Protein recognition

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Organisms

Homo sapiens (305)
Mus musculus (194)
Saccharomyces cerevisiae (49)
Arabidopsis thaliana (36)
Drosophila melanogaster (27)
synthetic construct (16)
Caenorhabditis elegans (12)
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Rattus norvegicus (6)
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mouse metagenome (2)
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biostudies-arrayexpress (1122)
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pride (757)
geo (733)
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Tissue

Cell culture (164)
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Technology Type

Mass Spectrometry (757)
Shotgun proteomics (360)
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Gel-based experiment (59)
Chemical cross-linking coupled with mass spectrometry proteomics (39)
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MSE (7)
HDMSE (6)
NMR spectroscopy (5)
Immunopeptidomics (5)
All-ion fragmentation (4)
Proteogenomics (4)
Glycoproteomics (2)
Illumina HiSeq 2500 (1)
NMR spectroscopy assay (1)
Affinity proteomics (1)
DiaPASEF (1)
Mass spectrometry imaging (1)
RNA mass spectrometry (1)

Instrument Platform

Illumina HiSeq 2500 (15)
Illumina HiSeq 2000 (13)
NextSeq 500 (13)
Illumina HiSeq 4000 (12)
Illumina NovaSeq 6000 (9)
Illumina MiSeq (5)
DNBSEQ-G400 (4)
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BD FACSMelody (1)
Agilent G2565BA Microarray Scanner System (Agilent Technologies, Santa Clara, CA) (1)
Tecan HS4800 hybridization station (Tecan, Vienna, Austria) (1)
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Geniom (1)
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The Agilent C scanner (1)
Nimblegen (1)
Sequel (1)
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ScanArray 5000 [PerkinElmer] (1)
Illumina Genome Analyzer IIx (1)
Axon- GenePix4000B (1)
418 [Affymetrix] (1)
Scanning hardware (1)
Ion Torrent PGM (1)
R (1)

Publication Date

2025 (260)
2026 (216)
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2023 (201)
2022 (187)
2014 (183)
2012 (167)
2013 (166)
2021 (153)
2010 (148)
2011 (143)
2015 (139)
2020 (133)
2016 (106)
2019 (99)
2018 (90)
2017 (70)
2009 (62)
2008 (61)
2007 (36)
2005 (16)
2006 (11)
2004 (3)
2002 (1)
2027 (1)

UNIPROT ID/AC

1FEH1_WHEAT (2)
4565.Traes_1AL_1205BBAE8.1 (2)
4565.Traes_1AL_1DC9BD199.1 (2)
4565.Traes_1AL_2EF38544E.1 (2)
4565.Traes_1AL_3B7E92634.1 (2)
4565.Traes_1AL_968B97E50.1 (2)
4565.Traes_1AL_B3E4C9B23.1 (2)
4565.Traes_1AL_BB4758A6F.1 (2)
4565.Traes_1AL_D789B5634.1 (2)
4565.Traes_1AL_D8FE82B94.1 (2)
4565.Traes_1AS_54A7FBBFC.1 (2)
4565.Traes_1AS_6AC8C20AE.1 (2)
4565.Traes_1AS_7EB01951F.1 (2)
4565.Traes_1AS_E14F4EB86.1 (2)
4565.Traes_1BL_07C296E67.1 (2)
4565.Traes_1BL_12E12ED7C.1 (2)
4565.Traes_1BL_212EC3A2C.1 (2)
4565.Traes_1BL_23485C382.2 (2)
4565.Traes_1BL_28FC38E43.1 (2)
4565.Traes_1BL_38CAFCA561.1 (2)
4565.Traes_1BL_38FE8B094.2 (2)
4565.Traes_1BL_55033DAE8.2 (2)
4565.Traes_1BL_66D2E2865.2 (2)
4565.Traes_1BL_6837B7A81.2 (2)
4565.Traes_1BL_7B1831D79.2 (2)
4565.Traes_1BL_8028DEB2B.1 (2)
4565.Traes_1BL_8601EC2E0.1 (2)
4565.Traes_1BL_917AB0D4B.1 (2)
4565.Traes_1BL_9908E325A.2 (2)
4565.Traes_1BL_99C748D51.1 (2)

CHEBI ID

CHEBI:30769 (14)
CHEBI:17268 (11)
CHEBI:17596 (11)
CHEBI:16737 (10)
CHEBI:16919 (10)
CHEBI:16828 (10)
CHEBI:17368 (10)
CHEBI:48430 (9)
CHEBI:17750 (9)
CHEBI:16704 (9)
CHEBI:18132 (8)
CHEBI:17562 (8)
CHEBI:17154 (8)
CHEBI:17203 (8)
CHEBI:15891 (8)
CHEBI:15724 (8)
CHEBI:17895 (8)
CHEBI:16450 (7)
CHEBI:17858 (7)
CHEBI:16040 (7)
CHEBI:15676 (7)
CHEBI:16708 (7)
CHEBI:16750 (7)
CHEBI:28044 (7)
CHEBI:16566 (7)
CHEBI:7916 (7)
CHEBI:17012 (7)
CHEBI:18183 (7)
CHEBI:15843 (7)
CHEBI:16857 (7)

Metabolite Name

Creatine (10)
L-Tryptophan (9)
L-Tyrosine (9)
L-Arginine (8)
L-Histidine (8)
Creatinine (8)
L-Leucine (8)
L-Phenylalanine (8)
L-Alanine (7)
L-Proline (7)
Citric acid (7)
Cytosine (7)
L-Glutamine (7)
Betaine (6)
Glutathione (6)
Ornithine (6)
Acetylcarnitine (6)
N-Acetylneuraminic acid (6)
Glycylproline (6)
Oleic acid (6)
Cytidine (6)
Guanosine (6)
Thymidine (6)
L-Isoleucine (6)
Inosine (6)
Myoinositol (5)
Melibiose (5)
Ursodeoxycholic acid (5)
L-Lysine (5)
Deoxyuridine (5)

First Public Date

2026 (133)
2025 (131)
2024 (122)
2014 (102)
2023 (85)
2020 (74)
2022 (73)
2019 (63)
2021 (59)
2017 (56)
2018 (35)
2013 (35)
2015 (25)
2016 (23)
2012 (1)

Modelling Approach

Ordinary differential equation model (5)
Mathematical model (1)
Other (1)

Study status

Ongoing (1)

Lab affiliation

Department of Cellular & Molecular Physiology, Yale School of Medicine, New Haven, CT 06520, USA. Systems Biology Institute, Yale University, New Haven, CT 06516, USA (7)
Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (6)
Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02215, USA., Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA (4)
Ludwig-Maximilians-Universität München Genzentrum Laboratory for Functional Genome Analysis Feodor-Lynen-Str. 25 D-81377 München (4)
Tianjin Key Laboratory of Biosensing and Molecular Recognition, Research Center for Analytical Science, Frontiers Science Center for New Organic Matter, College of Chemistry, Nankai University, Tianjin 300071, China (4)
UMR 7367 CNRS-UL IMoPA Biopôle de l'Université de Lorraine Campus Brabois-Santé 9 avenue de la forêt de Haye 54505 Vandoeuvre-les-Nancy FRANCE (4)
Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands (3)
Biomolecular characterization unit, Center for Sustainable Resource Science, RIKEN (3)
Department of Cellular & Molecular Physiology, Yale School of Medicine, New Haven, CT 06520, USA. Systems Biology Institute, Yale University, New Haven, CT 06516, USA (3)
Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel (3)
Edinburgh Cancer Research, CRUK Scotland Centre, Institute of Genetics and Cancer, University of Edinburgh, Crewe Road South, Edinburgh EH4 2XU, UK (3)
Institute for Research in Immunology and Cancer, Department of Biochemistry, Department of Chemistry, Université de Montréal, Québec, Canada H3T 1J4 (3)
Institute of Functional Epigenetics, Helmholtz Zentrum München, 85764 Neuherberg, Germany. (3)
MSBioLMU Großhaderner Str. 2-4 82152 Planegg-Martinsried (3)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (3)
The Sainsbury Laboratory (3)
UFIEC, Chronic Disease Programme, Functional Proteomics Unit, Instituto de Salud Carlos III (3)
Virginia Tech, Biological Sciences (3)
Agronomy College/National Key Laboratory of Wheat and Corn Crop/Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University ,Zhengzhou China (2)
Baxter Laboratory for Stem Cell Biology Department of Microbiology & Immunology Stanford University School of Medicine 269 Campus Drive CCSR 3205b Stanford, CA 94305, USA (2)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Science4Life, University of Utrecht, Padualaan 8, 3584 CH Utrecht, The Netherlands (2)
Boston University Goldman School of Dental Medicine Boston MA, 02118, USA (2)
Centre for Bioinnovation, University of the Sunshine Coast (2)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, United States (2)
Department of Biological Sciences, Vanderbilt University (2)
Department of Biomedical Sciences, University of Padova, Italy (2)
Department of Cell Biology Harvard Medical School Boston, MA USA (2)
Department of Chemistry, Stanford ChEM-H (2)
Department of Gastroenterology, Xinqiao Hospital, Army Medical University, Chongqing, 400037, China. (2)
Department of Pharmaceutical Biotechnology, Institute of Pharmacy, University of Greifswald, Germany (2)

Keyword

Aldara (1)
P53-SLP vaccine (1)
PEGintron (1)

IsPrivate

False (9)

Submitter Keywords

Not Peer Reviewed (1)

Classification

bacteria (26)
protozoa (15)
viruses (6)
fungi (5)

Modification

N6 (4)
2x(15)N labeled L-lysine (2)
1x(15)N labeled L-leucine (1)
4-dinitrophenyl modified residue (1)
4-tetrahydrothiazine-3-carboxylic acid (1)
4x(15)N labeled L-arginine (1)
57.021464 (1)
Not available (1)

Study type

Transcription profiling by array (567)
RNA-seq of coding RNA (189)
ChIP-seq (96)
RNA-seq of non coding RNA (49)
Other (31)
ChIP-chip by tiling array (29)
Methylation profiling by high throughput sequencing (27)
Unknown experiment type (21)
Comparative genomic hybridization by array (14)
ChIP-chip by array (13)
DNA-seq (9)
RNA-seq of coding RNA from single cells (9)
MicroRNA profiling by array (8)
Methylation profiling by array (8)
RNAi profiling by array (6)
Proteomic profiling by array (6)
Transcription profiling by RT-PCR (5)
Transcription profiling by SAGE (4)
Animal - High-throughput sequencing (4)
Genotyping by array (4)
Transcription profiling by tiling array (3)
CLIP-seq (3)
RNA-seq of total RNA (3)
Plant - High-throughput sequencing (2)
CUT&RUN (2)
Differential (1)
CLIP-Seq (1)
Cell line - One-color microarray (1)
Cell line - High-throughput sequencing (1)
MicroRNA profiling by high throughput sequencing (1)

Release Date

2022 (1447)
2021 (1359)
2025 (1219)
2023 (1179)
2020 (1108)
2024 (1065)
2014 (1011)
2015 (1004)
2016 (982)
2019 (974)
2018 (971)
2017 (920)
2013 (858)
2012 (845)
2011 (824)
2010 (715)
2009 (575)
2008 (445)
2007 (357)
2006 (268)
2005 (219)
2004 (166)
2026 (153)
2003 (124)
2002 (106)
2001 (86)
2000 (72)
1999 (57)
1998 (44)
1997 (19)

Location

Netherlands (1)

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Functional signature for the recognition of specific target mRNAs by human staufen1 protein

Cellular mRNAs are permanently associated to proteins in the form of ribonucleoprotein particles. In addition to the hnRNP and SR protein families, the double-stranded RNA-binding (DRB) proteins play important roles in mRNA synthesis, modification, activity and decay (Dreyfuss et al, 2002; Stutz & I...

ORGANISM(S): Homo sapiens

2014-02-06 | E-GEOD-47226 | biostudies-arrayexpress

Effect of Drosophila immune proteins on gene expression in E. coli

Interaction between the host and invading pathogen determines the fate of both organisms during the infectious state. The host is equipped with a battery of immune reactions, while the pathogen displays a variety of mechanisms to compromise host immunity. Although bacteria alter their pattern of g...

ORGANISM(S): Escherichia coli

2015-01-13 | E-GEOD-61604 | biostudies-arrayexpress

RNA sequencing reveals novel gene clusters in bovine conceptuses associated with maternal recognition of pregnancy and implantation

Successful establishment and maintenance of pregnancy can be attained only through optimum conceptus-maternal cross talk. Despite significant progress in our understanding of the temporal changes in the transcriptome of the uterine endometrium, we have only a rudimentary knowledge of the genes and p...

ORGANISM(S): Bos taurus

2014-04-04 | E-GEOD-56513 | biostudies-arrayexpress

Croquemort elicits activation of the immune deficiency pathway in ticks

The immune deficiency (IMD) pathway directs host defense in arthropods upon bacterial infection. In Pancrustacea, peptidoglycan recognition proteins sense microbial moieties and initiate nuclear factor-κB-driven immune responses. Proteins that elicit the IMD pathway in non-insect arthropods remain e...

2023-04-27 | MTBLS686 | MetaboLights

DNA mismatches reveal conformational penalties in protein-DNA recognition II

PRJNA657621 | ENA

DNA mismatches reveal conformational penalties in protein-DNA recognition VI

PRJNA660003 | ENA

DNA mismatches reveal conformational penalties in protein-DNA recognition I

PRJNA657367 | ENA

DNA mismatches reveal conformational penalties in protein-DNA recognition V

PRJNA660004 | ENA

DNA mismatches reveal conformational penalties in protein-DNA recognition IV

PRJNA660006 | ENA

DNA mismatches reveal conformational penalties in protein-DNA recognition III