Volume 13 Supplement 3

Selected articles from the IEEE International Conference on Bioinformatics and Biomedicine 2011: Genomics

Proceedings

Edited by Sun Kim and Taesung Park

IEEE International Conference on Bioinformatics and Biomedicine 2011. Go to conference site.

Atlanta, GA, USA12-15 November 2011

The phenylalanine ammonia lyase (PAL) gene family shows a gymnosperm-specific lineage

Phenylalanine ammonia lyase (PAL) is a key enzyme of the phenylpropanoid pathway that catalyzes the deamination of phenylalanine to trans-cinnamic acid, a precursor for the lignin and flavonoid biosynthetic pa...

Authors: Ujwal R Bagal, James H Leebens-Mack, W Walter Lorenz and Jeffrey FD Dean

Citation: BMC Genomics 2012 13(Suppl 3):S1

Content type: Proceedings

Published on: 11 June 2012
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A LDA-based approach to promoting ranking diversity for genomics information retrieval

In the biomedical domain, there are immense data and tremendous increase of genomics and biomedical relevant publications. The wealth of information has led to an increasing amount of interest in and need for ...

Authors: Yan Chen, Xiaoshi Yin, Zhoujun Li, Xiaohua Hu and Jimmy Xiangji Huang

Citation: BMC Genomics 2012 13(Suppl 3):S2

Content type: Proceedings

Published on: 11 June 2012
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Genome-wide search for miRNA-target interactions in Arabidopsis thaliana with an integrated approach

MiRNA are about 22nt long small noncoding RNAs that post transcriptionally regulate gene expression in animals, plants and protozoa. Confident identification of MiRNA-Target Interactions (MTI) is vital to unde...

Authors: Jiandong Ding, Danqing Li, Uwe Ohler, Jihong Guan and Shuigeng Zhou

Citation: BMC Genomics 2012 13(Suppl 3):S3

Content type: Proceedings

Published on: 11 June 2012
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A natural language interface plug-in for cooperative query answering in biological databases

One of the many unique features of biological databases is that the mere existence of a ground data item is not always a precondition for a query response. It may be argued that from a biologist's standpoint, ...

Authors: Hasan M Jamil

Citation: BMC Genomics 2012 13(Suppl 3):S4

Content type: Proceedings

Published on: 11 June 2012
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Hypotheses generation as supervised link discovery with automated class labeling on large-scale biomedical concept networks

Computational approaches to generate hypotheses from biomedical literature have been studied intensively in recent years. Nevertheless, it still remains a challenge to automatically discover novel, cross-silo ...

Authors: Jayasimha Reddy Katukuri, Ying Xie, Vijay V Raghavan and Ashish Gupta

Citation: BMC Genomics 2012 13(Suppl 3):S5

Content type: Proceedings

Published on: 11 June 2012
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Multi-objective dynamic population shuffled frog-leaping biclustering of microarray data

Multi-objective optimization (MOO) involves optimization problems with multiple objectives. Generally, theose objectives is used to estimate very different aspects of the solutions, and these aspects are often...

Authors: Junwan Liu, Zhoujun Li, Xiaohua Hu, Yiming Chen and Feifei Liu

Citation: BMC Genomics 2012 13(Suppl 3):S6

Content type: Proceedings

Published on: 11 June 2012
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Simultaneous prediction of RNA secondary structure and helix coaxial stacking

RNA secondary structure plays a scaffolding role for RNA tertiary conformation. Accurate secondary structure prediction can not only identify double-stranded helices and single stranded-loops but also help pro...

Authors: Pooya Shareghi, Yingfeng Wang, Russell Malmberg and Liming Cai

Citation: BMC Genomics 2012 13(Suppl 3):S7

Content type: Proceedings

Published on: 11 June 2012
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Discriminative application of string similarity methods to chemical and non-chemical names for biomedical abbreviation clustering

Term clustering, by measuring the string similarities between terms, is known within the natural language processing community to be an effective method for improving the quality of texts and dictionaries. How...

Authors: Atsuko Yamaguchi, Yasunori Yamamoto, Jin-Dong Kim, Toshihisa Takagi and Akinori Yonezawa

Citation: BMC Genomics 2012 13(Suppl 3):S8

Content type: Proceedings

Published on: 11 June 2012
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Selected articles from the IEEE International Conference on Bioinformatics and Biomedicine 2011: Genomics

Proceedings

The phenylalanine ammonia lyase (PAL) gene family shows a gymnosperm-specific lineage

A LDA-based approach to promoting ranking diversity for genomics information retrieval

Genome-wide search for miRNA-target interactions in Arabidopsis thaliana with an integrated approach

A natural language interface plug-in for cooperative query answering in biological databases

Hypotheses generation as supervised link discovery with automated class labeling on large-scale biomedical concept networks

Multi-objective dynamic population shuffled frog-leaping biclustering of microarray data

Simultaneous prediction of RNA secondary structure and helix coaxial stacking

Discriminative application of string similarity methods to chemical and non-chemical names for biomedical abbreviation clustering

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