Literature DB >> 22942023

CSB: a Python framework for structural bioinformatics.

Ivan Kalev1, Martin Mechelke, Klaus O Kopec, Thomas Holder, Simeon Carstens, Michael Habeck.   

Abstract

SUMMARY: Computational Structural Biology Toolbox (CSB) is a cross-platform Python class library for reading, storing and analyzing biomolecular structures with rich support for statistical analyses. CSB is designed for reusability and extensibility and comes with a clean, well-documented API following good object-oriented engineering practice. AVAILABILITY: Stable release packages are available for download from the Python Package Index (PyPI) as well as from the project's website http://csb.codeplex.com. CONTACTS: ivan.kalev@gmail.com or michael.habeck@tuebingen.mpg.de

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Year:  2012        PMID： 22942023     DOI： 10.1093/bioinformatics/bts538

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  8 in total

1.  PatternQuery: web application for fast detection of biomacromolecular structural patterns in the entire Protein Data Bank.

Authors:  David Sehnal; Lukáš Pravda; Radka Svobodová Vařeková; Crina-Maria Ionescu; Jaroslav Koča
Journal:  Nucleic Acids Res       Date:  2015-05-26       Impact factor: 16.971

2.  Inferential Structure Determination of Chromosomes from Single-Cell Hi-C Data.

Authors:  Simeon Carstens; Michael Nilges; Michael Habeck
Journal:  PLoS Comput Biol       Date:  2016-12-27       Impact factor: 4.475

3.  Arabidopsis HAP2/GCS1 is a gamete fusion protein homologous to somatic and viral fusogens.

Authors:  Clari Valansi; David Moi; Evgenia Leikina; Elena Matveev; Martín Graña; Leonid V Chernomordik; Héctor Romero; Pablo S Aguilar; Benjamin Podbilewicz
Journal:  J Cell Biol       Date:  2017-01-30       Impact factor: 10.539

4.  β-Propeller blades as ancestral peptides in protein evolution.

Authors:  Klaus O Kopec; Andrei N Lupas
Journal:  PLoS One       Date:  2013-10-15       Impact factor: 3.240

5.  Confidence-guided local structure prediction with HHfrag.

Authors:  Ivan Kalev; Michael Habeck
Journal:  PLoS One       Date:  2013-10-16       Impact factor: 3.240

6.  Structure prediction of the second extracellular loop in G-protein-coupled receptors.

Authors:  Sebastian Kmiecik; Michal Jamroz; Michal Kolinski
Journal:  Biophys J       Date:  2014-06-03       Impact factor: 4.033

7.  BioTriangle: a web-accessible platform for generating various molecular representations for chemicals, proteins, DNAs/RNAs and their interactions.

Authors:  Jie Dong; Zhi-Jiang Yao; Ming Wen; Min-Feng Zhu; Ning-Ning Wang; Hong-Yu Miao; Ai-Ping Lu; Wen-Bin Zeng; Dong-Sheng Cao
Journal:  J Cheminform       Date:  2016-06-21       Impact factor: 5.514

8.  RRMdb-an evolutionary-oriented database of RNA recognition motif sequences.

Authors:  Martyna Nowacka; Pietro Boccaletto; Elzbieta Jankowska; Tomasz Jarzynka; Janusz M Bujnicki; Stanislaw Dunin-Horkawicz
Journal:  Database (Oxford)       Date:  2019-01-01       Impact factor: 3.451
  8 in total

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