Tube-gel - OmicsDI

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Transcriptomics (1404)
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Unknown (226)
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Mus musculus (364)
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Drosophila melanogaster (175)
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Populus trichocarpa x Populus deltoides (7)
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Escherichia coli str. K-12 substr. MG1655 (7)
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Salmonella enterica subsp. enterica serovar Typhimurium (6)
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Blumeria graminis hordei (powdery mildew) inoculation (1)
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Squamous cell carcinoma has accession C0007137 in DiseaseStateDatabase NCI_Thesaurus (1)
Carotid artery disease: ASYMPTOMATIC high-grade inner carotid artery stenosis (1)
Pancreatic ductal adenocarcinoma (1)
Hodgkin lymphoma, mixed cellularity, stage IV (1)
Infected (1)
MFC II (1)
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No local recurrence (1)
Triple negative breast cancer (1)
Chronic granulomatous disease (1)
Marsh 3 (1)
Oligodendroglioma (1)

Technology Type

Mass Spectrometry (948)
Shotgun proteomics (414)
Gel-based experiment (239)
Bottom-up proteomics (163)
Affinity purification coupled with mass spectrometry proteomics (136)
Data-dependent acquisition (94)
Top-down proteomics (30)
Data-independent acquisition (25)
SWATH MS (24)
Mass spectrometry (19)
Chemical cross-linking coupled with mass spectrometry proteomics (19)
HDMSE (8)
SRM/MRM (8)
All-ion fragmentation (5)
DiaPASEF (4)
MSE (4)
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Metaproteomics (2)
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Instrument Platform

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418 [Affymetrix] (3)
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PromethION (2)

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2003 (4)

UNIPROT ID/AC

A0A024R563 (1)
A0A024RAN2 (1)
A0A024RC46 (1)
A0A075B6P5 (1)
A0A087WT59 (1)
A0A087WTX5 (1)
A0A087WVW2 (1)
A0A087WVZ5 (1)
A0A087WWA5 (1)
A0A087WXI0 (1)
A0A087WYL9 (1)
A0A087WZE9 (1)
A0A087X130 (1)
A0A087X1S3 (1)
A0A087X1V9 (1)
A0A087X232 (1)
A0A0A0MR66 (1)
A0A0A0MS07 (1)
A0A0A0MS51 (1)
A0A0A0MSA7 (1)
A0A0C4DG89 (1)
A0AVT1 (1)
A0FGR8 (1)
A0FGR8-2 (1)
A0FGR8-6 (1)
A0M8Q6 (1)
A0MZ66 (1)
A0N5G5 (1)
A0PJW6 (1)
A1KZ92 (1)

ENSEMBL ID

ENSG00000170477 (1)
ENSG00000229353 (1)

CHEBI ID

CHEBI:16737 (6)
CHEBI:49033 (5)
CHEBI:15428 (5)
CHEBI:16610 (5)
CHEBI:28790 (5)
CHEBI:15891 (5)
CHEBI:71464 (4)
CHEBI:18095 (4)
CHEBI:73074 (4)
CHEBI:22660 (4)
CHEBI:18257 (4)
CHEBI:16525 (4)
CHEBI:73705 (4)
CHEBI:16831 (4)
CHEBI:18243 (4)
CHEBI:37024 (4)
CHEBI:15727 (4)
CHEBI:16393 (4)
CHEBI:78646 (4)
CHEBI:40992 (4)
CHEBI:18211 (4)
CHEBI:16359 (4)
CHEBI:17964 (4)
CHEBI:27897 (4)
CHEBI:9410 (4)
CHEBI:17368 (4)
CHEBI:27471 (4)
CHEBI:30769 (4)
CHEBI:74470 (3)
CHEBI:86468 (3)

Metabolite Name

Taurine (5)
L-Tryptophan (5)
Biliverdin (4)
LysoPC(15:0/0:0) (4)
Kynurenine (4)
Deoxyinosine (4)
Xanthine (4)
(-)-Slaframine (3)
2-(Acetylamino)-2-deoxy-alpha-D-mannopyranose (3)
Threonylphenylalanine (3)
Nepetaside (3)
Isoleucyl-Tryptophan (3)
D-Digitoxose (3)
N-Valylphenylalanine (3)
Tsangane L 3-glucoside (3)
2'-deoxyinosine (3)
Ribonolactone (3)
PG(16:0/0:0)[U] (3)
Aspartic Acid (3)
Adenosine 5'-Monophosphate (3)
Gluconic Acid (3)
6-Hydroxyhexanoic Acid (3)
PE(16:1/0:0) (3)
Dodecylbenzenesulfonic Acid (3)
PE(18:2/0:0) (3)
2-Hydroxyfelbamate (3)
Glycolithocholate (3)
1-methylxanthine (3)
Tryptophyl-Proline (3)
Glutamylisoleucine (3)

First Public Date

2024 (10)
2025 (7)
2014 (7)
2026 (6)
2023 (6)
2017 (5)
2021 (4)
2022 (3)
2020 (3)
2019 (3)
2018 (2)
2016 (1)
2015 (1)
2013 (1)

Classification

bacteria (1)

Modification

2x(15)N labeled L-lysine (3)
4x(15)N labeled L-arginine (3)
57.021464 (2)
4-tetrahydrothiazine-3-carboxylic acid (1)
N6 (1)

Study type

Transcription profiling by array (900)
ChIP-seq (147)
RNA-seq of coding RNA (146)
RNA-seq of coding RNA from single cells (55)
RNA-seq of non coding RNA (48)
ChIP-chip by tiling array (38)
Methylation profiling by array (33)
Transcription profiling by tiling array (29)
ChIP-chip by array (25)
DNA-seq (25)
Other (24)
Comparative genomic hybridization by array (17)
Methylation profiling by high throughput sequencing (17)
Unknown experiment type (13)
MicroRNA profiling by array (8)
CUT&RUN (7)
High-throughput sequencing (6)
RNAi profiling by array (6)
Animal - Single-cell sequencing (5)
Cell line - High-throughput sequencing (4)
Human - Single-cell sequencing (3)
Human - High-throughput sequencing (3)
MicroRNA profiling by high throughput sequencing (3)
ATAC-seq (3)
Hi-C (3)
Single nucleus RNA sequencing (3)
RNA-seq of non coding RNA from single cells (2)
RNA-seq of total RNA (2)
Cell line - Single-cell sequencing (1)
MNase-seq (1)

Release Date

2010 (234)
2013 (187)
2012 (141)
2011 (126)
2009 (106)
2008 (99)
2005 (98)
2014 (96)
2007 (83)
2015 (78)
2006 (73)
2016 (58)
2022 (56)
2021 (53)
2020 (52)
2023 (51)
2004 (43)
2025 (42)
2024 (34)
2018 (34)
2019 (32)
2017 (24)
2026 (12)
2003 (6)
1998 (3)
2001 (1)

Lab affiliation

EDyP (9)
Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands (5)
Departamento de Microbiología II, Facultad de Farmacia, Universidad Complutense de Madrid, Madrid, Spain (5)
Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden. (5)
Instituto de Investigaciones Sanitarias de Santiago de Compostela (4)
Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, SE-751 23 Uppsala, Sweden. (4)
University of Alabama at Birmingham, Department of Pathology, Division MCP, O'Neal Comprehensive Cancer Center (4)
1DST/NRF Centre of Excellence in Biomedical Tuberculosis research, SA MRC Centre for Tuberculosis Research, Division of Molecular Biology and Human Genetics, Department of Biomedical Science, Faculty of Medicine and Health Science, Stellenbosch University, Tygerberg, 7505, Cape Town, South Africa (3)
Cleveland Clinic Lerner Research Institute Cardiovascular and Metabolic Sciences (3)
IBCH RAS (3)
Institute of Microbiology (3)
Keck MS & Proteomics Resource Yale School of Medicine (3)
Laboratory of Pediatrics, UMCG, The Netherlands (3)
Laboratory of Protein Mass Spectrometry, Faculty of Biotechnology, University of Wroclaw (3)
OncoProteomics Laboratory, Dept of Medical Oncology, VU University Medical Center, Amsterdam, The Netherlands (3)
State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University, Beijing 100191, China. (3)
Univ. Bordeaux, Bordeaux Proteome, Bordeaux, France. (3)
University of Science and Technology of China (3)
University of Vienna (3)
wuhan union hospital (3)
1 Department of Cardiac Surgery, Fujian Medical University Union Hospital, Fuzhou, China 2 Department of Toxicology, Fujian Center for Evaluation of New Drug, Fujian Medical University, Fuzhou, China (2)
Analytics Core Facility Essen (ACE), Chemische Biologie, Universität Duisburg-Essen, ZMB, Germany (2)
CECAD Excellence Center, University of Cologne, Germany, D-50931 Center for Physiology and Pathophysiology, Faculty of Medicine and University Hospital Cologne, University of Cologne, Germany, D-50931 (2)
CSIR-CCMB, Hyderabad, India (2)
Cancer Science Institute of Singapore, National University of Singapore (2)
Center for Neuroscience and Cell Biology (2)
College of Plant Science and Technology, Huazhong Agricultural University (2)
DST/NRF Centre of Excellence in Biomedical Tuberculosis research, SA MRC Centre for Tuberculosis Research, Division of Molecular Biology and Human Genetics, Department of Biomedical Science, Faculty of Medicine and Health Science, Stellenbosch University, Tygerberg, 7505, Cape Town, South Africa (2)
Department of Biochemistry, University of Missouri (2)
Department of Biological Sciences, University of Alberta (2)

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Tube-gel digestion: a fast and reproducible sample preparation protocol for label-free quantitative proteomics of complex biological samples

Comparison of tube-gel protocol to stacking gel and liquid digestion for label-free extracted ion-current quantification of complex biological samples Dataset with known fold-changes (UPS1 spiked in yeast background at 25-10-5-2.5-1-0.5 fmol)

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

2016-10-18 | PXD003841 | Pride

Extended investigation of tube-gel sample preparation: a versatile and simple choice for high throughput quantitative proteomics

We investigated the compatibility of tube-gel with alternatives to SDS-based buffers allowing notably the extraction of proteins in various pH conditions. We also explored the use of photopolymerization to extend the number of possibilities, as it is compatible with a wide range of pH and is non-oxy...

ORGANISM(S): Mus musculus (Mouse)

2018-06-06 | PXD008656 | Pride

Sample preparation Quantitative proteomics Tube-gel

Comparison of Three Feline Crossmatch Methods-Tube, Gel Column, and Immunochromatographic Strip.

Not available

S-EPMC12444005 | biostudies-literature

Evaluation of Optimized Tube-Gel Methods of Sample Preparation for Large-Scale Plant Proteomics.

Not available

S-EPMC5874765 | biostudies-literature

Extended investigation of tube-gel sample preparation: a versatile and simple choice for high throughput quantitative proteomics.

Not available

S-EPMC5974325 | biostudies-literature