Generalized and scalable trajectory inference in single-cell omics data with VIA
Stassen, Shobana V., Yip, Gwinky G. K., Wong, Kenneth K. Y., Ho, Joshua W. K., Tsia, Kevin K.
Published in Nature communications (20.09.2021)
Published in Nature communications (20.09.2021)
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Journal Article
iSyTE 2.0: a database for expression-based gene discovery in the eye
Kakrana, Atul, Yang, Andrian, Anand, Deepti, Djordjevic, Djordje, Ramachandruni, Deepti, Singh, Abhyudai, Huang, Hongzhan, Ho, Joshua W K, Lachke, Salil A
Published in Nucleic acids research (04.01.2018)
Published in Nucleic acids research (04.01.2018)
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Journal Article
DCATS: differential composition analysis for flexible single-cell experimental designs
Lin, Xinyi, Chau, Chuen, Ma, Kun, Huang, Yuanhua, Ho, Joshua W K
Published in Genome Biology (26.06.2023)
Published in Genome Biology (26.06.2023)
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Journal Article
StaVia: spatially and temporally aware cartography with higher-order random walks for cell atlases
Stassen, Shobana V, Kobashi, Minato, Lam, Edmund Y, Huang, Yuanhua, Ho, Joshua W K, Tsia, Kevin K
Published in Genome Biology (16.08.2024)
Published in Genome Biology (16.08.2024)
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Journal Article
MQuad enables clonal substructure discovery using single cell mitochondrial variants
Kwok, Aaron Wing Cheung, Qiao, Chen, Huang, Rongting, Sham, Mai-Har, Ho, Joshua W. K., Huang, Yuanhua
Published in Nature communications (08.03.2022)
Published in Nature communications (08.03.2022)
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Journal Article
Altered human gut virome in patients undergoing antibiotics therapy for Helicobacter pylori
Wang, Lingling, Yao, Haobin, Morgan, Daniel C., Lau, Kam Shing, Leung, Suet Yi, Ho, Joshua W. K., Leung, Wai K.
Published in Nature communications (17.04.2023)
Published in Nature communications (17.04.2023)
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Journal Article
Automatic flow delay through passive wax valves for paper-based analytical devices
Meng, Haixu, Chen, Chang, Zhu, Yonggang, Li, Zhengtu, Ye, Feng, Ho, Joshua W. K, Chen, Huaying
Published in Lab on a chip (26.10.2021)
Published in Lab on a chip (26.10.2021)
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Journal Article
Multi-omic profiling reveals associations between the gut mucosal microbiome, the metabolome, and host DNA methylation associated gene expression in patients with colorectal cancer
Wang, Qing, Ye, Jianzhong, Fang, Daiqiong, Lv, Longxian, Wu, Wenrui, Shi, Ding, Li, Yating, Yang, Liya, Bian, Xiaoyuan, Wu, Jingjing, Jiang, Xianwan, Wang, Kaicen, Wang, Qiangqiang, Hodson, Mark P, Thibaut, Loïc M, Ho, Joshua W K, Giannoulatou, Eleni, Li, Lanjuan
Published in BMC microbiology (23.04.2020)
Published in BMC microbiology (23.04.2020)
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Journal Article
Assessment of Intratumoral and Peritumoral Computed Tomography Radiomics for Predicting Pathological Complete Response to Neoadjuvant Chemoradiation in Patients With Esophageal Squamous Cell Carcinoma
Hu, Yihuai, Xie, Chenyi, Yang, Hong, Ho, Joshua W K, Wen, Jing, Han, Lujun, Chiu, Keith W H, Fu, Jianhua, Vardhanabhuti, Varut
Published in JAMA network open (01.09.2020)
Published in JAMA network open (01.09.2020)
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Inferring cell diversity in single cell data using consortium-scale epigenetic data as a biological anchor for cell identity
Sun, Yuliangzi, Shim, Woo Jun, Shen, Sophie, Sinniah, Enakshi, Pham, Duy, Su, Zezhuo, Mizikovsky, Dalia, White, Melanie D, Ho, Joshua W K, Nguyen, Quan, Bodén, Mikael, Palpant, Nathan J
Published in Nucleic acids research (23.06.2023)
Published in Nucleic acids research (23.06.2023)
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Journal Article
Light-focusing human micro-lenses generated from pluripotent stem cells model lens development and drug-induced cataract in vitro
Murphy, Patricia, Kabir, Md Humayun, Srivastava, Tarini, Mason, Michele E, Dewi, Chitra U, Lim, Seakcheng, Yang, Andrian, Djordjevic, Djordje, Killingsworth, Murray C, Ho, Joshua W K, Harman, David G, O'Connor, Michael D
Published in Development (Cambridge) (01.01.2018)
Published in Development (Cambridge) (01.01.2018)
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Journal Article
An innovative approach for testing bioinformatics programs using metamorphic testing
Chen, Tsong Yueh, Ho, Joshua W K, Liu, Huai, Xie, Xiaoyuan
Published in BMC bioinformatics (19.01.2009)
Published in BMC bioinformatics (19.01.2009)
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Journal Article
PARC: ultrafast and accurate clustering of phenotypic data of millions of single cells
Stassen, Shobana V, Siu, Dickson M D, Lee, Kelvin C M, Ho, Joshua W K, So, Hayden K H, Tsia, Kevin K
Published in Bioinformatics (01.05.2020)
Published in Bioinformatics (01.05.2020)
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Journal Article
Testing and validating machine learning classifiers by metamorphic testing
Xie, Xiaoyuan, Ho, Joshua W.K., Murphy, Christian, Kaiser, Gail, Xu, Baowen, Chen, Tsong Yueh
Published in The Journal of systems and software (01.04.2011)
Published in The Journal of systems and software (01.04.2011)
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Journal Article
Machine learning-coupled combinatorial mutagenesis enables resource-efficient engineering of CRISPR-Cas9 genome editor activities
Thean, Dawn G. L., Chu, Hoi Yee, Fong, John H. C., Chan, Becky K. C., Zhou, Peng, Kwok, Cynthia C. S., Chan, Yee Man, Mak, Silvia Y. L., Choi, Gigi C. G., Ho, Joshua W. K., Zheng, Zongli, Wong, Alan S. L.
Published in Nature communications (25.04.2022)
Published in Nature communications (25.04.2022)
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Journal Article
Cloud accelerated alignment and assembly of full-length single-cell RNA-seq data using Falco
Yang, Andrian, Kishore, Abhinav, Phipps, Benjamin, Ho, Joshua W K
Published in BMC genomics (30.12.2019)
Published in BMC genomics (30.12.2019)
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Journal Article
ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis
Ho, Joshua W K, Bishop, Eric, Karchenko, Peter V, Nègre, Nicolas, White, Kevin P, Park, Peter J
Published in BMC genomics (28.02.2011)
Published in BMC genomics (28.02.2011)
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