Immunology Department Upstate Medical University Weiskotten Hall Rm. 2273 766 Irving Avenue Syracuse, NY 13210 Tel 315.464.5870 (1)
BMI, Faculty of Medicine, University of Ottawa (1)
Brigham and Women's Hospital and Harvard Medical School (1)
Cambridge Institute of Therapeutic Immunology and Infectious Disease Jeffrey Cheah Biomedical Centre Cambridge Biomedical Campus Puddicombe Way Cambridge CB2 OAW (1)
Cell Signalling and Immunology, School of Life Sciences, University of Dundee, Dundee, UK (1)
Cell Signalling and Immunology, School of Life Sciences, University of Dundee, Dundee, UK. (1)
Cell Technologies Center, Institute of Cytology RAS,St. Petersburg, Russia (1)
Center of Excellence on Translational Research in Inflammation and Immunology (CETRII), Department of Microbiology, Chulalongkorn University, Bangkok 10330, Thailand (1)
Chemistry Department, University of Minnesota (1)
Department Biochemistry, Microbiology and Immunology, Ottawa Institute of Systems Biology, University of Ottawa (1)
Department of Biochemistry, Microbiology and Immunology Institute of Systems Biology University of Ottawa (1)
Department of Biochemistry, Microbiology and Immunology University of Ottawa, 451 Smyth Rd. Ottawa, Ontario, Canada, K1H 8M5 (1)
Department of Biological Chemistry and Molecular Pharmacology, Blavatnik Institute, Harvard Medical School, Boston, MA 02115, USA (1)
Department of Biological Sciences, University of Alberta, Edmonton, Canada Department of Medical Microbiology and Immunology, University of Alberta, Edmonton, Canada (1)

IsPrivate

False (20)

Model Flag

Non Kinetic (3)
Non Miriam (1)

Submitter Keywords

FROG (1)

Classification

bacteria (14)
viruses (7)

Study type

Transcription profiling by array (56)
RNA-seq of coding RNA (9)
RNA-seq of coding RNA from single cells (4)
Methylation profiling by high throughput sequencing (2)
Unknown experiment type (1)
Transcription profiling by tiling array (1)
Comparative genomic hybridization by array (1)
Other (1)
ChIP-seq (1)
Proteomic profiling by array (1)

Release Date

2022 (1365)
2021 (1201)
2023 (1156)
2025 (1153)
2024 (1058)
2020 (952)
2019 (720)
2018 (686)
2016 (585)
2015 (566)
2017 (563)
2014 (511)
2013 (299)
2012 (281)
2011 (246)
2026 (149)
2010 (146)
2009 (125)
2008 (115)
2007 (57)
2006 (47)
2005 (39)
2003 (23)
2002 (21)
2004 (16)
2001 (11)
2000 (8)
1998 (8)
1999 (6)
1997 (4)

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Democratizing systems immunology with modular transcriptional repertoire analyses.

Not available

S-EPMC4118927 | biostudies-literature

Systems immunology-based drug repurposing framework to target inflammation in atherosclerosis [RNA-seq_PBMC]

PRJNA957897 | ENA

Systems immunology-based drug repurposing framework to target inflammation in atherosclerosis [Tissue_RNA-seq]

PRJNA957899 | ENA

Systems immunology-based drug repurposing framework to target inflammation in atherosclerosis [DRUG_RNA-seq]

PRJNA957898 | ENA

Analysis of scoring systems for primary immunodeficiency diagnosis in adult immunology clinics.

Not available

S-EPMC7744492 | biostudies-literature

3D Culture Systems for Exploring Cancer Immunology.

Not available

S-EPMC7795162 | biostudies-literature

Myelodysplastic Syndrome Revealed by Systems Immunology in a Melanoma Patient Undergoing Anti-PD-1 Therapy.

Not available

S-EPMC4891280 | biostudies-literature

Systems immunology-based drug repurposing framework to target inflammation in atherosclerosis

PRJNA957855 | ENA

Systems immunology-based drug repurposing framework to target inflammation in atherosclerosis [RNA-seq_PBMC]

we present a novel path to drug repurposing to identify new immunotherapies for ASCVD. The integration of time of-flight mass cytometry (CyTOF) and RNA-sequencing identified unique inflammatory signatures in peripheral blood mononuclear cells (PBMCs) stimulated with ASCVD plasma. By comparing these ...

ORGANISM(S): Homo sapiens

2023-04-23 | GSE230214 | GEO

Systems immunology-based drug repurposing framework to target inflammation in atherosclerosis [Tissue_RNA-seq]

ORGANISM(S): Homo sapiens

2023-04-23 | GSE230216 | GEO

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