Professor CHAN Ting Fung

Address

(Office): Rm 177, Science Centre South Block
(Lab): Rm 113, Run Run Shaw Science Building

People TFC
 

Phone

(Office): (852) 3943 6876
(Lab): (852) 3943 1216

Fax (852) 2603 7246
Email This email address is being protected from spambots. You need JavaScript enabled to view it.
Web http://www.hkbic.cuhk.edu.hk/
 

 

Education

2003 Ph. D. Washington University School of Medicine
1997 B. Sc. University of Wisconsin-Madison

Position

  • Associate Professor, School of Life Sciences
  • Co-director, Hong Kong Bioinformatics Centre
  • Investigator, State Key Laboratory for Agrobiotechnology, CUHK
  • Associate Professor, Department of Computer Sciences and Engineering (by courtesy)
  • Associate Professor, CUHK-BGI Innovation Institute of Trans-omics
  • Associate Professor, Hong Kong Institute of Diabetes and Obesity

Research Interests

  • RNomics and bioinformatics in biological processes and diseases
  • Technology and algorithm development for genomics and transcriptomics

Representative Publications   * denotes corresponding author

  • Yuan Y, Scheben A, Edwards D, Chan TF*. (2021) Towards haplotype studies in polyploid plants to assist breeding. Mol Plant (in press)
  • Dumetz F, Chow EY, Harris LM, Umar MI, Jensen A, Chung B, Chan TF*, Merrick CJ*, Kwok CK*. (2021) G-quadruplex RNA motifs influence gene expression in the malaria parasite Plasmodium falciparum. Nucleic Acids Res. (in press)
  • Jin N, Lee HM, Hou Y, Yu ACS, Li JW, Kong, AP, Lam CC, Wong SK, Ng EK, Ma RC, Chan JC*, Chan TF*. (2021) Integratome analysis of adipose tissues reveals abnormal epigenetic regulation of adipogenesis, inflammation and insulin signaling in obese individuals with type 2 diabetes. Clin Transl Med. (in press)
  • Lyu K, Chow EY, Mou X, Chan TF*, Kwok CK*. (2021) RNA G-quadruplexes (rG4s): genomics and biological functions. Nucleic Acids Res. 49 (10), 5426-5450.
  • Yuan Y, Chung CY, Chan TF*. (2020) Advances in optical mapping for genomic research. Comput Struct Biotechnol J. 18:2051-2062.
  • Lin X, Lin W, Ku YS, Wong FL, Li MW, Lam HM*, Ngai SM*, Chan TF* (2020) Analysis of soybean long non-coding RNAs reveals a subset of novel small peptide-coding transcripts. Plant Physiol 182(3):1359-74.
  • Xie M, Chung CY, Li MW, Wong FL, Wang X, Liu A, Wang Z, Leung AK, Wong TH, Tong SW, Xiao Z, Fan K, Ng MS, Qi X, Yang L, Deng T, He L, Chen L, Fu A, Ding Q, He JX, Chung G, Isobe S, Tanabata T, Valliyodan B, Nguyen HT, Cannon SB, Foyer CH, Chan TF*, Lam HM* (2019) A reference grade wild soybean genome. Nat Commun 10(1):1216.
  • Levy-Sakin M, Pastor S, Mostovoy Y, Li L, Leung AK, McCaffrey J, Young E, Lam ET, Hastie AR, Wong KH, Chung CY, Ma W, Sibert J, Rajagopalan R, Jin N, Chow EY, Chu C, Poon A, Lin C, Naguib A, Wang WP, Cao H, Chan TF#, Yip KY#, Xiao M#, Kwok PY#. (2019) Genome maps across 26 human populations reveal population-specific patterns of structural variation. Nat Commun 10(1):1025. (# Co-senior authors)
  •  Li L, Leung AK, Kwok TP, Lai YYY, Pang IK, Chung GT, Mak ACY, Poon A, Chu C, Li M, Wu JJK, Lam ET, Cao H, Lin C, Sibert J, Yiu SM, Xiao M, Lo KW, Kwok PY, Chan TF*, Yip KY*. (2017) OMSV enables accurate and comprehensive identification of large structural variations from nanochannel-based single-molecule optical maps. Genome Biol. 18(1):230.
  • Leung AK, Kwok TP, Wan R, Xiao M, Kwok PY, Yip KY*, Chan TF*. (2017) OMBlast: alignment tool for optical mapping using a seed-and-extend approach. Bioinformatics 33(3):311-319.

Research Grants

  • 2019-2021, RGC Collaborative Research Fund C4057-18E, A nanochannel-based next-generation mapping system for the study of complex genomic feature and variation for biotechnological and biomedical applications (as PC), $2,173,431.
  • 2017-2025, UGC-Area of Excellence AoE/M-403/16, Center for Genomic Studies on Plant-Environment Interaction for Sustainable Agriculture and Food Security (as co-PI and Deputy Director), $75,591,000.
  • 2014-2017, GRF14102014, Integrative analyses of RNA-sequencing, bioinformatics and biological studies to define cancer-associated long intergenic noncoding RNAs in hepatocellular carcinoma, $749,433.
  • 2014-2018, RGC Theme-based research T12-401/13R, Systematic development of molecular targets for nasopharyngeal carcinoma (as co-PI), $55,610,000.
  • 2011-2016, RGC Theme-based research T12-403/11, The Liver Cancer Genome Project: translating genetic discoveries to clinical benefits (as co-PI), $45,000,000.
  • 2012-2015, GRF461712, In search of the missing heritability in complex diseases: whole transcriptome analysis of type 2 diabetes using a strand-specific RNA-sequencing approach, $784,020.
  • 2012-2014, HMRF 12110542, A single DNA molecule detection platform for pathogen typing and identification, $859,340.
  • 2011-2013, RFCID 11100512, Transcriptome analysis of the multidrug-resistant Acinetobacter baumannii by a strand-specific RNA-sequencing approach, $918,592.
  • 2011-2012, ITF UIM/206, A high performance computing solution to enable bioinformatics research, $1,142,180.
  • 2009-2011, GRF461809, Revisiting co-evolution theory of the genetic code from a whole-genome perspective: potential applications in synthetic biology, $709,264.
  • 2008-2011, GRF461708, Identification of genetic polymorphisms modulating natural variation in mRNA splicing in the human genome, $1,348,616.

Patents

  • Polynucleotide Barcoding; US Ser No. 10/976,546; USPTO Patent No. 7,829,278; Issued: Nov 09, 2010

Professional Activities

  • Associate Editor, Frontiers in Genetics
  • Associate Editor, Frontiers in Plant Science
  • Member, Human Genome Organisation (HUGO)
  • Member, The International Society for Computational Biology