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A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines
View ORCID ProfileYing Chen, Nadia M. Davidson, Yuk Kei Wan, Harshil Patel, Fei Yao, Hwee Meng Low, Christopher Hendra, Laura Watten, Andre Sim, Chelsea Sawyer, Viktoriia Iakovleva, Puay Leng Lee, Lixia Xin, Hui En Vanessa Ng, Jia Min Loo, Xuewen Ong, Hui Qi Amanda Ng, Jiaxu Wang, Wei Qian Casslynn Koh, Suk Yeah Polly Poon, Dominik Stanojevic, Hoang-Dai Tran, Kok Hao Edwin Lim, Shen Yon Toh, Philip Andrew Ewels, Huck-Hui Ng, N.Gopalakrishna Iyer, Alexandre Thiery, Wee Joo Chng, Leilei Chen, Ramanuj DasGupta, Mile Sikic, Yun-Shen Chan, Boon Ooi Patrick Tan, Yue Wan, Wai Leong Tam, Qiang Yu, Chiea Chuan Khor, Torsten Wüstefeld, Ploy N. Pratanwanich, Michael I. Love, Wee Siong Sho Goh, Sarah B. Ng, Alicia Oshlack, View ORCID ProfileJonathan Göke, SG-NEx consortium
doi: https://doi.org/10.1101/2021.04.21.440736
Ying Chen
1Genome Institute of Singapore, Singapore, Singapore
Nadia M. Davidson
2Peter MacCallum Cancer Centre, Melbourne, VIC, Australia
3School of BioSciences, The University of Melbourne, Parkville, Victoria, Australia
Yuk Kei Wan
1Genome Institute of Singapore, Singapore, Singapore
Harshil Patel
4Bioinformatics and Biostatistics, The Francis Crick Institute, London, UK
Fei Yao
1Genome Institute of Singapore, Singapore, Singapore
Hwee Meng Low
1Genome Institute of Singapore, Singapore, Singapore
Christopher Hendra
1Genome Institute of Singapore, Singapore, Singapore
5Institute of Data Science, National University of Singapore, Singapore
Laura Watten
1Genome Institute of Singapore, Singapore, Singapore
Andre Sim
1Genome Institute of Singapore, Singapore, Singapore
Chelsea Sawyer
4Bioinformatics and Biostatistics, The Francis Crick Institute, London, UK
Viktoriia Iakovleva
1Genome Institute of Singapore, Singapore, Singapore
6Department of Medicine, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117597, Singapore
Puay Leng Lee
1Genome Institute of Singapore, Singapore, Singapore
Lixia Xin
1Genome Institute of Singapore, Singapore, Singapore
Hui En Vanessa Ng
7Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore
Jia Min Loo
1Genome Institute of Singapore, Singapore, Singapore
Xuewen Ong
8Cancer and Stem Cell Biology Program, Duke-NUS Medical School, Singapore, Singapore
Hui Qi Amanda Ng
1Genome Institute of Singapore, Singapore, Singapore
Jiaxu Wang
1Genome Institute of Singapore, Singapore, Singapore
Wei Qian Casslynn Koh
1Genome Institute of Singapore, Singapore, Singapore
Suk Yeah Polly Poon
1Genome Institute of Singapore, Singapore, Singapore
Dominik Stanojevic
1Genome Institute of Singapore, Singapore, Singapore
9Department of Electronic Systems and Information Processing, Faculty of Electrical Engineering and Computing, University of Zagreb, Croatia
Hoang-Dai Tran
1Genome Institute of Singapore, Singapore, Singapore
Kok Hao Edwin Lim
1Genome Institute of Singapore, Singapore, Singapore
Shen Yon Toh
10National Cancer Centre Singapore, Singapore, Singapore
Philip Andrew Ewels
11Science for Life Laboratory (SciLifeLab), Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
Huck-Hui Ng
1Genome Institute of Singapore, Singapore, Singapore
N.Gopalakrishna Iyer
10National Cancer Centre Singapore, Singapore, Singapore
12Duke-NUS Medical School, Singapore, Singapore
Alexandre Thiery
13Department of Statistics and Applied Probability, National University of Singapore, Singapore, 117546, Singapore
Wee Joo Chng
6Department of Medicine, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117597, Singapore
7Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore
14Department of Hematology-Oncology, National University Cancer Institute of Singapore, National University Health System, Singapore, 119228, Singapore
Leilei Chen
7Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore
15Department of Anatomy, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117594, Singapore
Ramanuj DasGupta
1Genome Institute of Singapore, Singapore, Singapore
Mile Sikic
1Genome Institute of Singapore, Singapore, Singapore
9Department of Electronic Systems and Information Processing, Faculty of Electrical Engineering and Computing, University of Zagreb, Croatia
Yun-Shen Chan
1Genome Institute of Singapore, Singapore, Singapore
Boon Ooi Patrick Tan
1Genome Institute of Singapore, Singapore, Singapore
7Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore
8Cancer and Stem Cell Biology Program, Duke-NUS Medical School, Singapore, Singapore
Yue Wan
1Genome Institute of Singapore, Singapore, Singapore
Wai Leong Tam
1Genome Institute of Singapore, Singapore, Singapore
7Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore
16Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117597, Singapore
17School of Biological Sciences, Nanyang Technological University, Singapore 637551, Singapore
Qiang Yu
1Genome Institute of Singapore, Singapore, Singapore
Chiea Chuan Khor
1Genome Institute of Singapore, Singapore, Singapore
12Duke-NUS Medical School, Singapore, Singapore
18Singapore Eye Research Institute, Singapore, 119228, Singapore
Torsten Wüstefeld
1Genome Institute of Singapore, Singapore, Singapore
10National Cancer Centre Singapore, Singapore, Singapore
14Department of Hematology-Oncology, National University Cancer Institute of Singapore, National University Health System, Singapore, 119228, Singapore
Ploy N. Pratanwanich
1Genome Institute of Singapore, Singapore, Singapore
19Department of Mathematics and Computer Science, Faculty of Science, Chulalongkorn University, Thailand
20Chula Intelligent and Complex Systems Research Unit, Chulalongkorn University, Thailand
Michael I. Love
21Department of Biostatistics, University of North Carolina-Chapel Hill, Chapel Hill, USA
22Department of Genetics, University of North Carolina-Chapel Hill, Chapel Hill, USA
Wee Siong Sho Goh
1Genome Institute of Singapore, Singapore, Singapore
23Shenzhen Bay Laboratory, Shenzhen, Guangdong, China
Sarah B. Ng
1Genome Institute of Singapore, Singapore, Singapore
Alicia Oshlack
2Peter MacCallum Cancer Centre, Melbourne, VIC, Australia
24The Sir Peter MacCallum Department of Oncology, University of Melbourne, Parkville, VIC, Australia
Jonathan Göke
1Genome Institute of Singapore, Singapore, Singapore
10National Cancer Centre Singapore, Singapore, Singapore
Posted April 22, 2021.
A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines
Ying Chen, Nadia M. Davidson, Yuk Kei Wan, Harshil Patel, Fei Yao, Hwee Meng Low, Christopher Hendra, Laura Watten, Andre Sim, Chelsea Sawyer, Viktoriia Iakovleva, Puay Leng Lee, Lixia Xin, Hui En Vanessa Ng, Jia Min Loo, Xuewen Ong, Hui Qi Amanda Ng, Jiaxu Wang, Wei Qian Casslynn Koh, Suk Yeah Polly Poon, Dominik Stanojevic, Hoang-Dai Tran, Kok Hao Edwin Lim, Shen Yon Toh, Philip Andrew Ewels, Huck-Hui Ng, N.Gopalakrishna Iyer, Alexandre Thiery, Wee Joo Chng, Leilei Chen, Ramanuj DasGupta, Mile Sikic, Yun-Shen Chan, Boon Ooi Patrick Tan, Yue Wan, Wai Leong Tam, Qiang Yu, Chiea Chuan Khor, Torsten Wüstefeld, Ploy N. Pratanwanich, Michael I. Love, Wee Siong Sho Goh, Sarah B. Ng, Alicia Oshlack, Jonathan Göke, SG-NEx consortium
bioRxiv 2021.04.21.440736; doi: https://doi.org/10.1101/2021.04.21.440736
A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines
Ying Chen, Nadia M. Davidson, Yuk Kei Wan, Harshil Patel, Fei Yao, Hwee Meng Low, Christopher Hendra, Laura Watten, Andre Sim, Chelsea Sawyer, Viktoriia Iakovleva, Puay Leng Lee, Lixia Xin, Hui En Vanessa Ng, Jia Min Loo, Xuewen Ong, Hui Qi Amanda Ng, Jiaxu Wang, Wei Qian Casslynn Koh, Suk Yeah Polly Poon, Dominik Stanojevic, Hoang-Dai Tran, Kok Hao Edwin Lim, Shen Yon Toh, Philip Andrew Ewels, Huck-Hui Ng, N.Gopalakrishna Iyer, Alexandre Thiery, Wee Joo Chng, Leilei Chen, Ramanuj DasGupta, Mile Sikic, Yun-Shen Chan, Boon Ooi Patrick Tan, Yue Wan, Wai Leong Tam, Qiang Yu, Chiea Chuan Khor, Torsten Wüstefeld, Ploy N. Pratanwanich, Michael I. Love, Wee Siong Sho Goh, Sarah B. Ng, Alicia Oshlack, Jonathan Göke, SG-NEx consortium
bioRxiv 2021.04.21.440736; doi: https://doi.org/10.1101/2021.04.21.440736
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