Chris Sander

Orcid: 0000-0001-6059-6270

According to our database1, Chris Sander authored at least 74 papers between 1992 and 2023.

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Bibliography

2023

2022
The reactome pathway knowledgebase 2022.
Nucleic Acids Res., 2022

2021
Causal interactions from proteomic profiles: Molecular data meet pathway knowledge.
Patterns, 2021

CellMiner Cross-Database (CellMinerCDB) version 1.2: Exploration of patient-derived cancer cell line pharmacogenomics.
Nucleic Acids Res., 2021

PredictProtein - Predicting Protein Structure and Function for 29 Years.
Nucleic Acids Res., 2021

A flexible search system for high-accuracy identification of biological entities and molecules.
J. Open Source Softw., 2021

Inference of cell dynamics on perturbation data using adjoint sensitivity.
CoRR, 2021

2020
Perturbation biology links temporal protein changes to drug responses in a melanoma cell line.
PLoS Comput. Biol., 2020

Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.
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Nat., 2020

Pathway Commons 2019 Update: integration, analysis and exploration of pathway data.
Nucleic Acids Res., 2020

AlignmentViewer: Sequence Analysis of Large Protein Families.
F1000Research, 2020

2019
The EVcouplings Python framework for coevolutionary sequence analysis.
Bioinform., 2019

Learning Protein Structure with a Differentiable Simulator.
Proceedings of the 7th International Conference on Learning Representations, 2019

2017
CTD2 Dashboard: a searchable web interface to connect validated results from the Cancer Target Discovery and Development Network.
Database J. Biol. Databases Curation, 2017

2016
A Multi-Method Approach for Proteomic Network Inference in 11 Human Cancers.
PLoS Comput. Biol., 2016

MutationAligner: a resource of recurrent mutation hotspots in protein domains in cancer.
Nucleic Acids Res., 2016

rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R.
Bioinform., 2016

PaxtoolsR: pathway analysis in R using Pathway Commons.
Bioinform., 2016

2015
Inferring Pairwise Interactions from Biological Data Using Maximum-Entropy Probability Models.
PLoS Comput. Biol., 2015

Extensive Decoupling of Metabolic Genes in Cancer.
PLoS Comput. Biol., 2015

2014
PredictProtein - an open resource for online prediction of protein structural and functional features.
Nucleic Acids Res., 2014

PconsFold: improved contact predictions improve protein models.
Bioinform., 2014

Pattern search in BioPAX models.
Bioinform., 2014

Prediction of individualized therapeutic vulnerabilities in cancer from genomic profiles.
Bioinform., 2014

2013
Ecological Modeling from Time-Series Inference: Insight into Dynamics and Stability of Intestinal Microbiota.
PLoS Comput. Biol., 2013

Perturbation Biology: Inferring Signaling Networks in Cellular Systems.
PLoS Comput. Biol., 2013

Using Biological Pathway Data with Paxtools.
PLoS Comput. Biol., 2013

The BioPAX Validator.
Bioinform., 2013

PiHelper: an open source framework for drug-target and antibody-target data.
Bioinform., 2013

2011
A series of PDB related databases for everyday needs.
Nucleic Acids Res., 2011

Pathway Commons, a web resource for biological pathway data.
Nucleic Acids Res., 2011

3D Protein Structure Predicted from Sequence
CoRR, 2011

2010
ChiBE: interactive visualization and manipulation of BioPAX pathway models.
Bioinform., 2010

2008
The microRNA.org resource: targets and expression.
Nucleic Acids Res., 2008

Predicting cancer involvement of genes from heterogeneous data.
BMC Bioinform., 2008

2007
From Bytes to Bedside: Data Integration and Computational Biology for Translational Cancer Research.
PLoS Comput. Biol., 2007

Computational Analysis of Mouse piRNA Sequence and Biogenesis.
PLoS Comput. Biol., 2007

CancerGenes: a gene selection resource for cancer genome projects.
Nucleic Acids Res., 2007

2006
Signal Processing in the TGF-β Superfamily Ligand-Receptor Network.
PLoS Comput. Biol., 2006

Pathguide: a Pathway Resource List.
Nucleic Acids Res., 2006

cPath: open source software for collecting, storing, and querying biological pathways.
BMC Bioinform., 2006

2003
Growth in Bioinformatics.
Bioinform., 2003

Evaluation of annotation strategies using an entire genome sequence.
Bioinform., 2003

Characterizing gene sets with FuncAssociate.
Bioinform., 2003

2002
The Journal Bioinformatics, key medium for computational biology.
Bioinform., 2002

2001
Bioinformatics - Challenges in 2001.
Bioinform., 2001

2000
CAST: an iterative algorithm for the complexity analysis of sequence tracts.
Bioinform., 2000

1999
Protein folds and families: sequence and structure alignments.
Nucleic Acids Res., 1999

Automated genome sequence analysis and annotation.
Bioinform., 1999

1998
Touring protein fold space with Dali/FSSP.
Nucleic Acids Res., 1998

The HSSP database of protein structure-sequence alignments and family profiles.
Nucleic Acids Res., 1998

EUCLID: automatic classification of proteins in functional classes by their database annotations.
Bioinform., 1998

Removing near-neighbour redundancy from large protein sequence collections.
Bioinform., 1998

Frame: detection of genomic sequencing errors.
Bioinform., 1998

MView: a web-compatible database search or multiple alignment viewer.
Bioinform., 1998

1997
The HSSP database of protein structure-sequence alignments.
Nucleic Acids Res., 1997

Dali/FSSP classification of three-dimensional protein folds.
Nucleic Acids Res., 1997

Objectively judging the quality of a protein structure from a Ramachandran plot.
Comput. Appl. Biosci., 1997

Sequence analysis of the Methanococcus jannaschii genome and the prediction of protein function.
Comput. Appl. Biosci., 1997

Classification of protein families and detection of the determinant residues with an improved self-organizing map.
Biol. Cybern., 1997

Decision Support System for the Evolutionary Classification of Protein Structures.
Proceedings of the 5th International Conference on Intelligent Systems for Molecular Biology, 1997

1996
The HSSP database of protein structure-sequence alignments.
Nucleic Acids Res., 1996

The FSSP database: fold classification based on structure-structure alignment of proteins.
Nucleic Acids Res., 1996

The PDBFINDER database: a summary of PDB, DSSP and HSSP information with added value.
Comput. Appl. Biosci., 1996

1995
The Double Cubic Lattice Method: Efficient Approaches to Numerical Integration of Surface Area and Volume and to Dot Surface Contouring of Molecular Assemblies.
J. Comput. Chem., 1995

3-D Lookup: Fast Protein Structure Database Searches at 90% Reliability.
Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology, 1995

The Functional Composition of Living Machines as a Design Principle for Artificial Organisms.
Proceedings of the Advances in Artificial Life, 1995

1994
PHD - an automatic mail server for protein secondary structure prediction.
Comput. Appl. Biosci., 1994

GeneQuiz: A Workbench for Sequence Analysis.
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, 1994

Evolution and Neural Networks - Protein Secondary Structure Prediction Above 71% Accuracy.
Proceedings of the 27th Annual Hawaii International Conference on System Sciences (HICSS-27), 1994

1993
The HSSP data base of protein structure-sequence alignments.
Nucleic Acids Res., 1993

The prediction and design of protein structures.
Proceedings of the Informatik in den Biowissenschaften, 1993

1992
Exercising Multi-Layered Networks on Protein Secondary Structure.
Int. J. Neural Syst., 1992

The Human Genome and High Performance Computing in Molecular Biology.
Proceedings of the Supercomputer'92: Anwendungen, Architekturen, Trends, 1992


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