Related references
Note: Only part of the references are listed.KEGG as a reference resource for gene and protein annotation
Minoru Kanehisa et al.
NUCLEIC ACIDS RESEARCH (2016)
Ensembl 2016
Andrew Yates et al.
NUCLEIC ACIDS RESEARCH (2016)
The Proteome of Primary Prostate Cancer
Diego Iglesias-Gato et al.
EUROPEAN UROLOGY (2016)
Proteomic maps of breast cancer subtypes
Stefka Tyanova et al.
NATURE COMMUNICATIONS (2016)
A Human Interactome in Three Quantitative Dimensions Organized by Stoichiometries and Abundances
Marco Y. Hein et al.
CELL (2015)
The BioPlex Network: A Systematic Exploration of the Human Interactome
Edward L. Huttlin et al.
CELL (2015)
A Double-Barrel Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) System to Quantify 96 Interactomes per Day
Fabian Hosp et al.
MOLECULAR & CELLULAR PROTEOMICS (2015)
Pathway and network analysis of cancer genomes
Pau Creixell et al.
NATURE METHODS (2015)
Orchestrating high-throughput genomic analysis with Bioconductor
Wolfgang Huber et al.
NATURE METHODS (2015)
Visualization of LC-MS/MS proteomics data in MaxQuant
Stefka Tyanova et al.
PROTEOMICS (2015)
Trans-Proteomic Pipeline, a standardized data processing pipeline for large-scale reproducible proteomics informatics
Eric W. Deutsch et al.
PROTEOMICS CLINICAL APPLICATIONS (2015)
Proteomics reveals dynamic assembly of repair complexes during bypass of DNA cross-links
Markus Raeschle et al.
SCIENCE (2015)
Uncovering Hidden Layers of Cell Cycle Regulation through Integrative Multi-omic Analysis
Ranen Aviner et al.
PLOS GENETICS (2015)
Accurate Protein Complex Retrieval by Affinity Enrichment Mass Spectrometry (AE-MS) Rather than Affinity Purification Mass Spectrometry (AP-MS)
Eva C. Keilhauer et al.
MOLECULAR & CELLULAR PROTEOMICS (2015)
PhosphoSitePlus, 2014: mutations, PTMs and recalibrations
Peter V. Hornbeck et al.
NUCLEIC ACIDS RESEARCH (2015)
Gene Ontology Consortium: going forward
J. A. Blake et al.
NUCLEIC ACIDS RESEARCH (2015)
UniProt: a hub for protein information
Alex Bateman et al.
NUCLEIC ACIDS RESEARCH (2015)
The One Hour Yeast Proteome
Alexander S. Hebert et al.
MOLECULAR & CELLULAR PROTEOMICS (2014)
A Proteomic Ruler for Protein Copy Number and Concentration Estimation without Spike-in Standards
Jacek R. Wisniewski et al.
MOLECULAR & CELLULAR PROTEOMICS (2014)
Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ
Juergen Cox et al.
MOLECULAR & CELLULAR PROTEOMICS (2014)
Periodic mRNA synthesis and degradation co-operate during cell cycle gene expression
Philipp Eser et al.
MOLECULAR SYSTEMS BIOLOGY (2014)
ProteomeXchange provides globally coordinated proteomics data submission and dissemination
Juan A. Vizcaino et al.
NATURE BIOTECHNOLOGY (2014)
The Reactome pathway knowledgebase
David Croft et al.
NUCLEIC ACIDS RESEARCH (2014)
Molecular architecture of the mammalian circadian clock
Carrie L. Partch et al.
TRENDS IN CELL BIOLOGY (2014)
Ultradeep Human Phosphoproteome Reveals a Distinct Regulatory Nature of Tyr and Ser/Thr-Based Signaling
Kirti Sharma et al.
CELL REPORTS (2014)
In-Vivo Quantitative Proteomics Reveals a Key Contribution of Post-Transcriptional Mechanisms to the Circadian Regulation of Liver Metabolism
Maria S. Robles et al.
PLOS GENETICS (2014)
STAR: ultrafast universal RNA-seq aligner
Alexander Dobin et al.
BIOINFORMATICS (2013)
The Coming Age of Complete, Accurate, and Ubiquitous Proteomes
Matthias Mann et al.
MOLECULAR CELL (2013)
Next-generation proteomics: towards an integrative view of proteome dynamics
A. F. Maarten Altelaar et al.
NATURE REVIEWS GENETICS (2013)
The Proteomics Identifications (PRIDE) database and associated tools: status in 2013
Juan Antonio Vizcaino et al.
NUCLEIC ACIDS RESEARCH (2013)
Phosphorylation Variation during the Cell Cycle Scales with Structural Propensities of Proteins
Stefka Tyanova et al.
PLOS COMPUTATIONAL BIOLOGY (2013)
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
Daehwan Kim et al.
GENOME BIOLOGY (2013)
1D and 2D annotation enrichment: a statistical method integrating quantitative proteomics with complementary high-throughput data
Juergen Cox et al.
BMC BIOINFORMATICS (2012)
Differential network biology
Trey Ideker et al.
MOLECULAR SYSTEMS BIOLOGY (2012)
Global analysis of genome, transcriptome and proteome reveals the response to aneuploidy in human cells
Silvia Stingele et al.
MOLECULAR SYSTEMS BIOLOGY (2012)
Computational modeling of cellular signaling processes embedded into dynamic spatial contexts
Bastian R. Angermann et al.
NATURE METHODS (2012)
Quantitative, High-Resolution Proteomics for Data-Driven Systems Biology
Juergen Cox et al.
ANNUAL REVIEW OF BIOCHEMISTRY, VOL 80 (2011)
Missing value imputation for gene expression data: computational techniques to recover missing data from available information
Alan Wee-Chung Liew et al.
BRIEFINGS IN BIOINFORMATICS (2011)
Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment
Juergen Cox et al.
JOURNAL OF PROTEOME RESEARCH (2011)
The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells
Javier Munoz et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Deep proteome and transcriptome mapping of a human cancer cell line
Nagarjuna Nagaraj et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
The quantitative proteome of a human cell line
Martin Beck et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Global quantification of mammalian gene expression control
Bjoern Schwanhaeusser et al.
NATURE (2011)
LIBSVM: A Library for Support Vector Machines
Chih-Chung Chang et al.
ACM TRANSACTIONS ON INTELLIGENT SYSTEMS AND TECHNOLOGY (2011)
Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions
Nina C. Hubner et al.
JOURNAL OF CELL BIOLOGY (2010)
Super-SILAC mix for quantitative proteomics of human tumor tissue
Tamar Geiger et al.
NATURE METHODS (2010)
Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis
Jesper V. Olsen et al.
SCIENCE SIGNALING (2010)
RNA-Seq: a revolutionary tool for transcriptomics
Zhong Wang et al.
NATURE REVIEWS GENETICS (2009)
Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling
Nicholas T. Ingolia et al.
SCIENCE (2009)
Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast
Lyris M. F. de Godoy et al.
NATURE (2008)
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
Juergen Cox et al.
NATURE BIOTECHNOLOGY (2008)
Mapping and quantifying mammalian transcriptomes by RNA-Seq
Ali Mortazavi et al.
NATURE METHODS (2008)
Cyclebase.org - a comprehensive multi-organism online database of cell-cycle experiments
Nicholas Paul Gauthier et al.
NUCLEIC ACIDS RESEARCH (2008)
Analysis and validation of proteomic data generated by tandem mass spectrometry
Alexey I. Nesvizhskii et al.
NATURE METHODS (2007)
Lookup peaks: A hybrid of de novo sequencing and database search for protein identification by tandem mass spectrometry
Marshall Bern et al.
ANALYTICAL CHEMISTRY (2007)
COPASI- A COmplex PAthway SImulator
Stefan Hoops et al.
BIOINFORMATICS (2006)
Protein interaction screening by quantitative immunoprecipitation combined with knockdown (QUICK)
Matthias Selbach et al.
NATURE METHODS (2006)
A probability-based approach for high-throughput protein phosphorylation analysis and site localization
Sean A. Beausoleil et al.
NATURE BIOTECHNOLOGY (2006)
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
A Subramanian et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)
A general framework for weighted gene co-expression network analysis
Bin Zhang et al.
STATISTICAL APPLICATIONS IN GENETICS AND MOLECULAR BIOLOGY (2005)
Open mass spectrometry search algorithm
LY Geer et al.
JOURNAL OF PROTEOME RESEARCH (2004)
TANDEM: matching proteins with tandem mass spectra
R Craig et al.
BIOINFORMATICS (2004)
Open source system for analyzing, validating, and storing protein identification data
R Craig et al.
JOURNAL OF PROTEOME RESEARCH (2004)
Cytoscape: A software environment for integrated models of biomolecular interaction networks
P Shannon et al.
GENOME RESEARCH (2003)
Missing value estimation methods for DNA microarrays
O Troyanskaya et al.
BIOINFORMATICS (2001)
Significance analysis of microarrays applied to the ionizing radiation response
VG Tusher et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2001)
Singular value decomposition for genome-wide expression data processing and modeling
O Alter et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2000)
Share Paper
