A5034035915- Advanced Proteomics Techniques and Applications
- Bioinformatics and Genomic Networks
- Mass Spectrometry Techniques and Applications
- Microbial Metabolic Engineering and Bioproduction
- Computational Drug Discovery Methods
- Metabolomics and Mass Spectrometry Studies
- Machine Learning in Bioinformatics
- Circadian rhythm and melatonin
- Chemical Reactions and Isotopes
- Molecular Biology Techniques and Applications
- Cardiovascular Function and Risk Factors
- Natural Language Processing Techniques
- Gene expression and cancer classification
- Sleep and Wakefulness Research
- Biocrusts and Microbial Ecology
- Advanced Biosensing Techniques and Applications
- Cardiac Imaging and Diagnostics
- Adipose Tissue and Metabolism
- Mathematics, Computing, and Information Processing
- Protist diversity and phylogeny
- Scientific Computing and Data Management
- Identification and Quantification in Food
- Genetics, Bioinformatics, and Biomedical Research
- Gene Regulatory Network Analysis
- Topic Modeling
Robert Bosch (Germany)
2020-2021
Max Planck Society
2020
Max Planck Institute of Biochemistry
1996-2020
Technical University of Munich
2018
Tel Aviv University
2015-2016
University of Tübingen
2015
Sleep-wake cycles at mouse synapses Analysis of the transcriptome, proteome, and phosphoproteome in brain during daily sleep-wake reveals large dynamic changes (see Perspective by Cirelli Tononi). Noya et al. found that almost 70% transcripts showed abundance circadian cycles. Transcripts proteins associated with synaptic signaling accumulated before active phase (dusk for these nocturnal animals), whereas messenger RNAs protein metabolism translation resting phase. Brüning half 2000...
Abstract MaxDIA is a software platform for analyzing data-independent acquisition (DIA) proteomics data within the MaxQuant environment. Using spectral libraries, achieves deep proteome coverage with substantially better coefficients of variation in protein quantification than other software. equipped accurate false discovery rate (FDR) estimates on both library-to-DIA match and levels, including when using whole-proteome predicted libraries. This foundation DIA—hypothesis-free analysis DIA...
Computational proteomics is the data science concerned with identification and quantification of proteins from high-throughput biological interpretation their concentration changes, posttranslational modifications, interactions, subcellular localizations. Today, these most often originate mass spectrometry–based shotgun experiments. In this review, we survey computational methods for analysis such data, focusing on explanation key concepts. Starting spectrometric feature detection, then...
Proteomics data analysis strongly benefits from not studying single proteins in isolation but taking their multivariate interdependence into account. We introduce PerseusNet, the new Perseus network module for biological of proteomics data. is commonly used to generate networks, e.g., with affinity purification experiments, networks are also explore PerseusNet supports biomedical researcher both modes a multitude activities. For purification, volcano-plot-based statistical method generation...
Abstract Summary: JSBML, the official pure Java programming library for Systems Biology Markup Language (SBML) format, has evolved with advent of different modeling formalisms in systems biology and their ability to be exchanged represented via extensions SBML. JSBML matured into a major, active open-source project contributions from growing, international team developers who not only maintain compatibility SBML, but also drive steady improvements interface promote ease-of-use end users....
Blood flow through the cavities of heart and great vessels is pulsatile subject to time multidirectional variations. To date, recording blood in multiple directions phases has been limited. 4D-flow MRI offers advantages for recording, visualization analysis flow. The status quo method was summarized with PubMed database using keywords "4D-flow MRI, phase-contrast magnetic resonance imaging, MR imaging/visualization, quantification, 3 D cine (time-resolved) CMR, three-directional...
Abstract The Perseus software provides a comprehensive framework for the statistical analysis of large‐scale quantitative proteomics data, also in combination with other omics dimensions. Rapid developments technology and ever‐growing diversity biological studies increasingly require flexibility to incorporate computational methods designed by user. Here, we present new functionality integrate self‐made plugins written C#, R, or Python. user‐written codes will be fully integrated into data...
A DNA probe to the signaling domain of a halobacterial transducer for phototaxis (HtrI) was used clone and sequence four members new family proteins (Htps) in Halobacterium salinarium potentially involved chemo- or phototactic signal transduction. The domains these have 31–43% identity when compared with each other their bacterial analogs, methyl-accepting chemotaxis proteins. An additional region homology found three Htps has Htrl. contain from 0 3 transmembrane helices Western blotting...
ABSTRACT Proteomics data analysis strongly benefits from not studying single proteins in isolation but taking their multivariate interdependence into account. We introduce PerseusNet, the new Perseus network module for biological of proteomics data. is commonly used to generate networks, e.g. with affinity purification experiments, networks are also explore PerseusNet supports biomedical researcher both modes a multitude activities. For purification, volcano plot-based statistical method...