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  1. Content type: Editorial

    With the publication of the first eukaryotic species description, combining transcriptomic, DNA barcoding, and micro-CT imaging data, GigaScience and Pensoft demonstrate how classical taxonomic description of a n...

    Authors: Scott C Edmunds, Chris I Hunter, Vincent Smith, Pavel Stoev and Lyubomir Penev

    Citation: GigaScience 2013 2:14

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  2. Content type: Commentary

    The application of reporting standards in metabolomics allow data from different laboratories to be shared, integrated and interpreted. Although minimum reporting standards related to metabolite identification...

    Authors: Reza M Salek, Christoph Steinbeck, Mark R Viant, Royston Goodacre and Warwick B Dunn

    Citation: GigaScience 2013 2:13

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  3. Content type: Research

    The process of generating raw genome sequence data continues to become cheaper, faster, and more accurate. However, assembly of such data into high-quality, finished genome sequences remains challenging. Many ...

    Authors: Keith R Bradnam, Joseph N Fass, Anton Alexandrov, Paul Baranay, Michael Bechner, Inanç Birol, Sébastien Boisvert, Jarrod A Chapman, Guillaume Chapuis, Rayan Chikhi, Hamidreza Chitsaz, Wen-Chi Chou, Jacques Corbeil, Cristian Del Fabbro, T Roderick Docking, Richard Durbin…

    Citation: GigaScience 2013 2:10

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  4. Content type: Review

    Analyzing and storing data and results from next-generation sequencing (NGS) experiments is a challenging task, hampered by ever-increasing data volumes and frequent updates of analysis methods and tools. Stor...

    Authors: Samuel Lampa, Martin Dahlö, Pall I Olason, Jonas Hagberg and Ola Spjuth

    Citation: GigaScience 2013 2:9

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  5. Content type: Review

    An increasing portion of biomedical research relies on the use of biobanks and databases. Sharing of such resources is essential for optimizing knowledge production. A major obstacle for sharing bioresources i...

    Authors: Laurence Mabile, Raymond Dalgleish, Gudmundur A Thorisson, Mylène Deschênes, Robert Hewitt, Jane Carpenter, Elena Bravo, Mirella Filocamo, Pierre Antoine Gourraud, Jennifer R Harris, Paul Hofman, Francine Kauffmann, Maria Angeles Muñoz-Fernàndez, Markus Pasterk and Anne Cambon-Thomsen

    Citation: GigaScience 2013 2:7

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  6. Content type: Data Note

    Since its inception over twenty years ago, functional magnetic resonance imaging (fMRI) has been used in numerous studies probing neural underpinnings of human cognition. However, the between session variance ...

    Authors: Krzysztof J Gorgolewski, Amos Storkey, Mark E Bastin, Ian R Whittle, Joanna M Wardlaw and Cyril R Pernet

    Citation: GigaScience 2013 2:6

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  7. Content type: Commentary

    Next-generation sequencing machines produce large quantities of data which are becoming increasingly difficult to move between collaborating organisations or even store within a single organisation. Compressin...

    Authors: Richard CG Holland and Nick Lynch

    Citation: GigaScience 2013 2:5

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  8. Content type: Research

    Next-generation-sequencing (NGS) technologies combined with a classic DNA barcoding approach have enabled fast and credible measurement for biodiversity of mixed environmental samples. However, the PCR amplifi...

    Authors: Xin Zhou, Yiyuan Li, Shanlin Liu, Qing Yang, Xu Su, Lili Zhou, Min Tang, Ribei Fu, Jiguang Li and Quanfei Huang

    Citation: GigaScience 2013 2:4

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  9. Content type: Technical Note

    Although high-throughput sequencing of small subunit rRNA genes has revolutionized our understanding of microbial ecosystems, these technologies generate data at depths that benefit from automated analysis. He...

    Authors: Michael DJ Lynch, Andre P Masella, Michael W Hall, Andrea K Bartram and Josh D Neufeld

    Citation: GigaScience 2013 2:3

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  10. Content type: Commentary

    Ash dieback is a devastating fungal disease of ash trees that has swept across Europe and recently reached the UK. This emergent pathogen has received little study in the past and its effect threatens to overw...

    Authors: Dan MacLean, Kentaro Yoshida, Anne Edwards, Lisa Crossman, Bernardo Clavijo, Matt Clark, David Swarbreck, Matthew Bashton, Patrick Chapman, Mark Gijzen, Mario Caccamo, Allan Downie, Sophien Kamoun and Diane GO Saunders

    Citation: GigaScience 2013 2:2

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  11. Content type: Editorial

    Fostering and promoting more open and transparent science is one of the goals of GigaScience. One of the ways we have been doing this is by throwing light on the peer-review process and carrying out open peer-rev...

    Authors: Scott C Edmunds

    Citation: GigaScience 2013 2:1

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  12. Content type: Technical Note

    There is a rapidly increasing amount of de novo genome assembly using next-generation sequencing (NGS) short reads; however, several big challenges remain to be overcome in order for this to be efficient and accu...

    Authors: Ruibang Luo, Binghang Liu, Yinlong Xie, Zhenyu Li, Weihua Huang, Jianying Yuan, Guangzhu He, Yanxiang Chen, Qi Pan, Yunjie Liu, Jingbo Tang, Gengxiong Wu, Hao Zhang, Yujian Shi, Yong Liu, Chang Yu…

    Citation: GigaScience 2012 1:18

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    The Erratum to this article has been published in GigaScience 2015 4:30

  13. Content type: Research

    The pig is an economically important food source, amounting to approximately 40% of all meat consumed worldwide. Pigs also serve as an important model organism because of their similarity to humans at the anat...

    Authors: Xiaodong Fang, Yulian Mou, Zhiyong Huang, Yong Li, Lijuan Han, Yanfeng Zhang, Yue Feng, Yuanxin Chen, Xuanting Jiang, Wei Zhao, Xiaoqing Sun, Zhiqiang Xiong, Lan Yang, Huan Liu, Dingding Fan, Likai Mao…

    Citation: GigaScience 2012 1:16

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  14. Content type: Commentary

    Cheap prices for genomic testing have revolutionized consumers’ access to personal genomics. Exploration of personal genomes poses significant challenges for customers wishing to learn beyond provider customer...

    Authors: Manuel Corpas

    Citation: GigaScience 2012 1:15

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  15. Content type: Data Note

    Amazona vittata is a critically endangered Puerto Rican endemic bird, the only surviving native parrot species in the United States territory, and the first parrot in the large Neotropical genus Amazona, to be s...

    Authors: Taras K Oleksyk, Jean-Francois Pombert, Daniel Siu, Anyimilehidi Mazo-Vargas, Brian Ramos, Wilfried Guiblet, Yashira Afanador, Christina T Ruiz-Rodriguez, Michael L Nickerson, David M Logue, Michael Dean, Luis Figueroa, Ricardo Valentin and Juan-Carlos Martinez-Cruzado

    Citation: GigaScience 2012 1:14

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  16. Content type: Research

    Cancers arise through an evolutionary process in which cell populations are subjected to selection; however, to date, the process of bladder cancer, which is one of the most common cancers in the world, remain...

    Authors: Yingrui Li, Xun Xu, Luting Song, Yong Hou, Zesong Li, Shirley Tsang, Fuqiang Li, Kate McGee Im, Kui Wu, Hanjie Wu, Xiaofei Ye, Guibo Li, Linlin Wang, Bo Zhang, Jie Liang, Wei Xie…

    Citation: GigaScience 2012 1:12

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  17. Content type: Research

    Methylated DNA immunoprecipitation (MeDIP) is a popular enrichment based method and can be combined with sequencing (termed MeDIP-seq) to interrogate the methylation status of cytosines across entire genomes. ...

    Authors: Gareth A Wilson, Pawandeep Dhami, Andrew Feber, Daniel Cortázar, Yuka Suzuki, Reiner Schulz, Primo Schär and Stephan Beck

    Citation: GigaScience 2012 1:3

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  18. Content type: Review

    The recent rise in speed and efficiency of new sequencing technologies have facilitated high-throughput sequencing, assembly and analyses of genomes, advancing ongoing efforts to analyze genetic sequences acro...

    Authors: Pamela BY Wong, Edward O Wiley, Warren E Johnson, Oliver A Ryder, Stephen J O’Brien, David Haussler, Klaus-Peter Koepfli, Marlys L Houck, Polina Perelman, Gabriela Mastromonaco, Andrew C Bentley, Byrappa Venkatesh, Ya-ping Zhang and Robert W Murphy

    Citation: GigaScience 2012 1:8

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  19. Content type: Review

    Archives operating under the International Nucleotide Sequence Database Collaboration currently preserve all submitted sequences equally, but rapid increases in the rate of global sequence production will soon...

    Authors: Guy Cochrane, Charles E Cook and Ewan Birney

    Citation: GigaScience 2012 1:2

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  20. Content type: Technical Note

    We present the Biological Observation Matrix (BIOM, pronounced “biome”) format: a JSON-based file format for representing arbitrary observation by sample contingency tables with associated sample and observati...

    Authors: Daniel McDonald, Jose C Clemente, Justin Kuczynski, Jai Ram Rideout, Jesse Stombaugh, Doug Wendel, Andreas Wilke, Susan Huse, John Hufnagle, Folker Meyer, Rob Knight and J Gregory Caporaso

    Citation: GigaScience 2012 1:7

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  21. Content type: Review

    We are entering a new era in genomics–that of large-scale, place-based, highly contextualized genomic research. Here we review this emerging paradigm shift and suggest that sites of utmost scientific importanc...

    Authors: Neil Davies, Chris Meyer, Jack A Gilbert, Linda Amaral-Zettler, John Deck, Mesude Bicak, Philippe Rocca-Serra, Susanna Assunta-Sansone, Kathy Willis and Dawn Field

    Citation: GigaScience 2012 1:5

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  22. Content type: Commentary

    Driven by million-fold improvements in biotechnology, biology is increasingly shifting towards high-resolution, quantitative approaches to study the molecular dynamics of entire populations. One exciting appli...

    Authors: Michael C Schatz and Adam M Phillippy

    Citation: GigaScience 2012 1:4

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  23. Content type: Editorial

    With the launch of GigaScience journal, here we provide insight into the accompanying database Giga DB, which allows the integration of manuscript publication with supporting data and tools. Reinforcing and uphol...

    Authors: Tam P Sneddon, Peter Li and Scott C Edmunds

    Citation: GigaScience 2012 1:11

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  24. Content type: Commentary

    There is growing recognition of the importance of data sharing in the neurosciences, and in particular in the field of neuroimaging research, in order to best make use of the volumes of human subject data that...

    Authors: Janis L Breeze, Jean-Baptiste Poline and David N Kennedy

    Citation: GigaScience 2012 1:9

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  25. Content type: Editorial

    We are delighted to announce the launch of GigaScience, an online open-access journal that focuses on research using or producing large datasets in all areas of biological and biomedical sciences. GigaScience is ...

    Authors: Laurie Goodman, Scott C Edmunds and Alexandra T Basford

    Citation: GigaScience 2012 1:1

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  26. Content type: Commentary

    Languages and cultures, like organisms, are constantly evolving. Words, like genes, can come and go–spreading around or going extinct. Here I discuss the spread of one small subset of words that are meant to c...

    Authors: Jonathan A Eisen

    Citation: GigaScience 2012 1:6

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