Contact us for more information: t: +44 (0) 1865 355 190 e: [email protected]www.oxfordjournals.org/corporate Bioinformatics VOLUME 28 NUMBER 16 AUGUST 15 2012 www.bioinformatics.oxfordjournals.org ISSN 1367-4803 (PRINT) ISSN 1460-2059 (ONLINE) The leading journal in its field, Bioinformatics publishes the highest quality scientific papers and review articles of interest to academic and industrial researchers. Its main focus is on new developments in genome bioinformatics and computational biology. Two distinct sections within the journal - Discovery Notes and Application Notes - focus on shorter papers; the former reporting biologically interesting discoveries using computational methods, the latter exploring the applications used for experiments. Print Circulation 320 Geographic Breakdown United Kingdom 12% Europe 27% North America 21% Rest of the World 40% Average Monthly Page Views 333,310 Average Monthly Unique IPs 97,830 Average Available Ad Impressions 573,950* *Combined leaderboard and skyscraper positions Impact Factor 5.468 Ranking 7/72 Si: Biochemical Research Methods 1/47 Si: Mathematical & Computational Biology 2011 Journal Citation Reports® (Thomson Reuters, 2011) Frequency 24 Peer Reviewed Yes Editors-In-Chief A Bateman & A Valencia Society Affiliation The International Society for Computational Biology No. of eTOC Subscribers 10,750 2013 Media Kit Advertising & Sales Contacts Naomi Reeves Advertising Sales Manager t: +44 (0) 1865 355396 e: [email protected]Caroline Bracken Supplements Development Manager t:+44 (0)1865 353794 e: [email protected]For reprints, or tailored products: e: [email protected]www.oxfordjournals.org/corporate Useful Information bioinformatics.oxfordjournals.org
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Contact us for more information:t: +44 (0) 1865 355 190e: [email protected]/corporate
Bioinformatics VOLUME 28 NUMBER 16 AUGUST 15 2012
DISCOVERY NOTE
Genetics and population analysis
Performance of computational tools inevaluating the functional impact oflaboratory-induced amino acid mutations V.E.Gray, K.R.Kukurba and S.Kumar
ORIGINAL PAPER
Genome analysis
Genomic dark matter: the reliability ofshort read mapping illustrated by thegenome mappability score H.Lee and M.C.Schatz
Bellerophontes: an RNA-Seq data analysisframework for chimeric transcriptsdiscovery based on accurate fusion model F.Abate, A.Acquaviva, G.Paciello, C.Foti,E.Ficarra, A.Ferrarini, M.Delledonne,I.Iacobucci, S.Soverini, G.Martinelli, andE.Macii
BatMis: a fast algorithm for k-mismatchmapping C.Tennakoon, R.W.Purbojati and W.-K.Sung
Systems biology
RESQUE: Network reduction using semi-Markov random walk scores for efficientquerying of biological networksS.M.E.Sahraeian and B.-J.Yoon
Topology of functional networks predictsphysical binding of proteinsÖ.S.Saraç, V.Pancaldi, J.Bähler and A.Beyer
Identification of feedback loops in neuralnetworks based on multi-step GrangercausalityC.-Y.Dong, D.Shin, S.Joo, Y.Nam and K.-H.Cho
Data and text mining
BioContext: an integrated text miningsystem for large-scale extraction andcontextualization of biomolecular eventsM.Gerner, F.Sarafraz, C.M.Bergman andG.Nenadic
AutoBind: automatic extraction ofprotein–ligand-binding affinity data frombiological literatureD.T.-H.Chang, C.-H.Ke, J.-H.Lin and J.-H.Chiang
Databases and ontologies
Identifying aberrant pathways throughintegrated analysis of knowledge inpharmacogenomicsR.Hoehndorf, M.Dumontier and G.V.Gkoutos
APPLICATIONS NOTE
Genome analysis
gSearch: a fast and flexible general searchtool for whole-genome sequencingT.Song, K.-B.Hwang, M.Hsing, K.Lee,J.Bohn and S.W.Kong
Sequence analysis
SORTALLER: predicting allergens usingsubstantially optimized algorithm onallergen family featured peptidesL.Zhang, Y.Huang, Z.Zou, Y.He, X.Chen andA.Tao
SAAP-RRBS: streamlined analysis andannotation pipeline for reducedrepresentation bisulfite sequencingZ.Sun, S.Baheti, S.Middha, R.Kanwar,Y.Zhang, X.Li, A.S.Beutler, E.Klee,Y.W.Asmann, E.A.Thompson and J.-P.A.Kocher
DySC: software for greedy clustering of16S rRNA readsZ.Zheng, S.Kramer and B.Schmidt
RSeQC: quality control of RNA-seqexperimentsL.Wang, S.Wang and W.Li
Structural bioinformatics
ETAscape: analyzing protein networks topredict enzymatic function and substratesin CytoscapeB.J.Bachman, E.Venner, R.C.Lua, S.Erdinand O.Lichtarge
Bluues server: electrostatic properties ofwild-type and mutated protein structuresI.Walsh, G.Minervini, A.Corazza,G.Esposito, S.C.E.Tosatto and F.Fogolari
Accelerated protein structure comparisonusing TM-score-GPUL.-H.Hung and R.Samudrala
BioinformaticsVOLUME 28 NUMBER 16 AUGUST 15 2012
www.bioinformatics.oxfordjournals.org
ISSN 1367-4803 (PRINT)ISSN 1460-2059 (ONLINE)
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BIOINFO-28(16)Cover.qxd 7/27/12 2:50 PM Page 1
The leading journal in its field, Bioinformatics publishes the highest quality scientific papers and review articles of interest to academic and industrial researchers. Its main focus is on new developments in genome bioinformatics and computational biology.
Two distinct sections within the journal - Discovery Notes and Application Notes - focus on shorter papers; the former reporting biologically interesting discoveries using computational methods, the latter exploring the applications used for experiments.
Print Circulation 320 Geographic Breakdown United Kingdom 12% Europe 27% North America 21% Rest of the World 40% Average Monthly Page Views 333,310
Average Monthly Unique IPs 97,830
Average Available Ad Impressions 573,950**Combined leaderboard and skyscraper positions
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