Ubiquitin-like proteins

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Unknown (1892)
Transcriptomics (732)
Proteomics (361)
Genomics (172)
Other (14)
Metabolomics (13)
Multiomics (3)
Models (1)

Organisms

Homo sapiens (327)
Mus musculus (238)
Arabidopsis thaliana (58)
Saccharomyces cerevisiae (52)
Caenorhabditis elegans (39)
Drosophila melanogaster (25)
Rattus norvegicus (22)
Schizosaccharomyces pombe (9)
Oryza sativa (8)
Oncorhynchus mykiss (7)
Zea mays (7)
Canis lupus familiaris (6)
Entamoeba histolytica (5)
Danio rerio (5)
Sus scrofa (4)
Saccharomyces cerevisiae SK1 (3)
Xylella fastidiosa (3)
Nicotiana tabacum (3)
Bos taurus (3)
Cryptococcus neoformans (3)
Medicago truncatula (3)
Micropterus salmoides (2)
Dictyostelium discoideum (2)
Schizosaccharomyces pombe 972h- (2)
Xenopus laevis (2)
Lepidium sativum (2)
Salmo salar (2)
Solanum tuberosum (2)
Heterocephalus glaber (2)
Glycine max (2)

Organisms

Homo sapiens (19)
Mus musculus (14)
Arabidopsis thaliana (7)
Saccharomyces cerevisiae (4)
Corynebacterium glutamicum ATCC 13032 (2)
Caenorhabditis elegans (2)
Leiocassis longirostris (1)
Haloferax volcanii (1)
Mycobacterium tuberculosis (1)
Solanum lycopersicum (1)
Zea mays (1)
Plasmodium falciparum (1)

Repository

biostudies-arrayexpress (771)
pride (207)
MassIVE (87)
ENA (69)
geo (56)
iProX (32)
jPOST (22)
EGA (18)
MetaboLights (13)
GPMDB (10)
PanoramaPublic (7)
PAXDB (2)
Cell Collective (1)

Tissue

Cell culture (55)
Epithelial cell (19)
Permanent cell line cell (19)
Fibroblast (9)
Liver (7)
Brain (5)
Cell suspension culture (4)
HeLa cell (4)
Lung (4)
Bone marrow (3)
Kidney (3)
Leaf (3)
Plant cell (3)
T cell (3)
Whole body (3)
Colon (2)
HEK-293 cell (2)
Heart (2)
JURKAT cell (2)
Macrophage (2)
Melanocyte (2)
Monocyte (2)
Spleen (2)
Stem cell (2)
Ascites (1)
Blood (1)
Cerebrospinal fluid (1)
Colon epithelial cell (1)
HEK-293T cell (1)
Schwann cell (1)

Disease

Not Available (10)
Colon cancer (6)
Melanoma (4)
Cervix carcinoma (4)
Normal (3)
Parkinson's disease (3)
Osteosarcoma (3)
Breast cancer (3)
Disease free (2)
Influenza (2)
Lung cancer (2)
Mock infection (1)
Psoriasis vulgaris (1)
Chronic granulomatous disease (1)
IRAK-4 Q293X mutation (1)
ARR1-SRDX (1)
Spinocerebellar ataxia type 1 (1)
Nevus (1)
Temporal lobe epilepsy (1)
S enteritidis (1)
Adenocarcinoma (1)
Acute leukemia (1)
Amyotrophic lateral sclerosis type 1 (1)
Arthrogryposis multiplex congenita-1 (1)
Autism spectrum disorder (1)
Brain cancer (1)
COVID-19 (1)
Chronic myeloid leukemia (1)
Colorectal cancer (1)
Colorectal carcinoma (1)

Technology Type

Mass Spectrometry (207)
Shotgun proteomics (98)
Affinity purification coupled with mass spectrometry proteomics (63)
Bottom-up proteomics (37)
Data-dependent acquisition (29)
Gel-based experiment (17)
Chemical cross-linking coupled with mass spectrometry proteomics (14)
Data-independent acquisition (7)
Mass spectrometry (6)
Mass spectrometry assay (5)
Top-down proteomics (4)
HDMSE (3)
SRM/MRM (3)
SWATH MS (3)
NMR spectroscopy assay (2)
Illumina HiSeq 2500 (1)
Illumina HiSeq 2000 (1)
Affinity proteomics (1)
All-ion fragmentation (1)
DiaPASEF (1)
MSE (1)

Instrument Platform

Illumina NovaSeq 6000 (32)
NextSeq 500 (18)
Illumina HiSeq 2500 (13)
Illumina HiSeq 2000 (9)
Illumina HiSeq 4000 (9)
NextSeq 2000 (6)
NextSeq 550 (6)
Illumina Genome Analyzer IIx (4)
Illumina NovaSeq X (4)
Element AVITI (3)
Scanning hardware (3)
Axon- GenePix4000B (2)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Cell culture (1)
Performed by Novogene; Illumina library preparation instrumentation (provider standard) (1)
Chromatin IP kit (1)
Immunomagnetic separation system (e.g., Miltenyi MACS separator), Tissue culture facilities (biosafety cabinet, CO₂ incubator) , Bench centrifuge (1)
Illumina NovaSeq 6000 sequencing platform (Illumina) (1)
IEO HPC (1)
BD FACS ARIA III analyser (1)
Thermocycler; SPRI magnetic bead rack; Qubit fluorometer; Agilent Bioanalyzer (1)
Branson Digital Sonifier; refrigerated benchtop centrifuge; rotator; magnetic rack (1)
Controlled-environment growth chambers (long-day and short-day) (1)
Dissection tools; liquid nitrogen; −80 °C freezer (1)
Qiagen RNAeasy, Bioanalyzer QubitFluorometer, Agilent 2100, RNA Pico 6000 chip (1)
See manuscript (1)
NucleoSpin RNA/Protein kit lysis buffer (350 µL per tube; Macherey‑Nagel). (1)
FastPrep‑24 homogenizer (MP Biomedicals), operated at 5 m/s for 10 seconds. (1)
Dell PowerEdge R750; CPU: 2 × Intel Xeon Gold 6346 (32 Cores / 64 Threads); RAM: 188 GB (1)

Publication Date

2010 (118)
2025 (92)
2013 (87)
2026 (82)
2012 (74)
2014 (71)
2015 (68)
2008 (66)
2011 (65)
2024 (64)
2016 (59)
2023 (47)
2022 (46)
2021 (45)
2009 (35)
2019 (33)
2007 (32)
2018 (31)
2020 (25)
2017 (23)
2006 (11)
2005 (8)
2004 (3)

UNIPROT ID/AC

5691.AAQ15626 (2)
5691.AAQ15709 (2)
5691.AAQ16021 (2)
5691.AAZ10366 (2)
5691.AAZ10412 (2)
5691.AAZ10463 (2)
5691.AAZ10464 (2)
5691.AAZ10465 (2)
5691.AAZ10466 (2)
5691.AAZ10510 (2)
5691.AAZ10511 (2)
5691.AAZ10512 (2)
5691.AAZ10771 (2)
5691.AAZ10942 (2)
5691.AAZ10991 (2)
5691.AAZ11075 (2)
5691.AAZ11276 (2)
5691.AAZ11337 (2)
5691.AAZ11338 (2)
5691.AAZ11340 (2)
5691.AAZ11529 (2)
5691.AAZ11530 (2)
5691.AAZ11531 (2)
5691.AAZ11532 (2)
5691.AAZ11533 (2)
5691.AAZ11534 (2)
5691.AAZ11535 (2)
5691.AAZ11536 (2)
5691.AAZ11537 (2)
5691.AAZ11660 (2)

CHEBI ID

CHEBI:30915 (5)
CHEBI:17754 (4)
CHEBI:15891 (4)
CHEBI:17268 (4)
CHEBI:15428 (4)
CHEBI:16919 (4)
CHEBI:15603 (4)
CHEBI:17295 (4)
CHEBI:40410 (3)
CHEBI:60645 (3)
CHEBI:16530 (3)
CHEBI:16870 (3)
CHEBI:4167 (3)
CHEBI:16857 (3)
CHEBI:17750 (3)
CHEBI:17115 (3)
CHEBI:18050 (3)
CHEBI:15741 (3)
CHEBI:16977 (3)
CHEBI:18012 (3)
CHEBI:17053 (3)
CHEBI:16737 (3)
CHEBI:16414 (3)
CHEBI:17191 (3)
CHEBI:15724 (3)
CHEBI:17895 (3)
CHEBI:30769 (3)
CHEBI:37054 (2)
CHEBI:64552 (2)
CHEBI:37714 (2)

Metabolite Name

L-Leucine (4)
D-Fructose (3)
Glycerol (3)
L-Alanine (3)
Pyroglutamate (3)
Betaine (3)
D-Maltose (3)
L-Threonine (3)
D-Glucose (3)
L-Glutamine (3)
L-Serine (3)
Glycerophosphocholine (3)
L-Valine (3)
L-Isoleucine (3)
L-Tyrosine (3)
L-Phenylalanine (3)
L-GlutamicAcid (2)
2-Hydroxyisovalerate (2)
2-Hydroxybutyrate (2)
D-Fucose (2)
2-Oxoisovalerate (2)
TMAO (2)
Valerate (2)
L-Aspartate (2)
3-Hydroxybutyrate (2)
D-Galactose (2)
L-Glycine (2)
L-Cystine (2)
Myo-Inositol (2)
Creatine (2)

First Public Date

2026 (14)
2024 (11)
2014 (10)
2025 (7)
2022 (5)
2021 (5)
2020 (5)
2023 (3)
2019 (3)
2013 (3)
2017 (2)
2018 (1)

Classification

bacteria (3)
protozoa (1)

Modification

2x(15)N labeled L-lysine (1)
4x(15)N labeled L-arginine (1)

Study type

Transcription profiling by array (439)
RNA-seq of coding RNA (91)
ChIP-seq (74)
ChIP-chip by tiling array (35)
RNA-seq of coding RNA from single cells (18)
Unknown experiment type (17)
Other (17)
RNA-seq of non coding RNA (12)
ChIP-chip by array (10)
Comparative genomic hybridization by array (7)
RNA-seq of total RNA (6)
Transcription profiling by SAGE (4)
Transcription profiling by RT-PCR (4)
Proteomic profiling by array (4)
Methylation profiling by high throughput sequencing (4)
Cell line - High-throughput sequencing (3)
Transcription profiling by tiling array (3)
RNAi profiling by array (3)
ATAC-seq (3)
CLIP-Seq (2)
CLIP-seq (2)
RIP-seq (2)
MicroRNA profiling by array (2)
DNA-seq (2)
Bisulfite-seq (1)
Hi-C (1)
Methylation profiling by array (1)
CUT&RUN (1)
Genotyping by high throughput sequencing (1)

Release Date

2025 (174)
2010 (173)
2013 (161)
2021 (156)
2012 (154)
2015 (150)
2014 (147)
2022 (145)
2024 (141)
2011 (136)
2016 (132)
2020 (131)
2023 (130)
2018 (117)
2019 (109)
2008 (108)
2017 (96)
2009 (87)
2007 (59)
2026 (48)
2006 (32)
2005 (23)
2004 (14)
2003 (9)
2001 (9)
1998 (7)
2000 (5)
1999 (5)
2002 (3)
1997 (1)

Lab affiliation

Functional Proteomics, ICR (3)
Institute for Research in Immunology and Cancer (IRIC) Université de Montréal, Department of Chemistry, Université de Montréal, MIL campus, Montréal, H2V 0B3, Canada (3)
Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (3)
COI-NDM (University of Oxford) (2)
Cambridge Institute for Medical Research, University of Cambridge (2)
College of Pharmacy, Research Institute of Pharmaceutical Sciences, Kyungpook National University (2)
Department of Molecular Cell Biology, Institute of Biochemistry, Splaiul Independentei 296, 060031 Bucharest 17, Romania (2)
Department of Structural and Computational Biology, Max F. Perutz Laboratories (MFPL), Campus Vienna Biocenter 5, 1030 Vienna, Austria (2)
Dept. of Biochemistry & Molecular Biology, Complex Carbohydrate Research Center, Center for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA 30602, Dept. of Biochemistry & Molecular Biology, University of Oklahoma Health Sciences Center, Oklahoma City, OK 73104 USA (2)
Institute of Molecular Biology (IMB), Mainz, Germany (2)
Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology - Hellas (FORTH), 100, Plastira Str., 70013 Heraklion, Crete, Greece. (2)
Medical Research Council (MRC) Protein Phosphorylation and Ubiquitylation Unit, School of Life Sciences, University of Dundee, Dow Street, Dundee DD1 5EH, UK. (2)
Medical Research Council Protein Phosphorylation and Ubiquitylation Unit School of Life Sciences, University of Dundee, Dundee, Scotland (2)
Monte Rosa Therapeutics (2)
Shanghai Center for Systems Biomedicine Shanghai Jiao Tong University (2)
Shanghai Institute of Hematology, State Key Laboratory of Medical Genomics, Collaborative Innovation Center of Hematology, National Research Center for Translational Medicine at Shanghai, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200000, China (2)
University of Freiburg, Institute of Biology II, Biochemistry/Functional Proteomics (2)
#*Assistant Professor Department of Biotechnology Indian Institute of Technology Roorkee (1)
1 Institute for Diabetes and Cancer, Helmholtz Munich, Neuherberg, Germany 2 Joint Heidelberg-IDC Translational Diabetes Program, Inner Medicine 1, Heidelberg University Hospital, Heidelberg, Germany 3 German Center for Diabetes Research (DZD), and German Center for Cardiovascular Disease (DZHK), Neuherberg, Germany 4 Chair Molecular Metabolic Control, Technical University Munich, Germany (1)
1 Institute for Research in Immunology and Cancer, Université de Montréal, Montréal, Canada 2 Department of Chemistry, Université de Montréal, Montréal, Canada (1)
1 SaBio, Instituto de Investigación en Recursos Cinegéticos (IREC), Consejo Superior de Investigaciones Científicas (CSIC), Universidad de Castilla-La Mancha (UCLM)-Junta de Comunidades de Castilla-La Mancha (JCCM), Ronda de Toledo 12, 13005 Ciudad Real, Spain (1)
1. Center for Medical Biotechnology, VIB, Ghent, Belgium 2. Department for Biomolecular Medicine, Ghent University, Ghent, Belgium 3. VIB Proteomics Core, VIB, Ghent, Belgium (1)
1. Center for Medical Biotechnology, VIB, Ghent, Belgium. 2. Department for Biomolecular Medicine, Ghent University, Ghent, Belgium 3. VIB Proteomics Core, VIB, Ghent, Belgium (1)
Anonymous for double-blind review. (1)
Associate Professor of Biochemistry & Molecular Biology, Director Proteomics Core, Indiana University School of Medicine (1)
Basic Research Lab for “Epigenetic Regeneration of Aged Skeleto-Muscular System (ERASMUS)”, Department of Molecular Genetics and Dental Pharmacology, School of Dentistry, Dental Research Institute, Seoul National University, Seoul, South Korea (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS), TUM School of Life Sciences, Technical University of Munich, Freising, Germany (1)
Bioanalytical Mass Spectromerty Group Max Planck Institute for Biophysical Chemnistry Goettingen, Germany (1)
Bioanalytical Mass Spectrometry Group, Max Planck Institute for Multidisciplinary Sciences, Am Fassberg 11, 37077 Göttingen, Germany Bioanalytics Group, Institute of Clinical Chemistry, University Medical Center Göttingen, Robert-Koch-Straße 40, 37075 Göttingen, Germany (1)
Bioanalytical Mass Spectrometry, Max Planck Institute for Multidisciplinary Sciences, Goettingen, Germany (1)

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The conserved ubiquitin-like protein Hub1 plays a critical role in splicing in human cells

Different from canonical ubiquitin-like proteins, Hub1 does not form covalent conjugates with substrates but binds proteins non-covalently. In Saccharomyces cerevisiae, Hub1 associates with spliceosomes and mediates alternative splicing of SRC1, without affecting pre-mRNA splicing generally. Human H...

ORGANISM(S): Homo sapiens

2014-05-30 | E-GEOD-56878 | biostudies-arrayexpress

E2/E3-independent ubiquitin-like protein conjugation by Urm1 is directly coupled to cysteine persulfidation

Posttranslational modifications by ubiquitin-like proteins (UBL) are essential for nearly all cellular processes. Ubiquitin related modifier 1 (Urm1) is a non-canonical UBL which plays a key role in tRNA anticodon thiolation as a sulfur carrier protein (SCP). While Urm1 has also been observed to con...

ORGANISM(S): Chaetomium Thermophilum (ncbitaxon:209285) Saccharomyces Cerevisiae (ncbitaxon:4932) Homo Sapiens (ncbitaxon:9606)

2021-11-16 | MSV000088390 | MassIVE

Bacteria conjugate ubiquitin-like proteins to interfere with phage assembly

PRJNA1092583 | ENA

Ubiquitin-like proteins NEDD8 and SUMO2 control epithelial homeostasis, regeneration, and inflammation [Xenium]

PRJNA1446694 | ENA

Ubiquitin-like proteins NEDD8 and SUMO2 control epithelial homeostasis, regeneration, and inflammation [RNA-Seq]

PRJNA1445702 | ENA

Ubiquitin-like proteins NEDD8 and SUMO2 control epithelial homeostasis, regeneration, and inflammation [scRNA-seq]

PRJNA1446691 | ENA

E2-RING expansion of the NEDD8 cascade confers specificity to cullin modification

Ubiquitin and ubiquitin-like proteins (UBLs) are directed to targets by cascades of E1, E2, and E3 enzymes. The largest ubiquitin E3 subclass consists of cullin-RING ligases (CRLs), which contain one each of several cullins (CUL1, -2, -3, -4, or -5) and RING proteins (RBX1 or -2). CRLs are activated...

ORGANISM(S): Mus musculus

2009-03-23 | E-GEOD-14088 | biostudies-arrayexpress

Ubiquitin-like proteins NEDD8 and SUMO2 control epithelial homeostasis, regeneration, and inflammation [RNA-Seq epithelial]

PRJNA1454082 | ENA

Ubiquitin-like proteins NEDD8 and SUMO2 control epithelial homeostasis, regeneration, and inflammation [RNA-Seq mouse]

PRJNA1445698 | ENA

Ubiquitin-like proteins NEDD8 and SUMO2 control epithelial homeostasis, regeneration, and inflammation [RNA-Seq SUMO2, NEDD8]

PRJNA1445703 | ENA