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Volume 19 Supplement 2

Selected articles from the 16th Asia Pacific Bioinformatics Conference (APBC 2018): genomics

Research

Publication of this supplement has not been supported by sponsorship. Information about the source of funding for publication charges can be found in the individual articles. The articles have undergone the journal's standard peer review process for supplements. The Supplement Editors declare that they have no competing interests.

Yokohama, Japan15-17 January 2018

Conference website

Edited by Yi-Ping Phoebe Chen, Yasubumi Sakakibara and Yoshihiro Yamanishi

Related articles have been published as a supplement to BMC Bioinformatics and BMC Systems Biology.

  1. High throughput sequencing technologies have been an increasingly critical aspect of precision medicine owing to a better identification of disease targets, which contributes to improved health care cost and c...

    Authors: Po-Jung Huang, Chi-Ching Lee, Ling-Ya Chiu, Kuo-Yang Huang, Yuan-Ming Yeh, Chia-Yu Yang, Cheng-Hsun Chiu and Petrus Tang
    Citation: BMC Genomics 2018 19(Suppl 2):86
  2. Seed location filtering is critical in DNA read mapping, a process where billions of DNA fragments (reads) sampled from a donor are mapped onto a reference genome to identify genomic variants of the donor. Sta...

    Authors: Jeremie S. Kim, Damla Senol Cali, Hongyi Xin, Donghyuk Lee, Saugata Ghose, Mohammed Alser, Hasan Hassan, Oguz Ergin, Can Alkan and Onur Mutlu
    Citation: BMC Genomics 2018 19(Suppl 2):89
  3. Influenza viruses are undergoing continuous and rapid evolution. The fatal influenza A/H7N9 has drawn attention since the first wave of infections in March 2013, and raised more grave concerns with its increas...

    Authors: Xinrui Zhou, Jie Zheng, Fransiskus Xaverius Ivan, Rui Yin, Shoba Ranganathan, Vincent T. K. Chow and Chee-Keong Kwoh
    Citation: BMC Genomics 2018 19(Suppl 2):88
  4. The reconstruction of ancestral genomes must deal with the problem of resolution, necessarily involving a trade-off between trying to identify genomic details and being overwhelmed by noise at higher resolutions.

    Authors: Chunfang Zheng, Yuji Jeong, Madisyn Gabrielle Turcotte and David Sankoff
    Citation: BMC Genomics 2018 19(Suppl 2):100
  5. MicroRNAs (miRNAs) are a class of endogenous small non-coding RNAs involved in the post-transcriptional gene regulation and play a critical role in plant growth, development and stress responses. Watermelon (Citr...

    Authors: Li Liu, Shuchao Ren, Junqiang Guo, Qingyi Wang, Xiaotuo Zhang, Peiran Liao, Shipeng Li, Ramanjulu Sunkar and Yun Zheng
    Citation: BMC Genomics 2018 19(Suppl 2):111
  6. Zebrafish is a full-developed model system for studying development processes and human disease. Recent studies of deep sequencing had discovered a large number of long non-coding RNAs (lncRNAs) in zebrafish. ...

    Authors: Wen Chen, Xuan Zhang, Jing Li, Shulan Huang, Shuanglin Xiang, Xiang Hu and Changning Liu
    Citation: BMC Genomics 2018 19(Suppl 2):112
  7. Emerging evidence indicates that Circular RNAs (circRNAs) exert post-transcriptional regulation of gene expression. A subclass of circRNA was found enriched with miRNA target sites. This evidence suggests that...

    Authors: Yu-Chen Liu, Hsiao-Chin Hong, Chi-Dung Yang, Wei-Hsiang Lee, Hsin-Tzu Huang and Hsien-Da Huang
    Citation: BMC Genomics 2018 19(Suppl 2):171
  8. Transcription factors (TFs) play essential roles during plant development and response to environmental stresses. However, the relationships among transcription factors, cis-acting elements and target gene expres...

    Authors: Chi-Nga Chow, Yi-Fan Chiang-Hsieh, Chia-Hung Chien, Han-Qin Zheng, Tzong-Yi Lee, Nai-Yun Wu, Kuan-Chieh Tseng, Ping-Fu Hou and Wen-Chi Chang
    Citation: BMC Genomics 2018 19(Suppl 2):85
  9. Typical human genome differs from the reference genome at 4-5 million sites. This diversity is increasingly catalogued in repositories such as ExAC/gnomAD, consisting of >15,000 whole-genomes and >126,000 exom...

    Authors: Daniel Valenzuela, Tuukka Norri, Niko Välimäki, Esa Pitkänen and Veli Mäkinen
    Citation: BMC Genomics 2018 19(Suppl 2):87
  10. Genomes rearrangements carry valuable information for phylogenetic inference or the elucidation of molecular mechanisms of adaptation. However, the detection of genome rearrangements is often hampered by curre...

    Authors: Yoann Anselmetti, Wandrille Duchemin, Eric Tannier, Cedric Chauve and Sèverine Bérard
    Citation: BMC Genomics 2018 19(Suppl 2):96
  11. We developed a classifier using RNA sequencing data that identifies the usual interstitial pneumonia (UIP) pattern for the diagnosis of idiopathic pulmonary fibrosis. We addressed significant challenges, inclu...

    Authors: Yoonha Choi, Tiffany Ting Liu, Daniel G. Pankratz, Thomas V. Colby, Neil M. Barth, David A. Lynch, P. Sean Walsh, Ganesh Raghu, Giulia C. Kennedy and Jing Huang
    Citation: BMC Genomics 2018 19(Suppl 2):101
  12. Aquatic animals have great economic and ecological importance. Among them, non-model organisms have been studied regarding eco-toxicity, stress biology, and environmental adaptation. Due to recent advances in ...

    Authors: Chih-Hung Chou, Hsi-Yuan Huang, Wei-Chih Huang, Sheng-Da Hsu, Chung-Der Hsiao, Chia-Yu Liu, Yu-Hung Chen, Yu-Chen Liu, Wei-Yun Huang, Meng-Lin Lee, Yi-Chang Chen and Hsien-Da Huang
    Citation: BMC Genomics 2018 19(Suppl 2):103
  13. Inference of haplotypes, or the sequence of alleles along the same chromosomes, is a fundamental problem in genetics and is a key component for many analyses including admixture mapping, identifying regions of...

    Authors: Dan He, Subrata Saha, Richard Finkers and Laxmi Parida
    Citation: BMC Genomics 2018 19(Suppl 2):110

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