Integrated structural biology

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Unknown (2738)
Proteomics (104)
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Genomics (68)
Metabolomics (12)
Models (4)
Other (2)
Multiomics (1)

Organisms

Bombyx mori (92)
Klebsiella pneumoniae (92)
Schizosaccharomyces pombe (92)
Homo sapiens (63)
Mus musculus (11)
Saccharomyces cerevisiae (4)
Arabidopsis (3)
Caenorhabditis elegans (3)
Rattus norvegicus (3)
Escherichia coli (3)
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Drosophila melanogaster (2)
Arabidopsis thaliana (2)
Rhodococcus opacus (1)
Cyanidioschyzon merolae (1)
Dehalococcoides (1)
Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821 (1)
Mytilus galloprovincialis (1)
Brassica napus (1)
Streptomyces coelicolor (1)
Aspergillus fumigatus (1)
Escherichia coli str. K-12 substr. MG1655 (1)
Morchella eximia (1)
Solanum lycopersicum (1)
Montipora foliosa (1)
Acropora muricata (1)
Pocillopora verrucosa (1)
Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539 (1)
Bos taurus (1)
Plasmodium (1)

Organisms

Homo sapiens (13)
Mus musculus (11)
Daphnia magna (7)
Saccharomyces cerevisiae (4)
unidentified (3)
Morchella eximia (1)
Cherax quadricarinatus (1)
Drosophila melanogaster (1)
Escherichia coli (1)

Repository

pride (92)
biostudies-arrayexpress (83)
ENA (52)
geo (15)
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jPOST (1)

Tissue

Cell culture (25)
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Cell suspension culture (4)
Primary cell (3)
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T cell (3)
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Embryonic stem cell (2)
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Leaf (2)
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Lung (2)
B cell (2)
Saliva (2)
Articular cartilage (1)
Colonic epithelium (1)
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Optic nerve (1)
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Hemolymph (1)
Type II pneumocyte (1)
Astrocyte (1)
JURKAT cell (1)
Plant cell (1)
Leukocyte (1)

Disease

Normal (2)
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Disease free (1)
Acute leukemia (1)

Technology Type

Mass Spectrometry (92)
Shotgun proteomics (33)
Bottom-up proteomics (30)
Data-dependent acquisition (17)
Data-independent acquisition (11)
Affinity purification coupled with mass spectrometry proteomics (11)
Chemical cross-linking coupled with mass spectrometry proteomics (9)
Mass spectrometry (7)
Gel-based experiment (5)
SWATH MS (4)
Mass spectrometry assay (3)
NMR spectroscopy (2)
DiaPASEF (2)
SRM/MRM (2)
Top-down proteomics (2)
AB SOLiD System 3.0 (1)
MSE (1)
HDMSE (1)

Instrument Platform

Illumina NovaSeq 6000 (7)
N/A (6)
Chromium Next GEM Single Cell Multiome ATAC + Gene Expression Reagent Bundle, (4)
Q Exactive (4)
10X Genomics reagent kit (3)
Liquid Chromatography MS - positive - reverse phase (3)
Liquid Chromatography MS - negative - reverse phase (3)
10X Chromium Nuclei Isolation Kit (2)
BGISEQ-500 (2)
NextSeq 500 (2)
LTQ Orbitrap Velos (2)
Gas Chromatography MS - (2)
Agilent TapeStation (1)
Chromium Next GEM Single Cell Multiome Reagent Bundle (1)
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10X Chromium On-Chip Multiplex (1)
Element AVITI (1)
Illumina Genome Analyzer (1)
None (1)
Illumina HiSeq X (1)
R (1)
Illumina MiSeq (1)
Illumina HiSeq 2500 (1)
Impact (1)
SolariX (1)
LTQ Orbitrap Elite (1)
Impact II (1)
Orbitrap Fusion (1)
TimsTOF Pro (1)
Orbitrap Fusion Lumos (1)

Publication Date

2026 (31)
2025 (28)
2023 (22)
2024 (17)
2012 (13)
2022 (11)
2020 (10)
2015 (10)
2010 (10)
2013 (9)
2021 (8)
2016 (8)
2009 (8)
2019 (8)
2014 (7)
2011 (6)
2008 (5)
2018 (3)
2007 (1)
2017 (1)

UNIPROT ID/AC

Q93WK5 (3)
Q8L500 (3)
Q9LKL2 (3)
O81713 (3)

CHEBI ID

CHEBI:17822 (6)
CHEBI:26271 (6)
CHEBI:25094 (6)
CHEBI:18186 (6)
CHEBI:26986 (6)
CHEBI:17234 (6)
CHEBI:24898 (6)
CHEBI:17268 (6)
CHEBI:6650 (6)
CHEBI:28044 (6)
CHEBI:27266 (6)
CHEBI:30769 (6)
CHEBI:17992 (5)
CHEBI:33508 (5)
CHEBI:27570 (5)
CHEBI:28300 (5)
CHEBI:25017 (5)
CHEBI:15428 (5)
CHEBI:17154 (5)
CHEBI:17568 (5)
CHEBI:15891 (5)
CHEBI:16449 (5)
CHEBI:29016 (5)
CHEBI:16737 (5)
CHEBI:16919 (5)
CHEBI:15354 (5)
CHEBI:17596 (5)
CHEBI:17368 (5)
CHEBI:91315 (4)
CHEBI:33699 (3)

Metabolite Name

Citrate (5)
Proline (4)
Malate (4)
Lysine (4)
Glutamate (4)
Fumarate (4)
Arginine (4)
Histidine (4)
Phenylalanine (4)
Tyrosine (4)
Threonine (4)
Glucose (4)
Choline (4)
Creatine (4)
Glutamine (4)
Alanine (4)
Valylleucine (3)
Nicotinate (3)
Alanylleucine (3)
Methylphosphate (3)
Glycylvaline (3)
N-acetylglucosaminylasparagine (3)
Phytosphingosine (3)
2'-deoxyguanosine (3)
Dehydroascorbate (3)
2'-deoxyadenosine (3)
Succinimide (3)
N-methylproline (3)
1-palmitoyl-GPA (16:0) (3)
Quinate (3)

First Public Date

2014 (10)
2025 (9)
2026 (7)
2023 (6)
2024 (5)
2015 (5)
2020 (3)
2013 (3)
2021 (2)
2022 (1)
2011 (1)

Modelling Approach

Ordinary differential equation model (3)
Constraint-based model (1)

Lab affiliation

Medical Research Council Mitochondrial Biology Unit, University of Cambridge. U.K. (4)
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)
Research Unit in Biology of Microorganisms (URBM), Namur Research Institute for life Sciences (Narilis), University of Namur, Namur, Belgium (2)
Department of Biochemistry Biophysics and Structural Biology, Department of Biochemistry and Molecular Biophysics, Washington University in St. Louis, St. Louis, Missouri, United States (2)
Department of Biology, University of Konstanz, Germany (2)
Institute of Pharmacology and Structural Biology, CNRS, Toulouse (2)
Department of Integrative Structural and Computational Biology, Department of Chemistry, and The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA. (1)
Biomedical Center, Chromatin Proteomics Group, Department of Molecular Biology, Faculty of Medicine, Ludwig-Maximilians-Universität München, Großhaderner Strasse 9, 82152 Planegg-Martinsried, Germany. (1)
Lung Biology, Department of Experimental Medical Science, Lund University, Lund, Sweden. (1)
Princeton University, Molecular Biology Department, USA (1)
Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, 94720, USA (1)
Epithelial Systems Biology Laboratory Systems Biology Center Division of Intramural Research NHLBI, NIH USA (1)
Molecular Biology and Biotechnology, Pan African University, Institute for Basic Sciences, Technology and Innovation P.O. Box 62000 - 00200 Nairobi, Kenya (1)
Structural Studies Division MRC Laboratory of Molecular Biology Francis Crick Avenue Cambridge CB2 0QH, UK (1)
Department of Structural Biology, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Berlin, Germany (1)
Molecular Biology Department, Princeton University, USA (1)
Department of Biology University of Konstanz Germany (1)
Musculoskeletal and Ageing Science Research Lead, Institute of Life Course and Medical Sciences, Faculty of Health & Life Sciences, University of Liverpool (1)
Institute of Parasitology, Centre for Biology, Academy of Science of the Czech Republic, Czech Republic Faculty of Science, University of South Bohemia in Ceske Budejovice, Czech Republic (1)
DST-NRF Center for Excellence in Biomedical TB research south African Medical Research Council Center for Tuberculosis Research Division of Molecular Biology and Human Genetics Department of Biomedical Science Faculty of Medicine and Health Science Stellenbosch University Cape Town South Africa (1)
Molecular, Cellular, and Biomedical Sciences, University of New Hampshire, NH, USA (1)
Department of Biochemistry and Molecular and Structural Biology Jozef Stefan Institute Ljubljana, Slovenia (1)
Assistant Professor, Chemistry and Biochemistry, Biological Chemistry Member, Biochemistry, Biophysics & Structural Biology GPB Home Area (1)
Structural Biology Lab, College of Pharmacy, Yeungnam University (1)
Biomedical Center Munich (BMC), Department of Cell Biology and Anatomy, Medical Faculty, LMU, Munich, Germany; Institute of Stem Cell Research, Helmholtz Zentrum Munich, Munich, Germany (1)
Newcastle University Biosciences Institute Cookson Building Newcastle University NE2 4HH United Kingdom (1)
Institut Pasteur, Université Paris Cité, Unit Evolutionary Biology of Microbial Cell, Paris, France (1)
Department of Biochemistry and Structural Biology, UT Health San Antonio, San Antonio, TX 78922 (1)
Department of Structural Biology, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Robert-Rössle-Straße 10, 13125 Berlin, Germany (1)
UNIVERSITY OF OXFORD, DIVISION OF STRUCTURAL BIOLOGY (1)

IsPrivate

False (4)

Submitter Keywords

Not Peer Reviewed (1)

Classification

bacteria (1)

Modification

4-tetrahydrothiazine-3-carboxylic acid (2)
N6 (1)
2x(15)N labeled L-lysine (1)
4x(15)N labeled L-arginine (1)

Study type

Transcription profiling by array (35)
RNA-seq of coding RNA (15)
Comparative genomic hybridization by array (6)
ChIP-chip by tiling array (4)
Single nucleus RNA sequencing (4)
DNA-seq (4)
ChIP-seq (3)
RNA-seq of non coding RNA (3)
Other (2)
Genotyping by array (1)
ScATAC-seq (1)
MicroRNA profiling by array (1)
Methylation profiling by array (1)
Proteomic profiling by array (1)
RNA-seq of coding RNA from single cells (1)
RNA-seq of total RNA (1)

Release Date

2025 (342)
2021 (242)
2024 (241)
2022 (234)
2023 (213)
2020 (204)
2019 (173)
2016 (152)
2017 (144)
2018 (138)
2015 (124)
2014 (105)
2013 (98)
2012 (85)
2026 (71)
2011 (64)
2010 (54)
2009 (42)
2008 (32)
2007 (22)
2006 (16)
2005 (5)
2004 (4)
2000 (4)
2003 (3)
2002 (3)
1998 (2)
2001 (1)
1999 (1)
1997 (1)

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Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health

In order to explore opportunities for personalized and predictive health care, we collected serial clinical measurements, health surveys and multiomics profiles (genomics, proteomics, autoantibodies, metabolomics and gut microbiome) from 96 individuals. The participants underwent data-driven heal...

2021-09-02 | MTBLS2187 | MetaboLights

Integrated multi-omics analysis of adverse cardiac remodeling and metabolic inflexibility upon ErbB2 and ERRα deficiency

Functional oncogenic links between ErbB2 and ERRα in HER2+ breast cancer patients support a therapeutic benefit of co-targeted therapies. However, ErbB2 and ERRα also play key roles in heart physiology, and this approach could pose a potential liability to cardiovascular health. Herein, using integr...

2022-09-20 | MTBLS795 | MetaboLights

Integrated genomics approach to detect allelic imbalances in multiple myeloma, SNP data

A SNP microarray and FISH-based procedure to detect allelic imbalances in multiple myeloma: an integrated genomics approach reveals a wide dosage effect on gene and microRNA expression Multiple myeloma (MM) is characterized by marked genomic instability. Beyond structural rearrangements, a relevant...

ORGANISM(S): Homo sapiens

2009-05-16 | E-GEOD-16121 | biostudies-arrayexpress

Structural Basis of Transcription: RNA Polymerase Backtracking and Its Reactivation.

Not available

S-EPMC7611809 | biostudies-literature

Utilizing artificial intelligence system to build the digital structural proteome of reef-building corals

Reef-building corals play an important role in the marine ecosystem, and analyzing their proteomes from a structural perspective will exert positive effects on exploring their biology. Here we integrated mass spectrometry with newly published AI systems to obtain digital structural proteomes of domi...

ORGANISM(S): Montipora Foliosa Acropora Muricata Pocillopora Verrucosa

2022-06-30 | PXD034973 |

Local heterogeneity analysis of crystallographic and cryo-EM maps using shell-approximation.

Not available

S-EPMC10329102 | biostudies-literature

Systems Biology Analysis of Zymomonas mobilis ZM4 Ethanol Stress Responses

Background Zymomonas mobilis ZM4 is a capable ethanologenic bacterium with high ethanol productivity and ethanol tolerance. Previous studies indicated that several stress-related proteins and changes in the ZM4 membrane lipid composition may contribute to ethanol tolerance. However, the molecular m...

ORGANISM(S): Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821

2013-09-04 | E-GEOD-21165 | biostudies-arrayexpress

Deriving and refining atomic models in crystallography and cryo-EM: the latest Phenix tools to facilitate structure analysis.

Not available

S-EPMC6778849 | biostudies-literature

Structural Studies Provide New Insights into the Role of Lysine Acetylation on Substrate Recognition by CARM1 and Inform the Design of Potent Peptidomimetic Inhibitors.

Not available

S-EPMC9293414 | biostudies-literature

Integrated structural biology of the native malarial translation machinery and its inhibition by an antimalarial drug.

Not available

S-EPMC12618226 | biostudies-literature