Maxquant - OmicsDI

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Proteomics (14142)
Unknown (177)
Genomics (4)
Other (2)
Metabolomics (2)
Transcriptomics (1)
Multiomics (1)

Organisms

Homo sapiens (13897)
Mus musculus (13897)
Rattus norvegicus (13895)
Shigella flexneri (13894)
Allexis (13894)
Shigella (13894)
Saccharomyces cerevisiae (13893)
Arabidopsis thaliana (13893)
Homo sapiens (42)
Mus musculus (14)
Escherichia coli (3)
cellular organisms (3)
Rattus norvegicus (2)
Saccharomyces cerevisiae (2)
Limosilactobacillus reuteri (1)
Capra hircus (1)
Nicotiana benthamiana (1)
Gallus gallus (1)
Pseudomonas aeruginosa PAO1 (1)
Sus scrofa domesticus (1)
Eimeria tenella (1)
Bos taurus (1)
Oryza sativa (1)
Danio rerio (1)
Glycine max (1)
Ovis aries (1)
Arabidopsis thaliana (1)
Gossypium hirsutum (1)
Haloferax volcanii DS2 (1)
Apis mellifera (1)

Organisms

Pseudomonas aeruginosa PAO1 (1)
Homo sapiens (1)

Repository

pride (13898)
MassIVE (157)
iProX (53)
jPOST (22)
PAXDB (6)
ENA (4)
PanoramaPublic (3)
biostudies-arrayexpress (2)
GPMDB (2)
MetaboLights (2)
LINCS (1)
NODE (1)

Tissue

Cell culture (3057)
Epithelial cell (958)
Brain (698)
Permanent cell line cell (594)
Liver (430)
Fibroblast (326)
Leaf (305)
Kidney (303)
Plant cell (294)
Blood (292)
Heart (255)
Blood plasma (246)
Whole body (246)
Lung (246)
T cell (230)
Macrophage (222)
Cell suspension culture (217)
Embryonic stem cell (204)
Blood cell (192)
Colon (181)
HeLa cell (172)
Hepatocyte (155)
Skin (150)
B cell (146)
Bone marrow (140)
Stem cell (138)
Embryo (137)
Primary cell (133)
Blood serum (122)
Cell line (1)

Disease

Breast cancer (330)
Disease free (326)
Colon cancer (223)
Acute leukemia (154)
Cervix carcinoma (112)
Malignant neoplasm of ovary (79)
Melanoma (72)
Prostate adenocarcinoma (70)
Alzheimer's disease (66)
Lung cancer (63)
Cardiovascular system disease (63)
Brain cancer (59)
Parkinson's disease (51)
Plasmodium falciparum malaria (43)
Type 2 diabetes mellitus (43)
Non-small cell lung carcinoma (42)
Lymphoma (42)
Neuroblastoma (42)
Brain glioblastoma multiforme (39)
Amyotrophic lateral sclerosis (39)
Lung adenocarcinoma (38)
COVID-19 (38)
Multiple myeloma (37)
Trypanosomiasis (37)
Glioblastoma (36)
Wounds and Injuries (35)
Influenza (34)
Hepatocellular carcinoma (33)
Osteosarcoma (33)
Not Available (2)

Technology Type

Mass Spectrometry (13898)
Shotgun proteomics (8634)
Bottom-up proteomics (2337)
Affinity purification coupled with mass spectrometry proteomics (2232)
Data-dependent acquisition (1679)
Gel-based experiment (833)
Top-down proteomics (308)
Data-independent acquisition (231)
Chemical cross-linking coupled with mass spectrometry proteomics (176)
SWATH MS (174)
SRM/MRM (128)
Affinity proteomics (65)
All-ion fragmentation (39)
Proteogenomics (32)
Mass spectrometry imaging (22)
DiaPASEF (15)
MSE (11)
Metaproteomics (8)
HDMSE (8)
Immunopeptidomics (7)
Glycoproteomics (3)
PAcIFIC (2)
Shotgun-MS (1)
Mass spectrometry (1)
Mass spectrometry (1)
Mass spectrometry assay (1)
RNA mass spectrometry (1)

Instrument Platform

Orbitrap Fusion (40)
Q Exactive (32)
Q Exactive Plus (17)
Q Exactive HF-X (14)
Orbitrap Fusion Lumos (13)
LTQ Orbitrap Velos (9)
LTQ Orbitrap Elite (5)
Orbitrap Eclipse (5)
Orbitrap Exploris 480 (4)
LTQ Orbitrap (4)
Q Exactive HF (4)
TimsTOF Pro (3)
Instrument (2)
Bruker Impact II Q-TOF (2)
Bruker Daltonics instrument model (2)
TripleTOF 6600 (2)
Q Exactive plus (Thermo Scientific instrument model) (1)
NanoLC-MS/MS (1)
Ultimate 3000 nano UHPLC system (ThermoFisher Scientific, USA) with a Q Exactive HF hybrid quadrupole-Orbitrap mass spectrometer (Thermo Fisher Scientific, USA), an ESI nanospray source, a higher energy collisional dissociation (HCD) fragmentation mode and data-dependent acquisition (DDA) mode for peptide sequencing. (1)
Q-Exactive Plus Orbitrap mass spectrometer (1)
TimsTOF HT (1)
High Performance Liquid Chromatography (HPLC) (1)
Orbitrap Ascend (1)
Q-Exactive HF-X (Thermo Fisher) (1)
Impact II (1)
TimsTOF fleX (1)
LTQ Orbitrap Velos Pro (1)
Orbitrap Fusion ETD (1)
MaXis (1)
LTQ Orbitrap XL (1)

Publication Date

2022 (1828)
2025 (1799)
2023 (1729)
2021 (1645)
2024 (1607)
2026 (1270)
2020 (1208)
2019 (946)
2018 (786)
2017 (508)
2016 (418)
2015 (211)
2014 (103)
2013 (39)
2009 (2)
2010 (2)

UNIPROT ID/AC

AGRG1_MOUSE (3)
TOM6_MOUSE (3)
ARP10_MOUSE (3)
GRN_MOUSE (3)
NOL3_MOUSE (3)
DEGS1_MOUSE (3)
SYMM_MOUSE (3)
XYLB_MOUSE (3)
OPA3_MOUSE (3)
ACY3_MOUSE (3)
DOPD_MOUSE (3)
PLPP3_MOUSE (3)
MAP1S_MOUSE (3)
MMGT1_MOUSE (3)
PGRC2_MOUSE (3)
MAL2_MOUSE (3)
SDC4_MOUSE (3)
FUND1_MOUSE (3)
TAP2_MOUSE (3)
T3HPD_MOUSE (3)
ST14_MOUSE (3)
TM205_MOUSE (3)
MGST3_MOUSE (3)
Q91XL1_MOUSE (3)
SCAM2_MOUSE (3)
SLFN5_MOUSE (3)
PDIP2_MOUSE (3)
CLPT1_MOUSE (3)
TPP1_MOUSE (3)
DDRGK_MOUSE (3)

CHEBI ID

CHEBI:189612 (1)
CHEBI:183249 (1)
CHEBI:183643 (1)
CHEBI:166933 (1)
CHEBI:176773 (1)
CHEBI:189608 (1)
CHEBI:138337 (1)
CHEBI:138338 (1)
CHEBI:189604 (1)
CHEBI:75196 (1)
CHEBI:189601 (1)
CHEBI:156034 (1)
CHEBI:189597 (1)
CHEBI:184625 (1)
CHEBI:156038 (1)
CHEBI:189595 (1)
CHEBI:74237 (1)
CHEBI:88611 (1)
CHEBI:189591 (1)
CHEBI:189590 (1)
CHEBI:91045 (1)
CHEBI:82762 (1)
CHEBI:74242 (1)
CHEBI:185872 (1)
CHEBI:186997 (1)
CHEBI:179766 (1)
CHEBI:189630 (1)
CHEBI:189629 (1)
CHEBI:189628 (1)
CHEBI:167009 (1)

Metabolite Name

N2-Succinyl-glutamic acid (1)
C5H7NO3 (1)
C5H8N2O5 (1)
C11H18N3O6 - Ophthalmic acid ? (1)
N-Acetylglucosamine phosphate (1)
C5H8O5 (1)
Citra/Gluta/Ita-conic acid 1 (1)
C4H6O4 - diacid (1)
C14H17N5O8 (N6-succinyladenosine ?) (1)
C5H9NO3 (1)
C6H11NO3 (1)
C7H11NO6 (1)
C6H8O6 (1)
C5H8O2 (1)
Methylaconitate isomer 4 (1)
3-Amino(iso)butanoic acid (1)
Methylaconitate isomer 3 (1)
C9H9NO4 (1)
Methylaconitate isomer 2 (1)
C7H10O5 (1)
Acetylneuraminic acid isomer 2 (1)
Methylaconitate isomer 1 (1)
Sucrose or C12H22O11 isomer (1)
C5H10O6 - Arabinonic acid ? (1)
C4H8O5 (1)
C7H12O4 (1)
C8H14O5 (1)
C8H11NOS - Dopamine-4-O-sulfate ? (1)
C10H11N4O6 - Xanthosine (1)
C6H10O5 (1)

First Public Date

2025 (2)
2023 (1)
2020 (1)

Classification

bacteria (1)

Modification

2x(15)N labeled L-lysine (46)
4x(15)N labeled L-arginine (43)
N6 (19)
N6-dimethyl-L-lysine (12)
4-tetrahydrothiazine-3-carboxylic acid (11)
4x(2)H labeled dimethylated residue (5)
4 (5)
15.994915 (3)
57.021464 (3)
Not available (3)
6-dioxaoctanediamine derivatized cysteine (2)
-18.010565 (2)
-17.026549 (2)
42.010565 (2)
4x(2)H labeled dimethylated L-lysine (2)
+3amu) (2)
4'-dihydroxyphenylalanine (1)
79.966331 (1)
3x(2)H labeled N6-acetyl-L-lysine (1)
6x(2)H labeled dimethylated L-arginine (1)

Study type

Proteomic profiling by mass spectrometer (1)
RNA-seq of coding RNA (1)

Release Date

2022 (26)
2020 (22)
2025 (18)
2021 (17)
2016 (16)
2018 (15)
2024 (13)
2023 (12)
2019 (11)
2015 (10)
2014 (4)
2012 (4)
2026 (3)
2017 (3)
2011 (3)
2013 (1)
2010 (1)

Lab affiliation

Wageningen University (69)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (48)
Analytics Core Facility Essen (ACE), Chemische Biologie, Universität Duisburg-Essen, ZMB, Germany (47)
Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands (43)
University of Edinburgh (42)
Head of Proteomics (40)
Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (35)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (34)
EDyP (34)
Chair of Biochemistry II, Theodor Boveri-Institute, Biocenter, University of Würzburg, Würzburg, Germany (31)
University Hospital Cologne (31)
Department of Biochemistry and Functional Proteomics, Institute of Biology II, Faculty of Biology and BIOSS Centre for Biological Signalling Studies, University of Freiburg, 79104 Freiburg im Breisgau, Germany (28)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (28)
Institute of Molecular Biology (IMB) (26)
OncoProteomics Laboratory, Dept of Medical Oncology, VU University Medical Center, Amsterdam, The Netherlands (25)
CRUK - Beatson Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (25)
Moffitt Cancer Center Tampa, FL, USA (24)
The University of Melbourne (24)
Institute of Molecular Biology (IMB), Mainz, Germany (20)
UCSF (19)
Laboratoire de Spectrométrie de Masse BioOrganique, Analytical Science department, IPHC, CNRS, Strasbourg University, UMR7178, Strasbourg, France (19)
Pacific Northwest National Laboratory (18)
Ludwig-Maximilians-Universität München Genzentrum Laboratory for Functional Genome Analysis Feodor-Lynen-Str. 25 D-81377 München (18)
CNIO (17)
Max Planck Institute of Biochemistry (17)
Proteomics core facility, Biomedical Research Institute, Seoul National University Hospital (17)
Molecular Genetics, RPTU Kaiserslautern, Germany (16)
The University of Sydney (15)
Molecular Genetics, RPTU Kaiserslautern (14)
School of Life Sciences, Central China Normal University, Wuhan, Hubei province, China (14)

Tags

xref:PubMed:41423049 (1)
xref:PubMed:41347018 (1)
pathogen (1)
pathogen:bacterium (1)

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MaxQuant Complete Submission: First Complete Submission in mzTab MaxQuant

This is the first MaxQuant Complete submission in mzTab and should be take as a reference for other softwares to export mzTab Complete Submissions into PRIDE Archive.

ORGANISM(S): Candida albicans (Yeast)

2018-09-28 | PXD011194 | Pride

Triqler for MaxQuant: Enhancing Results from MaxQuant by Bayesian Error Propagation and Integration.

Not available

S-EPMC8041382 | biostudies-literature

MaxQuant software for ion mobility enhanced shotgun proteomics

Ion mobility can add a dimension to LC-MS based shotgun proteomics which has the potential to boost proteome coverage, quantification accuracy and dynamic range. Required for this is suitable software that extracts the information contained in the four-dimensional (4D) data space spanned by m/z, re...

ORGANISM(S): Homo sapiens (Human) Escherichia coli Saccharomyces cerevisiae (Baker's yeast)

2020-04-23 | PXD014777 | Pride

Tims Human Yeast Maxquant Hela Ecoli

MaxQuant DIA Complete submission

Reanalysis of submission PXD005573 using MaxQuant-DIA and MaxQuant. First complete submission in mzTab for Data independent adquisition.

ORGANISM(S): Homo sapiens (Human)

2020-08-07 | PXD020776 | Pride

Maxquant Data independent adquisition

MaxReport: An Enhanced Proteomic Result Reporting Tool for MaxQuant.

Not available

S-EPMC4803341 | biostudies-literature

MaxQuant Software for Ion Mobility Enhanced Shotgun Proteomics.