Kohlbacher Oliver O

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Proteomics (8)
Metabolomics (3)

Organisms

Homo sapiens (3)
Bos taurus (1)
Escherichia coli (1)
Saccharomyces cerevisiae (1)
Streptococcus pyogenes ABC020006030 (1)

Repository

pride (6)
MetaboLights (3)
MassIVE (2)

Tissue

B cell (1)
Blood (1)
Blood plasma (1)
Cell culture (1)
Peripheral blood mononuclear cell (1)

Technology Type

Mass Spectrometry (6)
Chemical cross-linking coupled with mass spectrometry proteomics (4)
Mass spectrometry (3)
Shotgun proteomics (2)
Affinity purification coupled with mass spectrometry proteomics (1)

Instrument Platform

Exactive (Thermo Scientific) (2)
LTQ Orbitrap (1)
Orbitrap Fusion Lumos (1)
SYNAPT HDMS (Waters) (1)

Publication Date

2016 (3)
2020 (3)
2024 (1)
2015 (1)
2019 (1)
2017 (1)
2014 (1)

Metabolite Name

(+)-ar-Turmerone (1)
(1,2,3-trimethyl-2-cyclopropen-1-yl)benzene (1)
(1-methylbutyl)cyclopentane (1)
(1R,4S)-4,7,7-trimethylbicyclo[4.1.0]hept-2-ene (1)
(2E)-1,4-dimethoxybut-2-en-1-yl acetate (1)
(2E)-3-(3,4-dimethoxyphenyl)prop-2-enoic acid (1)
(2R)-5-hydroxy-7-methoxy-2-phenyl-3,4-dihydro-2H-1-benzopyran-4-one (1)
(3,4-Dimethoxyphenyl)acetic acid (1)
(9cis)-Retinal (1)
(E)-hept-4-en-2-one (1)
(E)-hex-2-enoate (1)
(E,E)-2,4-octadien-1-ol, acetate (1)
(E,Z)-farnesol (1)
(R)-Equol (1)
(RS)-3-methyl-4-{[(Z)-prop-1-enyl]oxy}butanal (1)
(S)-(+)-2-heptanol (1)
(S)-Equol (1)
(S)-Leucic acid (1)
(Z,E)-alpha-farnesene (1)
(trans)-3,4-oxa-2,5-dimethylhexane (1)
1, 1, 5-trimethyl-1, 2-dihydronaphthalene (1)
1,1,6-trimethyltetralin (1)
1,2-dichlorobenzene (1)
1,2-dimethyl 1,2,4-benzenetricarboxylate (1)
1,2-diphenylpropane (1)
1,2-propanediol (1)
1,3-diacetoxypropane (1)
1,3-oxathiane (1)
1,4-Dihydro-1-Methyl-4-Oxo-3-Pyridinecarboxamide (1)
1,4-diacetoxybutane (1)

Lab affiliation

1. Biomolecular Interactions, Max Planck Institute for Developmental Biology, Tübingen, Germany; 2. Applied Bioinformatics, Dept. of Computer Science, University of Tübingen, Germany; 3. Institute for Translational Bioinformatics, University Hospital Tübingen, Germany; 4. Institute for Bioinformatics and Medical Informatics, University of Tübingen, Germany; (1)
1. Biomolecular Interactions, Max Planck Institute for Developmental Biology, Tübingen, Germany; 2. Applied Bioinformatics, Dept. of Computer Science, University of Tübingen, Germany; 3. Quantitative Biology Center (QBiC), University of Tübingen, Germany; 4. Institute for Translational Bioinformatics, University Hospital Tübingen, Germany; 5. Institute for Bioinformatics and Medical Informatics, University of Tübingen, Germany (1)
Biomolecular Interactions, Max Planck Institute for Developmental Biology, Tübingen, Germany; Applied Bioinformatics, Dept. of Computer Science, University of Tübingen, Germany; Quantitative Biology Center (QBiC), University of Tübingen, Germany; Institute for Translational Bioinformatics, University Hospital Tübingen, Germany; Institute for Bioinformatics and Medical Informatics, University of Tübingen, Germany; (1)
Center for Bioinformatics, Quantitative Biology Center and Department of Computer Science, University of Tübingen, Sand 14, 72076 Tübingen, Germany Max Planck Institute for Developmental Biology, Spemannstr. 35, 72076 Tübingen, Germany (1)
Dept. of Computer Science, University of Tübingen Germany, Center for Bioinformatics, University of Tübingen, Germany, Quantitative Biology Center, University of Tübingen, Germany, Max Planck Institute for Developmental Biology, Germany, (1)
University of Tübingen (1)

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Differential Enzymatic 16O/18O Labelling for the Detection of Cross-Linked Nucleic Acid-Protein Heteroconjugates

Enzymatic differential 16O/18O labelling of nucelic acid-protein heteroconjugates. Heteroconjugates are identified against a complex background using an automated analysis workflow.

ORGANISM(S): Bos taurus (Bovine)

2017-09-11 | PXD003673 | Pride

Reanalysis of Cross-Linking Mass Spectrometry data from a ribisomal cellular fraction for benchmarking purposes

Reanalysis of a cross-linked ribosomal cellular fraction dataset, that is a subset of a fragmentation parameters optimization dataset (PRIDE project PXD006131). The HCD fragmented part of the dataset was searched with the Cross-Linking MS identification tools OpenPepXL, pLink2, Kojak and XiSearch.

ORGANISM(S): Homo sapiens (Human)

2020-10-20 | PXD014520 | Pride

Technical dataset Cross-linking Bs3

Reanalysis of a synthetic cross-linked peptide library with OpenPepXL for benchmarking purposes

Reanalysis of a synthetic crosslinked peptide library dataset. The three replicates of the XL-MS experiment with the non-cleavable cross-linker DSS from the dataset published in Beveridge et al., Nature Commun., 2020 (PRIDE project PXD014337) were searched with the XL-MS identification tool OpenPepX...

ORGANISM(S): Streptococcus pyogenes ABC020006030

2020-10-20 | PXD021417 | Pride

Technical dataset

Cross-linking mass spectrometry analysis of trimeric complex of CRM1, SNP1 and RanGTP cross-linked with BS3

An X-ray crystallography structure of the trimeric nuclear export complex of CRM1, SNP1 and RanGTP is available on the PDB database with the ID 3GJX. To get an XL-MS dataset of a clean sample of a stable protein complex for benchmarking purposes, another sample from the protein expression, purificat...

ORGANISM(S): Escherichia coli

2020-10-20 | PXD014359 | Pride

Technical dataset

Photo-cross-linking mass spectrometry for single amino acid assignment of RNA-binding sites in RNA-binding proteins

Mass spectrometry data of peptide–RNA cross-links derived from complex biological systems. Yeast (pre-)mRNPs were isolated by TAP tag purification of Cbp20; human protein–RNA complexes were assembled on an aptamer tagged pre-mRNA. Isolated complexes were UV irradiated. For each of the aforementioned...

ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast)

2014-08-07 | PXD000513 | Pride

Cross-linking Mass spectrometry Rnp Human

Automated Label-free Quantification of Metabolites from Liquid Chromatography–Mass Spectrometry Data (Plasma)

Liquid chromatography coupled to mass spectrometry (LC-MS) has become a standard technology in metabolomics. In particular, label-free quantification based on LC-MS is easily amenable to large-scale studies and thus well suited to clinical metabolomics. Large-scale studies, however, require autom...

2015-12-16 | MTBLS234 | MetaboLights

Multi-omics toxicity profiling of engineered nanomaterials

This study aims to implement methods for toxicological profiling of engineered nanomaterials using toxicogenomics, proteomics, and metabolomics along with computational analyses. For all three omics layers the human cell lines A549 (lung epithelial cells) and THP1 (monocytes) were separately expo...

2016-12-05 | MTBLS277 | MetaboLights

MHCquant: Automated and reproducible data analysis for immunopeptidomics

Personalized multi-peptide vaccines are currently being discussed intensively for tumor immunotherapy. In order to find epitopes - short, immunogenic peptides - suitable to elicit an immune response, human leukocyte antigen-presented peptides from cancer tissue samples are purified using immunoaffin...

ORGANISM(S): Homo sapiens (Human)

2019-10-14 | PXD011628 | Pride

Human Mhc Benchmark

Improving global feature detectabilities through scan range splitting for untargeted metabolomics by high-performance liquid chromatography-Orbitrap mass spectrometry

Untargeted metabolomics aims at obtaining quantitative information on the highest possible number of low-molecular biomolecules present in a biological sample. Rather small changes in mass spectrometric spectrum acquisition parameters may have a significant influence on the detectabilities of metabo...

2016-06-09 | MTBLS233 | MetaboLights

Bovine tissue and blood contamination from bullets by LC-MS/MS

We have measured the proteomes of different major bovine organs in multiple replicate. Before the actual sample preparation, organs were penetrated with metal bullets experimentally. The biological material on these projectiles was then "on-surface" digested using trypsin and analyzed using LC-MS/MS...

ORGANISM(S): Bos Taurus (ncbitaxon:9913) Homo Sapiens (ncbitaxon:9606)

2016-08-23 | MSV000080090 | MassIVE

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