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Publication date Communities Collections Article title Author(s) Journal/Conference
13 Mar 2025 BMRC Genome Institute of Singapore 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, Fei Yao, Yan Su, Hasindu Gamaarachchi, Andre Sim, Harshil Patel, Hwee Meng Low, Christopher Hendra, Laura Wratten, Christopher Hakkaart, 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, Alexander Lezhava, Ploy N. Pratanwanich, Michael I. Love, Wee Siong Sho Goh, Sarah B. Ng, Alicia Oshlack, , N. Gopalakrishna Iyer, Qiang Yu, Jonathan Göke Nature Methods
12 Jun 2023 BMRC Genome Institute of Singapore Context-aware transcript quantification from long-read RNA-seq data with Bambu Ying Chen, Andre Sim, Yuk Kei Wan, Keith Yeo, Joseph Jing Xian Lee, Min Hao Ling, Michael I. Love, Jonathan Göke Nature Methods
23 Sep 2021 BMRC Genome Institute of Singapore Reproducible, scalable, and shareable analysis pipelines with bioinformatics workflow managers Laura Wratten, Andreas Wilm, Jonathan Göke Nature Methods
25 Aug 2021 BMRC Institute of Molecular and Cell Biology Epigenetic promoter alterations in GI tumour immune-editing and resistance to immune checkpoint inhibition Raghav Sundar, Kie-Kyon Huang, Vikrant Kumar, Kalpana Ramnarayanan, Deniz Demircioğlu, Zhisheng Her, Xuewen Ong, Zul Fazreen Bin Adam Isa, Manjie Xing, Angie Lay-Keng Tan, David Wai Meng Tai, Su Pin Choo, Weiwei Zhai, Jia Qi Lim, Meghna Das Thakur, Luciana Molinero, Edward Cha, Marcella Fasso, Monica Niger, Filippo Pietrantonio, Jeeyun Lee, Anand D Jeyasekharan, Aditi Qamra, Radhika Patnala, Arne Fabritius, Mark De Simone, Joe Yeong, Cedric Chuan Young Ng, Sun Young Rha, Yukiya Narita, Kei Muro, Yu Amanda Guo, Anders Jacobsen Skanderup, Jimmy Bok Yan So, Wei Peng Yong, Qingfeng Chen, Jonathan Göke, Patrick Tan Gut
19 Jul 2021 BMRC Genome Institute of Singapore Identification of differential RNA modifications from nanopore direct RNA sequencing with xPore Ploy N. Pratanwanich, Fei Yao, Ying Chen, Casslynn W. Q. Koh, Yuk Kei Wan, Christopher Hendra, Polly Poon, Yeek Teck Goh, Phoebe M. L. Yap, Jing Yuan Chooi, Wee Joo Chng, Sarah B. Ng, Alexandre Thiery, W. S. Sho Goh, Jonathan Göke Nature Biotechnology
5 Sep 2019 BMRC Genome Institute of Singapore A Pan-cancer Transcriptome Analysis Reveals Pervasive Regulation through Alternative Promoters Deniz Demircioğlu, Engin Cukuroglu, Martin Kindermans, Tannistha Nandi, Claudia Calabrese, Nuno A. Fonseca, André Kahles, Kjong-Van Lehmann, Oliver Stegle, Alvis Brazma, Angela N. Brooks, Gunnar Rätsch, Patrick Tan, Jonathan Göke Cell
19 Jun 2018 BMRC Bioinformatics Institute SRSF3 maintains transcriptome integrity in oocytes by regulation of alternative splicing and transposable elements Dang Vinh Do, Bernhard Strauss, Engin Cukuroglu, Iain Macaulay, Keng Boon Wee, Tim Xiaoming Hu, Ruiz De Los Mozos Igor, Caroline Lee, Andrew Harrison, Richard Butler, Sabine Dietmann, Ule Jernej, John Marioni, Christopher W. J. Smith, Jonathan Göke, M. Azim Surani Cell Discovery
5 Jun 2014 BMRC Institute of Molecular and Cell Biology Klf2 Is an Essential Factor that Sustains Ground State Pluripotency Jia-Chi Yeo, Jianming Jiang, Zi-Ying Tan, Guo-Rong Yim, Jia-Hui Ng, Jonathan Göke, Petra Kraus, Hongqing Liang, Kevin Andrew Uy Gonzales, Han-Chung Chong, Cheng-Peow Tan, Yee-Siang Lim, Nguan-Soon Tan, Thomas Lufkin, Huck-Hui Ng Cell Stem Cell
8 Sep 2013 BMRC Genome Institute of Singapore SON connects the splicing-regulatory network with pluripotency in human embryonic stem cells Xinyi Lu, Jonathan Göke, Friedrich Sachs, Pierre-Étienne Jacques, Hongqing Liang, Bo Feng, Guillaume Bourque, Paula A. Bubulya, Huck-Hui Ng Nature Cell Biology
24 Mar 2013 BMRC Genome Institute of Singapore A PRC2-Dependent Repressive Role of PRDM14 in Human Embryonic Stem Cells and Induced Pluripotent Stem Cell Reprogramming Yun-Shen Chan, Jonathan Göke, Xinyi Lu, Nandini Venkatesan, Bo Feng, I-Hsin Su, Huck-Hui Ng STEM CELLS