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BMC Bioinformatics

Volume 12 Supplement 1

Selected articles from the Ninth Asia Pacific Bioinformatics Conference (APBC 2011)

Research

Edited by Yi-Ping Phoebe Chen and Kwang-Hyun Cho

The Ninth Asia Pacific Bioinformatics Conference (APBC 2011). Go to conference site.

Inchon, Korea11-14 January 2011

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  1. Content type: Research

    Peptide identification from tandem mass spectrometry (MS/MS) data is one of the most important problems in computational proteomics. This technique relies heavily on the accurate assessment of the quality of p...

    Authors: Zengyou He, Hongyu Zhao and Weichuan Yu

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S2

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  2. Content type: Research

    We present a data structure enabling rapid heuristic solution to the ancestral genome reconstruction problem for given phylogenies under genomic rearrangement metrics. The efficiency of the greedy algorithm is...

    Authors: Chunfang Zheng and David Sankoff

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S4

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  3. Content type: Research

    Ancestral Recombinations Graph (ARG) is a phylogenetic structure that encodes both duplication events, such as mutations, as well as genetic exchange events, such as recombinations: this captures the (genetic)...

    Authors: Laxmi Parida, Pier Francesco Palamara and Asif Javed

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S6

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  4. Content type: Research

    Un-MAppable Reads Solution (UMARS) is a user-friendly web service focusing on retrieving valuable information from sequence reads that cannot be mapped back to reference genomes. Recently, next-generation sequ...

    Authors: Sung-Chou Li, Wen-Ching Chan, Chun-Hung Lai, Kuo-Wang Tsai, Chun-Nan Hsu, Yuh-Shan Jou, Hua-Chien Chen, Chun-Hong Chen and Wen-chang Lin

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S9

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  5. Content type: Research

    Complex diseases are commonly caused by multiple genes and their interactions with each other. Genome-wide association (GWA) studies provide us the opportunity to capture those disease associated genes and gen...

    Authors: Pengyi Yang, Joshua WK Ho, Yee Hwa Yang and Bing B Zhou

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S10

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  6. Content type: Research

    The identification of genes responsible for human inherited diseases is one of the most challenging tasks in human genetics. Recent studies based on phenotype similarity and gene proximity have demonstrated gr...

    Authors: Wangshu Zhang, Fengzhu Sun and Rui Jiang

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S11

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  7. Content type: Research

    Determining the disulfide (S-S) bond pattern in a protein is often crucial for understanding its structure and function. In recent research, mass spectrometry (MS) based analysis has been applied to this probl...

    Authors: William Murad, Rahul Singh and Ten-Yang Yen

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S12

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  8. Content type: Research

    Measuring similarities between tree structured data is important for analysis of RNA secondary structures, phylogenetic trees, glycan structures, and vascular trees. The edit distance is one of the most widely...

    Authors: Daiji Fukagawa, Takeyuki Tamura, Atsuhiro Takasu, Etsuji Tomita and Tatsuya Akutsu

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S13

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  9. Content type: Research

    The gene duplication (GD) problem seeks a species tree that implies the fewest gene duplication events across a given collection of gene trees. Solving this problem makes it possible to use large gene families...

    Authors: Wen-Chieh Chang, Gordon J Burleigh, David F Fernández-Baca and Oliver Eulenstein

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S14

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  10. Content type: Research

    The abundance of new genomic data provides the opportunity to map the location of gene duplication and loss events on a species phylogeny. The first methods for mapping gene duplications and losses were based ...

    Authors: Pawel Górecki, Gordon J Burleigh and Oliver Eulenstein

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S15

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  11. Content type: Research

    Signal transduction is the major mechanism through which cells transmit external stimuli to evoke intracellular biochemical responses. Understanding relationship between external stimuli and corresponding cell...

    Authors: Chu Chun Kang, Yung Jen Chuang, Kai Che Tung, Chun Cheih Chao, Chuan Yi Tang, Shih Chi Peng and David Shan Hill Wong

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S17

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  12. Content type: Research

    Human immunodeficiency virus type one (HIV-1) is the major pathogen that causes the acquired immune deficiency syndrome (AIDS). With the availability of large-scale protein-protein interaction (PPI) measuremen...

    Authors: Xiaoning Qian and Byung-Jun Yoon

    Citation: BMC Bioinformatics 2011 12(Suppl 1):S19

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