Adam Godzik

According to our database1, Adam Godzik authored at least 63 papers between 1993 and 2019.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.



In proceedings 
PhD thesis 





Cancer3D 2.0: interactive analysis of 3D patterns of cancer mutations in cancer subsets.
Nucleic Acids Research, 2019

PDBFlex: exploring flexibility in protein structures.
Nucleic Acids Research, 2016

Protael: protein data visualization library for the web.
Bioinformatics, 2016

Revealing aperiodic aspects of solenoid proteins from sequence information.
Bioinformatics, 2016

PROPER: Performance visualization for optimizing and comparing ranking classifiers in MATLAB.
Source Code for Biology and Medicine, 2015

A Pan-Cancer Catalogue of Cancer Driver Protein Interaction Interfaces.
PLoS Computational Biology, 2015

Analysis of Individual Protein Regions Provides Novel Insights on Cancer Pharmacogenomics.
PLoS Computational Biology, 2015

Cancer3D: understanding cancer mutations through protein structures.
Nucleic Acids Research, 2015

Structure and sequence analyses of Bacteroides proteins BVU_4064 and BF1687 reveal presence of two novel predominantly-beta domains, predicted to be involved in lipid and cell surface interactions.
BMC Bioinformatics, 2015

AIDA: ab initio domain assembly for automated multi-domain protein structure prediction and domain-domain interaction prediction.
Bioinformatics, 2015

AIDA: ab initio domain assembly server.
Nucleic Acids Research, 2014

POSA: a user-driven, interactive multiple protein structure alignment server.
Nucleic Acids Research, 2014

PubServer: literature searches by homology.
Nucleic Acids Research, 2014

bNAber: database of broadly neutralizing HIV antibodies.
Nucleic Acids Research, 2014

Structural genomics analysis of uncharacterized protein families overrepresented in human gut bacteria identifies a novel glycoside hydrolase.
BMC Bioinformatics, 2014

Structure- and context-based analysis of the GxGYxYP family reveals a new putative class of Glycoside Hydrolase.
BMC Bioinformatics, 2014

ConSole: using modularity of contact maps to locate Solenoid domains in protein structures.
BMC Bioinformatics, 2014

Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis.
BMC Bioinformatics, 2014

FFAS-3D: improving fold recognition by including optimized structural features and template re-ranking.
Bioinformatics, 2014

e-Driver: a novel method to identify protein regions driving cancer.
Bioinformatics, 2014

LUD, a new protein domain associated with lactate utilization.
BMC Bioinformatics, 2013

Two Pfam protein families characterized by a crystal structure of protein lpg2210 from Legionella pneumophila.
BMC Bioinformatics, 2013

This Déjà Vu Feeling - Analysis of Multidomain Protein Evolution in Eukaryotic Genomes.
PLoS Computational Biology, 2012

MORPH-PRO: A Novel Algorithm and Web Server for Protein Morphing.
Proceedings of the Algorithms in Bioinformatics - 12th International Workshop, 2012

The FGGY Carbohydrate Kinase Family: Insights into the Evolution of Functional Specificities.
PLoS Computational Biology, 2011

FFAS server: novel features and applications.
Nucleic Acids Research, 2011

TOPSAN: a dynamic web database for structural genomics.
Nucleic Acids Research, 2011

A Primer on Metagenomics.
PLoS Computational Biology, 2010

Expansion of the Protein Repertoire in Newly Explored Environments: Human Gut Microbiome Specific Protein Families.
PLoS Computational Biology, 2010

TOPSAN: a collaborative annotation environment for structural genomics.
BMC Bioinformatics, 2010

Pre-calculated protein structure alignments at the RCSB PDB website.
Bioinformatics, 2010

PMAP: databases for analyzing proteolytic events and pathways.
Nucleic Acids Research, 2009

TOPS++FATCAT: Fast flexible structural alignment using constraints derived from TOPS+ Strings Model.
BMC Bioinformatics, 2008

CutDB: a proteolytic event database.
Nucleic Acids Research, 2007

The 2006 Automated Function Prediction Meeting.
BMC Bioinformatics, 2007

XtalPred: a web server for prediction of protein crystallizability.
Bioinformatics, 2007

Using an alignment of fragment strings for comparing protein structures.
Bioinformatics, 2007

TOM - Task and Object Management for Grid Clusters.
Proceedings of the 2007 International Conference on Grid Computing & Applications, 2007

Flexible Structural Neighborhood - a database of protein structural similarities and alignments.
Nucleic Acids Research, 2006

JAFA: a protein function annotation meta-server.
Nucleic Acids Research, 2006

Representing and comparing protein structures as paths in three-dimensional space.
BMC Bioinformatics, 2006

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences.
Bioinformatics, 2006

VISSA: a program to visualize structural features from structure sequence alignment.
Bioinformatics, 2006

Modeling and Analyzing Three-Dimensional Structures of Human Disease Proteins.
Proceedings of the Biocomputing 2006, 2006

FFAS03: a server for profile-profile sequence alignments.
Nucleic Acids Research, 2005

Fragnostic: walking through protein structure space.
Nucleic Acids Research, 2005

Multiple flexible structure alignment using partial order graphs.
Bioinformatics, 2005

Automatic detection of subsystem/pathway variants in genome analysis.
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

FATCAT: a web server for flexible structure comparison and structure similarity searching.
Nucleic Acids Research, 2004

Integrated web service for improving alignment quality based on segments comparison.
BMC Bioinformatics, 2004

The Status of Structural Genomics Defined Through the Analysis of Current Targets and Structures.
Proceedings of the Biocomputing 2004, 2004

Domain analysis of the tubulin cofactor system: a model for tubulin folding and dimerization.
BMC Bioinformatics, 2003

A segment alignment approach to protein comparison.
Bioinformatics, 2003

Flexible structure alignment by chaining aligned fragment pairs allowing twists.
Proceedings of the European Conference on Computational Biology (ECCB 2003), 2003

Tolerating some redundancy significantly speeds up clustering of large protein databases.
Bioinformatics, 2002

The Meaning and Limitations of Protein Structure Alignments.
Proceedings of the 1st International Symposium on 3D Data Processing Visualization and Transmission (3DPVT 2002), 2002

Clustering of highly homologous sequences to reduce the size of large protein databases.
Bioinformatics, 2001

From Fold to Function Predictions: An Apoptosis Regulator Protein BID.
Computers & Chemistry, 2000

Saturated BLAST: an automated multiple intermediate sequence search used to detect distant homology.
Bioinformatics, 2000

Search for a New Description of Protein Topology and Local Structure.
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, 2000

Flexible algorithm for direct multiple alignment of protein structures and sequences.
Computer Applications in the Biosciences, 1994

Lattice representations of globular proteins: How good are they?
Journal of Computational Chemistry, 1993

De novo and inverse folding predictions of protein structure and dynamics.
Journal of Computer-Aided Molecular Design, 1993