scholarly journals Peer Review #2 of "Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition (v0.1)"

2014 ◽  
Keyword(s):  
Peer Review ◽  
Ion Torrent ◽  
Ion Torrent Pgm ◽  
Line Islands

scholarly journals Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition

PeerJ ◽  
2014 ◽  
Vol 2 ◽  
pp. e520 ◽  
Author(s):  
Yan Wei Lim ◽  
Daniel A. Cuevas ◽  
Genivaldo Gueiros Z. Silva ◽  
Kristen Aguinaldo ◽  
Elizabeth A. Dinsdale ◽  
...  
Keyword(s):  
Ion Torrent ◽  
Ion Torrent Pgm ◽  
Line Islands

scholarly journals Sequencing at sea: Challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition

2014 ◽  
Author(s):  
Yan Wei Lim ◽  
Daniel A Cuevas ◽  
Genivaldo Gueiros Z. Silva ◽  
Kristen Aguinaldo ◽  
Elizabeth Dinsdale ◽  
...  
Keyword(s):  
Ion Torrent ◽  
Microbial Genomes ◽  
Ion Torrent Pgm ◽  
Remote Locations ◽  
Microbial Ecosystems ◽  
The Pacific ◽  
The Pacific Ocean ◽  
Line Islands ◽  
Generation Sequencing

Genomics and metagenomics have revolutionized our understanding of marine microbial ecology and the importance of microbes in global geochemical cycles. However, the process of DNA sequencing has always been an abstract extension of the research expedition, completed once the samples were returned to the laboratory. During the 2013 Southern Line Islands Research Expedition, we started the first effort to bring next generation sequencing to some of the most remote locations on our planet. We successfully sequenced twenty six marine microbial genomes, and two marine microbial metagenomes using the Ion Torrent PGM platform on the Merchant Yacht Hanse Explorer. Onboard sequence assembly, annotation, and analysis enabled us to investigate the role of the microbes in the coral reef ecology of these islands and atolls. This analysis identified phospohonate as an important phosphorous source for microbes growing in the Line Islands and reinforced the importance of L-serine in marine microbial ecosystems. Sequencing in the field allowed us to propose hypotheses and conduct experiments and further sampling based on the sequences generated. By eliminating the delay between sampling and sequencing, we enhanced the productivity of the research expedition. By overcoming the hurdles associated with sequencing on a boat in the middle of the Pacific Ocean we proved the flexibility of the sequencing, annotation, and analysis pipelines.

scholarly journals Sequencing at sea: Challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition

2014 ◽  
Author(s):  
Yan Wei Lim ◽  
Daniel A Cuevas ◽  
Genivaldo Gueiros Z. Silva ◽  
Kristen Aguinaldo ◽  
Elizabeth Dinsdale ◽  
...  
Keyword(s):  
Ion Torrent ◽  
Microbial Genomes ◽  
Ion Torrent Pgm ◽  
Remote Locations ◽  
Microbial Ecosystems ◽  
The Pacific ◽  
The Pacific Ocean ◽  
Line Islands ◽  
Generation Sequencing

Genomics and metagenomics have revolutionized our understanding of marine microbial ecology and the importance of microbes in global geochemical cycles. However, the process of DNA sequencing has always been an abstract extension of the research expedition, completed once the samples were returned to the laboratory. During the 2013 Southern Line Islands Research Expedition, we started the first effort to bring next generation sequencing to some of the most remote locations on our planet. We successfully sequenced twenty six marine microbial genomes, and two marine microbial metagenomes using the Ion Torrent PGM platform on the Merchant Yacht Hanse Explorer. Onboard sequence assembly, annotation, and analysis enabled us to investigate the role of the microbes in the coral reef ecology of these islands and atolls. This analysis identified phospohonate as an important phosphorous source for microbes growing in the Line Islands and reinforced the importance of L-serine in marine microbial ecosystems. Sequencing in the field allowed us to propose hypotheses and conduct experiments and further sampling based on the sequences generated. By eliminating the delay between sampling and sequencing, we enhanced the productivity of the research expedition. By overcoming the hurdles associated with sequencing on a boat in the middle of the Pacific Ocean we proved the flexibility of the sequencing, annotation, and analysis pipelines.

An SNP panel for the analysis of paternally inherited alleles in maternal plasma using ion Torrent PGM

2017 ◽  
Vol 132 (2) ◽  
pp. 343-352 ◽  
Author(s):  
Donggui Yang ◽  
Hao Liang ◽  
Shaobin Lin ◽  
Qing Li ◽  
Xiaoyan Ma ◽  
...  
Keyword(s):  
Maternal Plasma ◽  
Ion Torrent ◽  
Ion Torrent Pgm ◽  
Snp Panel

scholarly journals A comparison between SOLiD 5500XLand Ion Torrent PGM-derived miRNA expression profiles in two breast cell lines

2020 ◽  
Vol 43 (2) ◽  
Author(s):  
Gabriela Pereira Branco ◽  
Renan Valieris ◽  
Lucas Venezian Povoa ◽  
Luiza Ferreira de Araújo ◽  
Gustavo Ribeiro Fernandes ◽  
...  
Keyword(s):  
Cell Lines ◽  
Mirna Expression ◽  
Expression Profiles ◽  
Ion Torrent ◽  
Ion Torrent Pgm ◽  
Breast Cell Lines ◽  
Mirna Expression Profiles
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