Peter K. Sorger

发表

Collecting and organizing systematic sets of protein data

John G. Albeck, Gavin MacBeath, Forest M. White, 2006, Nature Reviews Molecular Cell Biology.

Fuzzy Logic Analysis of Kinase Pathway Crosstalk in TNF/EGF/Insulin-Induced Signaling

Julio Saez-Rodriguez, Peter K. Sorger, Douglas A. Lauffenburger, 2007, PLoS Comput. Biol..

Modeling pro-death signaling pathways in cancer hepatocytes using multi-combinatorial treatments of inhibitors and stimuli

Peter K. Sorger, Douglas A. Lauffenburger, Leonidas G. Alexopoulos, 2008, 2008 8th IEEE International Conference on BioInformatics and BioEngineering.

Cheminformatics tools for analyzing and designing optimized small molecule libraries

Mario Medvedovic, Eugen Lounkine, Marc Hafner, 2018, bioRxiv.

Assembling a corpus of phosphoproteomic annotations using ProtMapper to normalize site information from databases and text mining

Benjamin M. Gyori, Peter K. Sorger, John A. Bachman, 2019, bioRxiv.

Training Signaling Pathway Maps to Biochemical Data with Constrained Fuzzy Logic: Quantitative Analysis of Liver Cell Responses to Inflammatory Stimuli

Julio Saez-Rodriguez, Peter K. Sorger, Douglas A. Lauffenburger, 2011, PLoS Comput. Biol..

Inferring reaction network structure from single-cell, multiplex data, using toric systems theory

Eduardo D. Sontag, Peter K. Sorger, Shu Wang, 2019, bioRxiv.

LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures

Andrew D. Rouillard, Avi Ma'ayan, Marc Hafner, 2014, Nucleic Acids Res..

Maintaining the provenance of microscopy metadata using OMERO.forms software

Douglas Russell, Peter K. Sorger, P. Sorger, 2017, bioRxiv.

GeneWalk identifies relevant gene functions for a biological context using network representation learning

Benjamin M. Gyori, Peter K. Sorger, John A. Bachman, 2019, Genome Biology.

Crowdsourcing Network Inference: The DREAM Predictive Signaling Network Challenge

Julio Saez-Rodriguez, Peter K. Sorger, Gustavo Stolovitzky, 2011, Science Signaling.

Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE)

David Haussler, Peter K. Sorger, Evan O. Paull, 2013, Bioinform..

Cue-Signal-Response Analysis of TNF-Induced Apoptosis by Partial Least Squares Regression of Dynamic Multivariate Data

John G. Albeck, Peter K. Sorger, Douglas A. Lauffenburger, 2004, J. Comput. Biol..

Modeling Extrinsic Apoptosis Regulatory Network Pathways Using A Rules-based Framework

Peter K. Sorger, Carlos F. Lopez, Emiko Fire, 2009 .

Systematic calibration of a cell signaling network model

John G. Albeck, Peter K. Sorger, Sabrina L. Spencer, 2010, BMC Bioinformatics.

Abstract 5037: New concepts for quantifying the benefits of mono and combination therapy in an era of big data

Marc Hafner, Peter K. Sorger, Mario Niepel, 2017 .

A reductionist’s systems biology

Peter K. Sorger, P. Sorger, 2005 .

Channel Embedding for Informative Protein Identification from Highly Multiplexed Images

James Tompkin, Hanspeter Pfister, Peter K. Sorger, 2020, MICCAI.

Phenotypic clustering of yeast mutants based on kinetochore microtubule dynamics

Gaudenz Danuser, Peter K. Sorger, E. Marco, 2007, Bioinform..

The Logic of EGFR/ErbB Signaling: Theoretical Properties and Analysis of High-Throughput Data

Steffen Klamt, Julio Saez-Rodriguez, Peter K. Sorger, 2009, PLoS Comput. Biol..

BIOPHYSICAL PREDICTION OF PROTEIN-PEPTIDE INTERACTIONS AND SIGNALING NETWORKS USING MACHINE LEARNING

Peter K. Sorger, Mohammed AlQuraishi, Joseph M. Cunningham, 2019, Nature Methods.

Qualifying antibodies for image-based immune profiling and multiplexed tissue imaging

Jon C. Aster, Peter K. Sorger, Shu Wang, 2019, Nature Protocols.

Informatics and Quantitative Analysis in Biological Imaging

Erik Brauner, Peter K. Sorger, Jason R. Swedlow, 2003, Science.

FamPlex: a resource for entity recognition and relationship resolution of human protein families and complexes in biomedical text mining

Benjamin M. Gyori, Peter K. Sorger, John A. Bachman, 2018, bioRxiv.

Exploring the Contextual Sensitivity of Factors that Determine Cell-to-Cell Variability in Receptor-Mediated Apoptosis

Peter K. Sorger, Sabrina L. Spencer, William W. Chen, 2012, PLoS Comput. Biol..

Using Optimal Transformations and Multi-Experiment Fitting to Detect and Reduce Effects of Non-Identifiable Parameters in Non-Linear Dynamical Models

Jens Timmer, Clemens Kreutz, Peter K. Sorger, 2009 .

Highly multiplexed immunofluorescence images and single-cell data of immune markers in tonsil and lung cancer

Peter K. Sorger, Sandro Santagata, Ziming Du, 2019, Scientific Data.

Flexible informatics for linking experimental data to mathematical models via DataRail

Julio Saez-Rodriguez, Peter K. Sorger, Douglas A. Lauffenburger, 2008, Bioinform..

Decision-Tree Based Model Analysis for Efficient Identification of Parameter Relations Leading to Different Signaling States

Roland Eils, Peter K. Sorger, Yvonne Koch, 2013, PloS one.

Abstract 489: Multi-parameter tissue section imaging and retrieval of image-defined micro-regions for RNA sequencing using the RareCyte® platform

Peter K. Sorger, Jia-Ren Lin, Yu-An Chen, 2019 .

Channel Embedding for Informative Protein Identification from Highly Multiplexed Images

Hanspeter Pfister, James Tompkin, Peter K. Sorger, 2020 .

Creating and analyzing pathway and protein interaction compendia for modelling signal transduction networks

Julio Saez-Rodriguez, Peter K. Sorger, Douglas A. Lauffenburger, 2012, BMC Systems Biology.

Minerva: a light-weight, narrative image browser for multiplexed tissue images

Hanspeter Pfister, Peter K. Sorger, Yu-An Chen, 2020, J. Open Source Softw..

A Programmatic Modeling Approach to Explore Alternative Hypothesis of Mitochondrial Regulation in Extrinsic Apoptosis Signaling

Peter K. Sorger, Carlos F. Lopez, John A. Bachman, 2013 .

Logic-Based Models for the Analysis of Cell Signaling Networks†

Peter K. Sorger, Douglas A. Lauffenburger, Melody K. Morris, 2010, Biochemistry.

Open Access METHODOLOGY ARTICLE

John G. Albeck, Peter K. Sorger, John M. Burke, 2010 .

MITI minimum information guidelines for highly multiplexed tissue images

Garry Nolan, Joshua F. McMichael, David L. Gibbs, 2021, Nature Methods.

A Crisis-Responsive Framework for Medical Device Development Applied to the COVID-19 Pandemic

Peter K. Sorger, Jacob Freake, Shriya Srinivasan, 2021, Frontiers in Digital Health.

The Dark Kinase Knowledgebase: an online compendium of knowledge and experimental results of understudied kinases

Peter K. Sorger, Nienke Moret, Dennis Goldfarb, 2020, Nucleic Acids Res..

A multiscale statistical mechanical framework integrates biophysical and genomic data to assemble cancer networks

Gavin MacBeath, Peter K. Sorger, Mohammed AlQuraishi, 2014, Nature Genetics.

Yeast heat shock factor contains separable transient and sustained response transcriptional activators

Peter K. Sorger, P. Sorger, 1990, Cell.

Multiplexed Exchange-PAINT imaging reveals ligand-dependent EGFR and Met interactions in the plasma membrane

Gaudenz Danuser, Peter K. Sorger, Peng Yin, 2017, Scientific Reports.

Cells surviving fractional killing by TRAIL exhibit transient but sustainable resistance and inflammatory phenotypes

Peter K. Sorger, Sabrina L. Spencer, Deborah A. Flusberg, 2013, Molecular biology of the cell.

Receptor-Based Mechanism of Cell Memory and Relative Sensing in Mammalian Signaling Networks

Peter K. Sorger, Eugenia Lyashenko, Purushottam D. Dixit, 2017, bioRxiv.

Highly multiplexed imaging of single cells using a high-throughput cyclic immunofluorescence method

Peter K. Sorger, Mohammad Fallahi-Sichani, Jia-Ren Lin, 2015, Nature Communications.

A simple open-source method for highly multiplexed imaging of single cells in tissues and tumours

Peter K. Sorger, Jia-Ren Lin, Benjamin Izar, 2017, bioRxiv.

Intra- and Interdimeric Caspase-8 Self-Cleavage Controls Strength and Timing of CD95-Induced Apoptosis

Roland Eils, Peter K. Sorger, Stefan Legewie, 2014, Science Signaling.

Snapshots of Protein Dynamics and Post-translational Modifications In One Experiment—β-Catenin and Its Functions*

Peter K. Sorger, Andreas Hecht, Katrin Luckert, 2011, Molecular & Cellular Proteomics.

Heat shock factor and the heat shock response

Peter K. Sorger, P. Sorger, 1991, Cell.

A functional genomic screen identifies a role for TAO1 kinase in spindle-checkpoint signalling

Peter K. Sorger, Jing Chen, Viji M. Draviam, 2007, Nature Cell Biology.

Measuring and Modeling Apoptosis in Single Cells

Peter K. Sorger, Sabrina L. Spencer, P. Sorger, 2011, Cell.

An expanding role for cell biologists in drug discovery and pharmacology

Birgit Schoeberl, Peter K. Sorger, P. Sorger, 2012, Molecular biology of the cell.

Combination Cancer Therapy Can Confer Benefit via Patient-to-Patient Variability without Drug Additivity or Synergy

Peter K. Sorger, P. Sorger, A. Palmer, 2017, Cell.

A role for the Adenomatous Polyposis Coli protein in chromosome segregation

Peter K. Sorger, Jason R. Swedlow, Inke S. Näthke, 2001, Nature Cell Biology.

Profiles of Basal and Stimulated Receptor Signaling Networks Predict Drug Response in Breast Cancer Lines

Marc Hafner, Birgit Schoeberl, Peter K. Sorger, 2013, Science Signaling.

THE OPEN MICROSCOPY ENVIRONMENT MATLAB HANDLER : COMBINING A BIOINFORMATICS DATA & IMAGE REPOSITORY WITH A QUANTITATIVE ANALYSIS ENVIRONMENT

Ilya G. Goldberg, Peter K. Sorger, Douglas A. Creager, 2005 .

MICROFLUIDIC DEVICES FOR STUDYING THE RESPONSE OF ADHERENT CELLS UNDER SHORT TIME STIMULI TREATMENT

Peter K. Sorger, Mingsheng Zhang, Linlin Ye, 2007 .

Transient Sister Chromatid Separation and Elastic Deformation of Chromosomes during Mitosis in Budding Yeast

Peter K. Sorger, P. Sorger, S. Asthana, 2000, Cell.

Conservation of protein abundance patterns reveals the regulatory architecture of the EGFR-MAPK pathway

Peter K. Sorger, Jason E. McDermott, Carrie D. Nicora, 2016, Science Signaling.

Analysis of kinesin motor function at budding yeast kinetochores

Peter K. Sorger, J. Tytell, P. Sorger, 2006, The Journal of cell biology.

From word models to executable models of signaling networks using automated assembly

Benjamin M. Gyori, Peter K. Sorger, Lucian Galescu, 2017 .

Cheminformatics Tools for Analyzing and Designing Optimized Small-Molecule Collections and Libraries.

Mario Medvedovic, Eugen Lounkine, Marc Hafner, 2019, Cell chemical biology.

Recombination and lineage-specific mutations linked to the emergence of SARS-CoV-2

Peter K. Sorger, Ratul Chowdhury, Raul Rabadan, 2020, Genome Medicine.

A Noncanonical Frizzled2 Pathway Regulates Epithelial-Mesenchymal Transition and Metastasis

Leonid Peshkin, Gavin MacBeath, Peter K. Sorger, 2014, Cell.

Towards a Rigorous Assessment of Systems Biology Models: The DREAM3 Challenges

Daniel Marbach, Julio Saez-Rodriguez, Peter K. Sorger, 2010, PloS one.

Common and cell-type specific responses to anti-cancer drugs revealed by high throughput transcript profiling

Marc Hafner, Peter K. Sorger, Todd R. Golub, 2017, Nature Communications.

Heat shock factor is regulated differently in yeast and HeLa cells

Peter K. Sorger, Michael J. Lewis, P. Sorger, 1987, Nature.

Sporadic ERK pulses drive non-genetic resistance in drug-adapted BRAFV600E melanoma cells

Peter K. Sorger, Douglas A. Lauffenburger, Jia-Yun Chen, 2019, bioRxiv.