Evolutionary Bioinformatics

An international, peer reviewed, open access journal focusing on evolutionary bioinformatics.  The journal aims to support understanding of organismal form and function through use of molecular, genetic, genomic and proteomic data by giving due consideration to its evolutionary context.

Impact Factor: 1.500 (2016)

Editor in Chief: Dr. Dennis Wall

ISSN: 1176-9343

Processing Speed: High quality, constructive peer review and rapid editorial decision within an average of four weeks.

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easyPAC: A Tool for Fast Prediction, Testing and Reference Mapping of Degenerate PCR Primers from Alignments or Consensus Sequences
David Rosenkranz
Evolutionary Bioinformatics 2012:8 151-159
Software or database review | Published on 14 Mar 2012 | Video abstract

Inferring the Phylogeny of Bovidae Using Mitochondrial DNA Sequences: Resolving Power of Individual Genes Relative to Complete Genomes
Ibrahim A. Arif, Mohammad A. Bakir and Haseeb A. Khan
Evolutionary Bioinformatics 2012:8 139-150
Original Research | Published on 20 Feb 2012

Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome
Felix Dreher, Atanas Kamburov and Ralf Herwig
Evolutionary Bioinformatics 2012:8 119-126
Short Report | Published on 24 Jan 2012

Testing Synchrony in Historical Biogeography: The Case of New World Primates and Hystricognathi Rodents
Leticia Loss-Oliveira, Barbara O. Aguiar and Carlos G. Schrago*
Evolutionary Bioinformatics 2012:8 127-137
Original Research | Published on 24 Jan 2012

Interkingdom Gene Transfer May Contribute to the Evolution of Phytopathogenicity in Botrytis Cinerea
Bo Zhu, Qing Zhou, Guanlin Xie, Guoqing Zhang, Xiaowei Zhang, Yanli Wang, Gunchang Sun, Bin Li and Gulei Jin
Evolutionary Bioinformatics 2012:8 105-117
Original Research | Published on 11 Jan 2012

Evolutionary Genomics of Genes Involved in Olfactory Behavior in the Drosophila melanogaster Species Group
Nicolás Lavagnino, François Serra, Leonardo Arbiza, Hernán Dopazo and Esteban Hasson,
Evolutionary Bioinformatics 2012:8 89-104
Original Research | Published on 09 Jan 2012

BS-KNN: An Effective Algorithm for Predicting Protein Subchloroplast Localization
Jing Hu and Xianghe Yan
Evolutionary Bioinformatics 2012:8 79-87
Methodology | Published on 05 Jan 2012

EvoluCode: Evolutionary Barcodes as a Unifying Framework for Multilevel Evolutionary Data
Benjamin Linard, Ngoc Hoan Nguyen, Francisco Prosdocimi, Olivier Poch and Julie D. Thompson
Evolutionary Bioinformatics 2012:8 61-77
Original Research | Published on 21 Dec 2011

SAFE Software and FED Database to Uncover Protein-Protein Interactions using Gene Fusion Analysis
Dimosthenis Tsagrasoulis, Vasilis Danos,, Maria Kissa, Philip Trimpalis, V. Lila Koumandou, Amalia D. Karagouni, Athanasios Tsakalidis and Sophia Kossida
Evolutionary Bioinformatics 2012:8 47-60
Original Research | Published on 18 Dec 2011

LCGbase: A Comprehensive Database for Lineage-Based Co-regulated Genes
Dapeng Wang, Yubin Zhang, Zhonghua Fan, Guiming Liu and Jun Yu
Evolutionary Bioinformatics 2012:8 39-46
Original Research | Published on 13 Dec 2011

Species Delimitation and Global Biosecurity
Laura M. Boykin, Karen F. Armstrong, Laura Kubatko and Paul De Barro
Evolutionary Bioinformatics 2012:8 1-37
Original Research | Published on 08 Dec 2011 | Video abstract

Evolution of Antifreeze Protein Genes in the Diatom Genus Fragilariopsis: Evidence for Horizontal Gene Transfer, Gene Duplication and Episodic Diversifying Selection
Ulf Sorhannus
Evolutionary Bioinformatics 2011:7 279-289
Original Research | Published on 15 Nov 2011

Factors Affecting Synonymous Codon Usage Bias in Chloroplast Genome of Oncidium Gower Ramsey
Chen Xu, Xiaoning Cai, Quanzhan Chen, Hongxia Zhou, Yao Cai and Ailing Ben
Evolutionary Bioinformatics 2011:7 271-278
Original Research | Published on 14 Nov 2011

ColorPhylo: A Color Code to Accurately Display Taxonomic Classifications
Sylvain Lespinats and Bernard Fertil
Evolutionary Bioinformatics 2011:7 257-270
Original Research | Published on 13 Nov 2011

In Silico Prediction of Evolutionarily Conserved GC-Rich Elements Associated with Antigenic Proteins of Plasmodium falciparum
Porkodi Panneerselvam, Praveen Bawankar, Surashree Kulkarni, and Swati Patankar
Evolutionary Bioinformatics 2011:7 235-255
Original Research | Published on 10 Nov 2011

On the Interplay between the Evolvability and Network Robustness in an Evolutionary Biological Network: A Systems Biology Approach
Bor-Sen Chen and Ying-Po Lin
Evolutionary Bioinformatics 2011:7 201-233
Original Research | Published on 01 Nov 2011

Characterization and Inference of Gene Gain/Loss Along Burkholderia Evolutionary History
Bo Zhu, Shengli Zhou, Miaomiao Lou, Jun Zhu, Bin Li, Guanlin Xie, GuLei Jin, and René De Mot
Evolutionary Bioinformatics 2011:7 191-200
Original Research | Published on 18 Oct 2011

Profiles and Majority Voting-Based Ensemble Method for Protein Secondary Structure Prediction
Hafida Bouziane, Belhadri Messabih and Abdallah Chouarfia
Evolutionary Bioinformatics 2011:7 171-189
Original Research | Published on 10 Oct 2011

A Novel Model for DNA Sequence Similarity Analysis Based on Graph Theory
Xingqin Qi, Qin Wu, Yusen Zhang, Eddie Fuller and Cun-Quan Zhang
Evolutionary Bioinformatics 2011:7 149-158
Original Research | Published on 04 Oct 2011

A New Support Measure to Quantify the Impact of Local Optima in Phylogenetic Analyses
Grant Brammer, Seung-Jin Sul and Tiffani L. Williams
Evolutionary Bioinformatics 2011:7 159-170
Original Research | Published on 29 Sep 2011

Single-Domain Parvulins Constitute a Specific Marker for Recently Proposed Deep-Branching Archaeal Subgroups
Christoph Lederer, Dominik Heider, Johannes van den Boom, Daniel Hoffmann, Jonathan W. Mueller and Peter Bayer
Evolutionary Bioinformatics 2011:7 135-148
Original Research | Published on 19 Sep 2011

IONS: Identification of Orthologs by Neighborhood and Similarity—an Automated Method to Identify Orthologs in Chromosomal Regions of Common Evolutionary Ancestry and its Application to Hemiascomycetous Yeasts
Marie-Line Seret and Philippe V. Baret
Evolutionary Bioinformatics 2011:7 123-133
Methodology | Published on 30 Aug 2011

Phylogenomics-Based Reconstruction of Protozoan Species Tree
Kary A.C.S. Ocaña, and Alberto M.R. Dávila
Evolutionary Bioinformatics 2011:7 107-121
Original Research | Published on 31 Jul 2011

Three-Dimensional Structure of Arabidopsis thaliana Lipase Predicted by Homology Modeling Method
Abdelmonaem Messaoudi, Hatem Belguith and Jeannette Ben Hamida
Evolutionary Bioinformatics 2011:7 99-105
Original Research | Published on 28 Jun 2011

Functional Evolution of BRCT Domains from Binding DNA to Protein
Zi-Zhang Sheng, Yu-Qi Zhao, and Jing-Fei Huang
Evolutionary Bioinformatics 2011:7 87-97
Original Research | Published on 12 Jun 2011

How Fitch-Margoliash Algorithm can Benefit from Multi Dimensional Scaling
Sylvain Lespinats, Delphine Grando, Eric Maréchal, Mohamed-Ali Hakimi, Olivier Tenaillon and Olivier Bastien
Evolutionary Bioinformatics 2011:7 61-85
Original Research | Published on 07 Jun 2011

Structurama: Bayesian Inference of Population Structure
John P. Huelsenbeck, Peter Andolfatto and Edna T. Huelsenbeck
Evolutionary Bioinformatics 2011:7 55-59
Short Report | Published on 02 Jun 2011

Evolutionary Implications and Physicochemical Analyses of Selected Proteins of Type III Polyketide Synthase Family
V. Mallika, K.C. Sivakumar and E.V. Soniya
Evolutionary Bioinformatics 2011:7 41-53
Original Research | Published on 29 May 2011

A Monte Carlo Method for Assessing the Quality of Duplication-Aware Alignment Algorithms
Valerio Freschi and Alessandro Bogliolo
Evolutionary Bioinformatics 2011:7 31-40
Original Research | Published on 10 May 2011

Phylogenetic Analysis of Kindlins Suggests Subfunctionalization of an Ancestral Unduplicated Kindlin into Three Paralogs in Vertebrates
Ammad Aslam Khan, Axel Janke, Takashi Shimokawa and Hongquan Zhang
Evolutionary Bioinformatics 2011:7 7-19
Original Research | Published on 22 Mar 2011

FORS-D Analysis in P. falciparum can Differentiate Classes of Genes Under Selection
Atish Kathpal, Balakota Reddy Patakottu and Swati Patankar
Evolutionary Bioinformatics 2011:7 21-29
Original Research | Published on 20 Mar 2011

SOLiDzipper: A High Speed Encoding Method for the Next-Generation Sequencing Data
Young Jun Jeon, Sang Hyun Park, Sung Min Ahn and Hee Joung Hwang
Evolutionary Bioinformatics 2011:7 1-6
Software or database review | Published on 10 Mar 2011

Cost-Effective Cloud Computing: A Case Study Using the Comparative Genomics Tool, Roundup
Parul Kudtarkar, Todd F. DeLuca, Vincent A. Fusaro, Peter J. Tonellato and Dennis P. Wall
Evolutionary Bioinformatics 2010:6 197-203
Short Report | Published on 22 Dec 2010

PlutoF—a Web Based Workbench for Ecological and Taxonomic Research, with an Online Implementation for Fungal ITS Sequences
Kessy Abarenkov, Leho Tedersoo, R. Henrik Nilsson, Kai Vellak, Irja Saar, Vilmar Veldre, Erast Parmasto, Marko Prous, Anne Aan, Margus Ots, Olavi Kurina, Ivika Ostonen, Janno Jõgeva, Siim Halapuu, Kadri Põldmaa, Märt Toots, Jaak Truu, Karl-Henrik Larsson and Urmas Kõljalg
Evolutionary Bioinformatics 2010:6 189-196
Software or database review | Published on 16 Dec 2010

Where Does the Alignment Score Distribution Shape Come from?
Philippe Ortet and Olivier Bastien
Evolutionary Bioinformatics 2010:6 159-187
Original Research | Published on 12 Dec 2010

DNA Barcodes of Arabian Partridge and Philby's Rock Partridge: Implications for Phylogeny and Species Identification
Haseeb Ahmad Khan, Ibrahim Abdulwahid Arif and Mohammad Shobrak
Evolutionary Bioinformatics 2010:6 151-158
Original Research | Published on 05 Dec 2010

Computational Identification of Anthocyanin-Specific Transcription Factors using a Rice Microarray and Maximum Boundary Range Algorithm
Chang Kug Kim, Shoshi Kikuchi, Jang Ho Hahn, Soo Chul Park, Yong Hwan Kim and Byun Woo Lee
Evolutionary Bioinformatics 2010:6 133-141
Original Research | Published on 20 Oct 2010 Bioinformatic Tools for Ecological and Evolutionary Genomics
Michael S. Barker, Katrina M. Dlugosch, Louie Dinh, R. Sashikiran Challa, Nolan C. Kane, Matthew G. King and Loren H. Rieseberg
Evolutionary Bioinformatics 2010:6 143-149
Short Report | Published on 20 Oct 2010

Identifying the Combinatorial Effects of Histone Modifications by Association Rule Mining in Yeast
Jiang Wang, Xianhua Dai, Qian Xiang, Yangyang Deng, Jihua Feng, Zhiming Dai and Caisheng He
Evolutionary Bioinformatics 2010:6 113-131
Original Research | Published on 20 Sep 2010

A Clustering Optimization Strategy for Molecular Taxonomy Applied to Planktonic Foraminifera SSU rDNA
Markus Göker, Guido W. Grimm, Alexander F. Auch, Ralf Aurahs and Michal Kučera
Evolutionary Bioinformatics 2010:6 97-112
Original Research | Published on 09 Sep 2010

Molecular Phylogeny of Edge Hill Virus Supports its Position in the Yellow Fever Virus Group and Identifies a New Genetic Variant
Joanne Macdonald, Michael Poidinger, John S. Mackenzie, Richard C. Russell, Stephen Doggett, Annette K. Broom, Debra Phillips, Joseph Potamski, Geoff Gard, Peter Whelan, Richard Weir, Paul R. Young, Debra Gendle, Sheryl Maher, Ross T. Barnard and Roy A. Hall
Evolutionary Bioinformatics 2010:6 91-96
Short Report | Published on 15 Jun 2010

Maximum Likelihood Analyses of 3,490 rbcL Sequences: Scalability of Comprehensive Inference Versus Group-Specific Taxon Sampling
Alexandros Stamatakis, Markus Göker and Guido W. Grimm
Evolutionary Bioinformatics 2010:6 73-90
Original Research | Published on 24 May 2010

An Application of Supertree Methods to Mammalian Mitogenomic Sequences
Véronique Campbell and François-Joseph Lapointe
Evolutionary Bioinformatics 2010:6 57-71
Original Research | Published on 12 May 2010

Relative Codon Adaptation Index, a Sensitive Measure of Codon Usage Bias
Soohyun Lee, Seyeon Weon, Sooncheol Lee and Changwon Kang
Evolutionary Bioinformatics 2010:6 47-55
Original Research | Published on 05 May 2010

A Comparative Taxonomy of Parallel Algorithms for RNA Secondary Structure Prediction
Ra’ed M. Al-Khatib, Rosni Abdullah and Nur’aini Abdul Rashid
Evolutionary Bioinformatics 2010:6 27-45
Original Research | Published on 09 Apr 2010

Comparative Molecular Evolution of Trichoderma Chitinases in Response to Mycoparasitic Interactions
Katarina Ihrmark, Nashwan Asmail, Wimal Ubhayasekera, Petter Melin, Jan Stenlid and Magnus Karlsson
Evolutionary Bioinformatics 2010:6 1-26
Original Research | Published on 15 Mar 2010

Clustering Protein Sequences Using Affinity Propagation Based on an Improved Similarity Measure
Fan Yang, Qing-Xin Zhu, Dong-Ming Tang and Ming-Yuan Zhao
Evolutionary Bioinformatics 2009:5 137-146
Methodology | Published on 22 Jan 2010

Snapshots of Tree Space
Zheng Wang, Francesc López-Giráldez and Jeffrey P. Townsend
Evolutionary Bioinformatics 2009:5 133-136
Short Commentary | Published on 18 Jan 2010

Genome-Wide Identification and Evolutionary Analysis of the Animal Specific ETS Transcription Factor Family
Zhipeng Wang and Qin Zhang
Evolutionary Bioinformatics 2009:5 119-131
Original Research | Published on 02 Oct 2009

A Model for Protein Sequence Evolution Based on Selective Pressure for Protein Stability: Application to Hemoglobins
Lorraine Marsh
Evolutionary Bioinformatics 2009:5 107-118
Original Research | Published on 27 Aug 2009

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