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NAR Top Articles - Computational Biology

Computational Biology

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January 2016

Microbial species delineation using whole genome sequences
Varghese, Neha J.; Mukherjee, Supratim; Ivanova, Natalia; Konstantinidis, Konstantinos T.; Mavrommatis, Kostas; Kyrpides, Nikos C.; Pati, Amrita
Nucleic Acids Res. 2015, 43, 6761-6771
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Genomes to natural products PRediction Informatics for Secondary Metabolomes (PRISM)
Skinnider, Michael A.; Dejong, Chris A.; Rees, Philip N.; Johnston, Chad W.; Li, Haoxin; Webster, Andrew L. H.; Wyatt, Morgan A.; Magarvey, Nathan A.
Nucleic Acids Res. 2015, 43, 9645-9662
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Pathway analysis from lists of microRNAs: common pitfalls and alternative strategy
Godard, Patrice; van Eyll, Jonathan
Nucleic Acids Res. 2015, 43, 3490-3497
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Detection of recurrent alternative splicing switches in tumor samples reveals novel signatures of cancer
Sebestyen, Endre; Zawisza, Michal; Eyras, Eduardo
Nucleic Acids Res. 2015, 43, 1345-1356
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The mRNA related ceRNA-ceRNA landscape and significance across 20 major cancer types
Xu, Juan; Li, Yongsheng; Lu, Jianping; Pan, Tao; Ding, Na; Wang, Zishan; Shao, Tingting; Zhang, Jinwen; Wang, Lihua; Li, Xia
Nucleic Acids Res. 2015, 43, 8169-8182
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Discover hidden splicing variations by mapping personal transcriptomes to personal genomes
Stein, Shayna; Lu, Zhi-Xiang; Bahrami-Samani, Emad; Park, Juw Won; Xing, Yi
Nucleic Acids Res. 2015, 43, 10612-10622
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A predictive modeling approach for cell line-specific long-range regulatory interactions
Roy, Sushmita; Siahpirani, Alireza Fotuhi; Chasman, Deborah; Knaack, Sara; Ay, Ferhat; Stewart, Ron; Wilson, Michael; Sridharan, Rupa
Nucleic Acids Res. 2015, 43, 8694-8712
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Accurate multiplexing and filtering for high-throughput amplicon-sequencing
Esling, Philippe; Lejzerowicz, Franck; Pawlowski, Jan
Nucleic Acids Res. 2015, 43, 2513-2524
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LARVA: an integrative framework for large-scale analysis of recurrent variants in noncoding annotations
Lochovsky, Lucas; Zhang, Jing; Fu, Yao; Khurana, Ekta; Gerstein, Mark
Nucleic Acids Res. 2015, 43, 8123-8134
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Beyond the one-locus-one-miRNA paradigm: microRNA isoforms enable deeper insights into breast cancer heterogeneity
Telonis, Aristeidis G.; Loher, Phillipe; Jing, Yi; Londin, Eric; Rigoutsos, Isidore
Nucleic Acids Res. 2015, 43, 9158-9175
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