Targeted post-acquisition proteomics

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Proteomics (89)
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Palaemonetes sp. common grass shrimp associated circular virus (77)
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Clavibacter nebraskensis NCPPB 2581 (77)
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Mass Spectrometry (77)
Bottom-up proteomics (26)
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Data-independent acquisition (15)
SWATH MS (13)
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Instrument Platform

Liquid Chromatography MS - positive - reverse phase (5)
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TripleTOF 5600 (2)
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Agilent 5975E GC/MSD (Agilent) (1)
MS Imaging - (1)
API 4000 QTRAP (AB Sciex) (1)
Liquid Chromatography MS - alternating - reverse phase (1)
Liquid Chromatography MS - positive - hilic (1)

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2026 (20)
2025 (20)
2022 (11)
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2020 (7)
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2019 (5)
2017 (4)
2015 (3)
2018 (2)
2010 (1)

CHEBI ID

CHEBI:16335 (4)
CHEBI:17562 (3)
CHEBI:16750 (3)
CHEBI:16610 (3)
CHEBI:16704 (3)
CHEBI:17596 (3)
CHEBI:53175 (2)
CHEBI:178090 (2)
CHEBI:68467 (2)
CHEBI:84962 (2)
CHEBI:22151 (2)
CHEBI:178092 (2)
CHEBI:19688 (2)
CHEBI:178091 (2)
CHEBI:19068 (2)
CHEBI:20129 (2)
CHEBI:19229 (2)
CHEBI:19228 (2)
CHEBI:28281 (2)
CHEBI:20794 (2)
CHEBI:17169 (2)
CHEBI:19702 (2)
CHEBI:89487 (2)
CHEBI:19227 (2)
CHEBI:19062 (2)
CHEBI:69426 (2)
CHEBI:16040 (2)
CHEBI:27570 (2)
CHEBI:18295 (2)
CHEBI:28300 (2)

Metabolite Name

Adenosine (3)
Uridine (3)
Pseudouridine (3)
4-methylcytidine (2)
2-methylguanosine (2)
2'-O-methylinosine (2)
Dihomo-gamma-linolenic acid (2)
2'-O-methyluridine (2)
7-methylguanosine (2)
6-methyladenosine (2)
8-methyladenosine (2)
2-methyladenosine (2)
3-methyluridine (2)
5-methyluridine (2)
3-methylpseudouridine (2)
1-methylpseudouridine (2)
3-methylcytidine (2)
5-methylcytidine (2)
2'-O-methylguanosine (2)
Phosphoric acid (2)
2'-O-methylcytidine (2)
1-methylinosine (2)
Valerophenone (2)
Trigonelline (2)
1-methyladenosine (2)
Citiolone (2)
Andrographolide (2)
2'-O-methyladenosine (2)
Metoprolol (2)
Sedanolide (2)

Modification

N6 (1)
N6-dimethyl-L-lysine (1)

Study type

Proteomic profiling by array (1)
RNA-seq of coding RNA (1)

Release Date

2025 (3)
2023 (3)
2021 (3)
2026 (2)
2018 (2)
2016 (2)
2015 (2)
2010 (1)
2022 (1)
2020 (1)
2019 (1)
2011 (1)

Lab affiliation

Department of Chemistry, The Scripps Research Institute, La Jolla, CA, USA (3)
Department of Laboratory Medicine and Pathology, Mayo Clinic (2)
Institute of Biochemistry (IBC, ETHZ) (1)
1 Institute for Research in Immunology and Cancer, Université de Montréal, Montréal, Canada 2 Department of Chemistry, Université de Montréal, Montréal, Canada (1)
Department of Cellular and Molecular Medicine, University of Ottawa, Ottawa, ON, Canada. (1)
Professor of Pathology, Oncology, and Chemical and Biomolecular Engineering Director of Mass Spectrometry Core Facility, Center for Biomarker Discovery and Translation Johns Hopkins University 400 N. Broadway Street, Smith Building, Room 4011, Baltimore, MD 21231 (1)
Institute for Cell Biology, Dept. Immunology Auf der Morgenstelle 15, 72076 Tübingen, Germany Partner Site of the German Cancer Consortium (1)
the First Affiliated Hospital of Shenzhen University (1)
Institute of Molecular Systems Biology, Department of Biology, ETH Zurich, Zurich, Switzerland and Faculty of Science, University of Zurich, Zurich, Switzerland (1)
Faculty of Engineering and Natural Science, Biomedical Engineering Department, Karabuk University, Karabuk, Türkiye (1)
Institute of Parasitology, Vetsuisse Faculty, University of Zurich, Winterthurerstrasse 266a, 8057 Zurich, Switzerland (1)
Institute of Biochemistry, ETHZ (1)
University of Naples Federico II and CEINGE Biotecnoloige Avanzate "Franco Salvatore" (1)
Medical Research Council - London Institute of Medical Sciences, Telomere Replication and Stability Group, United Kingdom. (1)
Proteomics and Metabolomics Unit IRCCS-S.Lucia Foundation Roma ITALY (1)
Department of Molecular Genetics and Cell Biology, The University of Chicago, Chicago IL, USA (1)
FACSM Professor, Department of Biology, Appalachian State University (1)
1 Institute of Marine Sciences, Spanish National Research Council (CSIC), 08003 Barcelona, Spain 2 Institute of Biotechnology and Biomedicine (IBB), Universitat Autònoma de Barcelona, 08193 Bellaterra (Cerdanyola del Vallès), Spain (1)
Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, 08028 Barcelona, Spain (1)
Massachusetts Institute of Technology, Department of Biological Engineering, David H Koch Institute for Integrative Cancer Research (1)
Institute of Biochemistry II Goethe University School of Medicine Germany (1)
Associate Professor Systems Virology Department of Translation medicine Faculty of Medicine Lund University Sweden (1)
(Monash University). Y. T. Candace Ho: yee.ho@monash.edu (Monash University) (1)
Center for Interdisciplinary Cardiovascular Sciences, Brigham and Women’s Hospital, US (1)
Proteomics of Stem Cells and Cancer. University Clinic Heidelberg. German Cancer Research Center. Im Neuenheimer Feld 581 Heidelberg, Germany. (1)
Center for Proteomics and Metabolomics, Leiden University Medical Center and Proteomics Centre, University of Victoria (1)
Institute of Clinical Chemistry, Bioanalytics, University Medical Center Göttingen, Göttingen, Germany (1)
Robert Koch Institute Centre for Biological Threats and Special Pathogens: Highly Pathogenic Viruses (ZBS1) (1)
National Institute of Standards and Technology (1)
Institute of Molecular Systems Biology ETH Zürich Switzerland (1)

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High-performance nano-flow liquid chromatography column combined with high- and low-collision energy data-independent acquisition enables targeted and discovery identification of modified ribonucleotides by mass spectrometry (Data-independent acquisition)

Over 170 post-transcriptional RNA modifications have been described and are common in all kingdoms of life. These modifications range from methylation to complex chemical structures, with methylation being the most abundant. RNA modifications play a key role in RNA folding and function and their ...

2023-10-26 | MTBLS2959 | MetaboLights

2023-10-26 | MTBLS2497 | MetaboLights

Building high-quality assay libraries for targeted analysis of SWATH MS data

Targeted proteomics by selected/multiple reaction monitoring or, on a larger scale, by SWATH MS relies on spectral reference libraries for peptide identification. Quality and coverage of these libraries are therefore of critical importance. Here we present a detailed protocol that has been successfu...

ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932)

2018-06-26 | MSV000082506 | MassIVE

Building high-quality assay libraries for targeted analysis of SWATH MS data

ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast)

2015-01-26 | PXD001126 | Pride

Host-pathogen dynamics through targeted secretome analysis of stimulated macrophages.

Not available

S-EPMC6149218 | biostudies-literature

Proteomics data analysis for the identification of proteins and derived proteotypic peptides to be used as drought tolerance markers in Quercus ilex

Drought is considered one of the main causes of mortality of holm oak (Quercus ilex) upon seedling plantations in reforestation programs. Although Q. ilex shows high adaptability to extreme climate conditions prevailing in Southern Spain, the genetic variability inherent to this species could be ass...

ORGANISM(S): Quercus ilex (Holly oak)

2023-03-11 | PXD023782 | Pride

Targeted post-acquisition proteomics Peptides markers Quercus ilex Drought tolerance

Proteomics Applications in <i>Toxoplasma gondii</i>: Unveiling the Host-Parasite Interactions and Therapeutic Target Discovery.

Not available

S-EPMC10821451 | biostudies-literature

Affinity-Bead Assisted Mass Spectrometry (Affi-BAMS): A Multiplexed Microarray Platform for Targeted Proteomics.

Not available

S-EPMC7139916 | biostudies-literature

Proteomics with Enhanced In-Source Fragmentation/Annotation: Applying XCMS-EISA Informatics and Q-MRM High-Sensitivity Quantification.

Not available

S-EPMC10245389 | biostudies-literature