Personal information

Websites & social links

Columbia University / Systems Biology

Other IDs

ResearcherID: C-1412-2017

Keywords

Systems Biology, Proteomics, Bioinformatics, Mass spectrometry

Countries

United States, Switzerland

Activities

Collapse all

Works (42)

SEC-MX: an approach to systematically study the interplay between protein assembly states and phosphorylation

Nature Communications
2025-01-30 | Journal article
DOI: 10.1038/s41467-025-56303-0
Contributors: Ella Doron-Mandel; Benjamin J. Bokor; Yanzhe Ma; Lena A. Street; Lauren C. Tang; Ahmed A. Abdou; Neel H. Shah; George Rosenberger; Marko Jovanovic
Source: check_circle
Crossref

Network-based elucidation of colon cancer drug resistance mechanisms by phosphoproteomic time-series analysis

Nature Communications
2024-05-09 | Journal article
DOI: 10.1038/s41467-024-47957-3
Contributors: George Rosenberger; Wenxue Li; Mikko Turunen; Jing He; Prem S. Subramaniam; Sergey Pampou; Aaron T. Griffin; Charles Karan; Patrick Kerwin; Diana Murray et al.
Source: check_circle
Crossref

Network-centric analysis of co-fractionated protein complex profiles using SECAT

STAR Protocols
2023-06 | Journal article
DOI: 10.1016/j.xpro.2023.102293
Contributors: Benjamin J. Bokor; Darvesh Gorhe; Marko Jovanovic; George Rosenberger
Source: check_circle
Crossref

Network-based elucidation of colon cancer drug resistance by phosphoproteomic time-series analysis

2023-02-16 | Preprint
DOI: 10.1101/2023.02.15.528736
Contributors: George Rosenberger; Wenxue Li; Mikko Turunen; Jing He; Prem S Subramaniam; Sergey Pampou; Aaron T Griffin; Charles Karan; Patrick Kerwin; Diana Murray et al.
Source: check_circle
Crossref

A Multiplexed SEC-MS Approach to Systematically Study the Interplay Between Protein Assembly-States and Phosphorylation Events

2023-01-12 | Preprint
DOI: 10.1101/2023.01.12.523793
Contributors: Ella Doron-Mandel; Benjamin J. Bokor; Yanzhe Ma; Lena A. Street; Lauren C. Tang; Ahmed A. Abdou; Neel H. Shah; George A. Rosenberger; Marko Jovanovic
Source: check_circle
Crossref

Deep Phosphoproteomic Elucidation of Metformin-Signaling in Heterogenous Colorectal Cancer Cells

2022-07-08 | Preprint
DOI: 10.1101/2022.07.07.499038
Contributors: Barbora Salovska; Erli Gao; Sophia Müller-Dott; Wenxue Li; Aurelien Dugourd; George Rosenberger; Julio Saez-Rodriguez; Yansheng Liu
Source: check_circle
Crossref

dia-PASEF data analysis using FragPipe and DIA-NN for deep proteomics of low sample amounts

Nature Communications
2022-07-08 | Journal article
DOI: 10.1038/s41467-022-31492-0
Contributors: Vadim Demichev; Lukasz Szyrwiel; Fengchao Yu; Guo Ci Teo; George Rosenberger; Agathe Niewienda; Daniela Ludwig; Jens Decker; Stephanie Kaspar-Schoenefeld; Kathryn S. Lilley et al.
Source: check_circle
Crossref

Systematic detection of functional proteoform groups from bottom-up proteomic datasets

Nature Communications
2021-06-21 | Journal article
DOI: 10.1038/s41467-021-24030-x
Contributors: Isabell Bludau; Max Frank; Christian Dörig; Yujia Cai; Moritz Heusel; George Rosenberger; Paola Picotti; Ben C. Collins; Hannes Röst; Ruedi Aebersold
Source: check_circle
Crossref

High sensitivity dia-PASEF proteomics with DIA-NN and FragPipe

2021-03-09 | Preprint
DOI: 10.1101/2021.03.08.434385
Contributors: Vadim Demichev; Fengchao Yu; Guo Ci Teo; Lukasz Szyrwiel; George A. Rosenberger; Jens Decker; Stephanie Kaspar-Schoenefeld; Kathryn S. Lilley; Michael Mülleder; Alexey I. Nesvizhskii et al.
Source: check_circle
Crossref

Systematic detection of functional proteoform groups from bottom-up proteomic datasets

2020-12-22 | Preprint
DOI: 10.1101/2020.12.22.423928
Contributors: Isabell Bludau; Max Frank; Christian Dörig; Yujia Cai; Moritz Heusel; George Rosenberger; Paola Picotti; Ben C. Collins; Hannes Röst; Ruedi Aebersold
Source: check_circle
Crossref

Kinase Interaction Network Expands Functional and Disease Roles of Human Kinases

Molecular Cell
2020-08 | Journal article
DOI: 10.1016/j.molcel.2020.07.001
Contributors: Marija Buljan; Rodolfo Ciuffa; Audrey van Drogen; Anton Vichalkovski; Martin Mehnert; George Rosenberger; Sohyon Lee; Markku Varjosalo; Lucia Espona Pernas; Vincent Spegg et al.
Source: check_circle
Crossref

Complex-centric proteome profiling by SEC-SWATH-MS for the parallel detection of hundreds of protein complexes

Nature Protocols
2020-08-20 | Journal article
DOI: 10.1038/s41596-020-0332-6
Contributors: Isabell Bludau; Moritz Heusel; Max Frank; George Rosenberger; Robin Hafen; Amir Banaei-Esfahani; Audrey van Drogen; Ben C. Collins; Matthias Gstaiger; Ruedi Aebersold
Source: check_circle
Crossref

Isoform‐resolved correlation analysis between mRNA abundance regulation and protein level degradation

Molecular Systems Biology
2020-03 | Journal article
DOI: 10.15252/msb.20199170
Contributors: Barbora Salovska; Hongwen Zhu; Tejas Gandhi; Max Frank; Wenxue Li; George Rosenberger; Chongde Wu; Pierre‐Luc Germain; Hu Zhou; Zdenek Hodny et al.
Source: check_circle
Crossref

Global impact of phosphorylation on protein endurance

2020-03-13 | Preprint
DOI: 10.1101/2020.03.12.989467
Contributors: Chongde Wu; Qian Ba; Wenxue Li; Barbora Salovska; Pingfu Hou; Torsten Mueller; George Rosenberger; Erli Gao; Yi Di; Yansheng Liu
Source: check_circle
Crossref

A Global Screen for Assembly State Changes of the Mitotic Proteome by SEC-SWATH-MS.

Cell systems
2020-02-03 | Journal article
DOI: 10.1016/j.cels.2020.01.001
PMID: 32027860
Source: Self-asserted source
George Rosenberger

SECAT: Quantifying differential protein-protein interaction states by network-centric analysis

2019-10-25 | Other
DOI: 10.1101/819755
Contributors: George Rosenberger; Moritz Heusel; Isabell Bludau; Ben Collins; Claudia Martelli; Evan Williams; Peng Xue; Yansheng Liu; Ruedi Aebersold; Andrea Califano
Source: check_circle
Crossref

Assessing the Relationship Between Mass Window Width and Retention Time Scheduling on Protein Coverage for Data-Independent Acquisition.

Journal of the American Society for Mass Spectrometry
2019-05-30 | Journal article
DOI: 10.1007/s13361-019-02243-1
PMID: 31147889
Source: Self-asserted source
George Rosenberger

Complex‐centric proteome profiling by SEC ‐ SWATH ‐ MS

Molecular Systems Biology
2019-01 | Journal article
DOI: 10.15252/msb.20188438
Contributors: Moritz Heusel; Isabell Bludau; George Rosenberger; Robin Hafen; Max Frank; Amir Banaei‐Esfahani; Audrey van Drogen; Ben C Collins; Matthias Gstaiger; Ruedi Aebersold
Source: check_circle
Crossref

Data‐independent acquisition‐based SWATH ‐ MS for quantitative proteomics: a tutorial

Molecular Systems Biology
2018-08 | Journal article
DOI: 10.15252/msb.20178126
Contributors: Christina Ludwig; Ludovic Gillet; George Rosenberger; Sabine Amon; Ben C Collins; Ruedi Aebersold
Source: check_circle
Crossref

Statistical control of peptide and protein error rates in large-scale targeted data-independent acquisition analyses

Nature Methods
2017-09-21 | Journal article
DOI: 10.1038/nmeth.4398
Contributors: George Rosenberger; Isabell Bludau; Uwe Schmitt; Moritz Heusel; Christie L Hunter; Yansheng Liu; Michael J MacCoss; Brendan X MacLean; Alexey I Nesvizhskii; Patrick G A Pedrioli et al.
Source: check_circle
Crossref

Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS

Nature Biotechnology
2017-08 | Journal article
DOI: 10.1038/nbt.3908
Contributors: George Rosenberger; Yansheng Liu; Hannes L Röst; Christina Ludwig; Alfonso Buil; Ariel Bensimon; Martin Soste; Tim D Spector; Emmanouil T Dermitzakis; Ben C Collins et al.
Source: check_circle
Crossref

Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry

Nature Communications
2017-08-21 | Journal article
DOI: 10.1038/s41467-017-00249-5
Contributors: Ben C. Collins; Christie L. Hunter; Yansheng Liu; Birgit Schilling; George Rosenberger; Samuel L. Bader; Daniel W. Chan; Bradford W. Gibson; Anne-Claude Gingras; Jason M. Held et al.
Source: check_circle
Crossref

Quantitative proteomics: challenges and opportunities in basic and applied research.

Nature protocols
2017-07 | Journal article
DOI: 10.1038/nprot.2017.040
PMID: 28569762
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

A multicenter study benchmarks software tools for label-free proteome quantification.

2016-11 | Journal article
DOI: 10.1038/nbt.3685
PMID: 27701404
Contributors: Navarro P; Kuharev J; Gillet LC; Bernhardt OM; MacLean B; Röst HL; Tate SA; Tsou CC; Reiter L; Distler U et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics.

2016-09 | Journal article
DOI: 10.1038/nmeth.3954
PMID: 27479329
Contributors: Röst HL; Liu Y; D'Agostino G; Zanella M; Navarro P; Rosenberger G; Collins BC; Gillet L; Testa G; Malmström L et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central
grade
Preferred source (of 2)‎

OpenMS: a flexible open-source software platform for mass spectrometry data analysis.

2016-08 | Journal article
DOI: 10.1038/nmeth.3959
PMID: 27575624
Contributors: Röst HL; Sachsenberg T; Aiche S; Bielow C; Weisser H; Aicheler F; Andreotti S; Ehrlich HC; Gutenbrunner P; Kenar E et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

xTract: software for characterizing conformational changes of protein complexes by quantitative cross-linking mass spectrometry.

2015-12 | Journal article
DOI: 10.1038/nmeth.3631
PMID: 26501516
Contributors: Walzthoeni T; Joachimiak LA; Rosenberger G; Röst HL; Malmström L; Leitner A; Frydman J; Aebersold R
Source: Self-asserted source
George Rosenberger via Europe PubMed Central
grade
Preferred source (of 2)‎

Identification of a Set of Conserved Eukaryotic Internal Retention Time Standards for Data-independent Acquisition Mass Spectrometry.

2015-10 | Journal article
DOI: 10.1074/mcp.O114.042267
PMID: 26199342
Contributors: Parker SJ; Rost H; Rosenberger G; Collins BC; Malmström L; Amodei D; Venkatraman V; Raedschelders K; Van Eyk JE; Aebersold R
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

Absolute Proteome Composition and Dynamics during Dormancy and Resuscitation of Mycobacterium tuberculosis.

2015-07 | Journal article
DOI: 10.1016/j.chom.2015.06.001
PMID: 26094805
Contributors: Schubert OT; Ludwig C; Kogadeeva M; Zimmermann M; Rosenberger G; Gengenbacher M; Gillet LC; Collins BC; Röst HL; Kaufmann SH et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

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

2015-03 | Journal article
DOI: 10.1038/nprot.2015.015
PMID: 25675208
Contributors: Schubert OT; Gillet LC; Collins BC; Navarro P; Rosenberger G; Wolski WE; Lam H; Amodei D; Mallick P; MacLean B et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

Efficient visualization of high-throughput targeted proteomics experiments: TAPIR.

2015-03 | Journal article
PMID: 25788625
Contributors: Röst H; Rosenberger G; Aebersold R; Malmström L
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps.

2015-03 | Journal article
DOI: 10.1038/nm.3807
PMID: 25730263
Contributors: Guo T; Kouvonen P; Koh CC; Gillet LC; Wolski WE; Röst HL; Rosenberger G; Collins BC; Blum LC; Gillessen S et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

DIANA-algorithmic improvements for analysis of data-independent acquisition MS data.

2015-02 | Journal article
DOI: 10.1093/bioinformatics/btu686
PMID: 25348213
Contributors: Teleman J; Röst HL; Rosenberger G; Schmitt U; Malmström L; Malmström J; Levander F
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

A repository of assays to quantify 10,000 human proteins by SWATH-MS

Sci. Data
2014-09 | Journal article
DOI: 10.1038/sdata.2014.31
Contributors: George Rosenberger; Ching Chiek Koh; Tiannan Guo; Hannes L. Röst; Petri Kouvonen; Ben C. Collins; Moritz Heusel; Yansheng Liu; Etienne Caron; Anton Vichalkovski et al.
Source: Self-asserted source
George Rosenberger via Crossref Metadata Search

aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data.

2014-09 | Journal article
DOI: 10.1093/bioinformatics/btu200
PMID: 24753486
PMC: PMC4147881
Contributors: Rosenberger G; Ludwig C; Röst HL; Aebersold R; Malmström L
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

Functional and structural properties of a novel protein and virulence factor (Protein sHIP) in Streptococcus pyogenes.

2014-06 | Journal article
DOI: 10.1074/jbc.M114.565978
PMID: 24825900
Contributors: Wisniewska M; Happonen L; Kahn F; Varjosalo M; Malmström L; Rosenberger G; Karlsson C; Cazzamali G; Pozdnyakova I; Frick IM et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data.

2014-03 | Journal article
DOI: 10.1038/nbt.2841
PMID: 24727770
Contributors: Röst HL; Rosenberger G; Navarro P; Gillet L; Miladinović SM; Schubert OT; Wolski W; Collins BC; Malmström J; Malmström L et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central
grade
Preferred source (of 2)‎

Cross-link guided molecular modeling with ROSETTA.

2013 | Journal article
DOI: 10.1371/journal.pone.0073411
PMID: 24069194
PMC: PMC3775805
Contributors: Kahraman A; Herzog F; Leitner A; Rosenberger G; Aebersold R; Malmström L
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

Quantifying protein interaction dynamics by SWATH mass spectrometry: application to the 14-3-3 system.

2013-12 | Journal article
DOI: 10.1038/nmeth.2703
PMID: 24162925
Contributors: Collins BC; Gillet LC; Rosenberger G; Röst HL; Vichalkovski A; Gstaiger M; Aebersold R
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

The Mtb proteome library: a resource of assays to quantify the complete proteome of Mycobacterium tuberculosis.

2013-05 | Journal article
DOI: 10.1016/j.chom.2013.04.008
PMID: 23684311
PMC: PMC3766585
Contributors: Schubert OT; Mouritsen J; Ludwig C; Röst HL; Rosenberger G; Arthur PK; Claassen M; Campbell DS; Sun Z; Farrah T et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

N-glycoprotein SRMAtlas: a resource of mass spectrometric assays for N-glycosites enabling consistent and multiplexed protein quantification for clinical applications.

2013-04 | Journal article
DOI: 10.1074/mcp.O112.026617
PMID: 23408683
PMC: PMC3617325
Contributors: Hüttenhain R; Surinova S; Ossola R; Sun Z; Campbell D; Cerciello F; Schiess R; Bausch-Fluck D; Rosenberger G; Chen J et al.
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

Automated workflow for large-scale selected reaction monitoring experiments.

2012-03 | Journal article
DOI: 10.1021/pr200844d
PMID: 22283722
Contributors: Malmström L; Malmström J; Selevsek N; Rosenberger G; Aebersold R
Source: Self-asserted source
George Rosenberger via Europe PubMed Central

Peer review (8 reviews for 3 publications/grants)

Review activity for Molecular systems biology. (1)
Review activity for Nature communications (6)
Review activity for Scientific data. (1)
How many people are using ORCID?