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TingFung Chan - Publications

Affiliations: 
University of California, San Francisco, San Francisco, CA 
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41 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Swidah R, Auxillos J, Liu W, Jones S, Chan TF, Dai J, Cai Y. SCRaMbLE-in: A Fast and Efficient Method to Diversify and Improve the Yields of Heterologous Pathways in Synthetic Yeast. Methods in Molecular Biology (Clifton, N.J.). 2205: 305-327. PMID 32809206 DOI: 10.1007/978-1-0716-0908-8_17  0.368
2020 Yuan Y, Chung CY, Chan TF. Advances in optical mapping for genomic research. Computational and Structural Biotechnology Journal. 18: 2051-2062. PMID 32802277 DOI: 10.1016/J.Csbj.2020.07.018  0.384
2020 Chow EY, Lyu K, Kwok CK, Chan TF. rG4-seeker enables high-confidence identification of novel and non-canonical rG4 motifs from rG4-seq experiments. Rna Biology. 1-15. PMID 32338139 DOI: 10.1080/15476286.2020.1740470  0.365
2019 Yu AC, Yim AK, Chan AY, Yuen LYP, Au WC, Cheng THT, Lin X, Li JW, Chan LWL, Mok VCT, Chan TF, Chan HYE. A Targeted Gene Panel That Covers Coding, Non-coding and Short Tandem Repeat Regions Improves the Diagnosis of Patients With Neurodegenerative Diseases. Frontiers in Neuroscience. 13: 1324. PMID 31920494 DOI: 10.3389/Fnins.2019.01324  0.331
2019 Lin X, Lin W, Ku YS, Wong FL, Li MW, Lam HM, Ngai SM, Chan TF. Analysis of Soybean Long Non-coding RNAs Reveals a Subset of Small Peptide-Coding Transcripts. Plant Physiology. PMID 31882456 DOI: 10.1104/Pp.19.01324  0.346
2019 Valliyodan B, Cannon SB, Bayer PE, Shu S, Brown AV, Ren L, Jenkins J, Chung CY, Chan TF, Daum CG, Plott C, Hastie A, Baruch K, Barry KW, Huang W, et al. Construction and comparison of three reference-quality genome assemblies for soybean. The Plant Journal : For Cell and Molecular Biology. PMID 31433882 DOI: 10.1111/Tpj.14500  0.361
2019 Leung AK, Liu MC, Li L, Lai YY, Chu C, Kwok PY, Ho PL, Yip KY, Chan TF. OMMA enables population-scale analysis of complex genomic features and phylogenomic relationships from nanochannel-based optical maps. Gigascience. 8. PMID 31289833 DOI: 10.1093/Gigascience/Giz079  0.569
2019 Yeung PY, Zhao J, Chow EY, Mou X, Hong H, Chen L, Chan TF, Kwok CK. Systematic evaluation and optimization of the experimental steps in RNA G-quadruplex structure sequencing. Scientific Reports. 9: 8091. PMID 31147619 DOI: 10.1038/S41598-019-44541-4  0.348
2019 Lin X, Ni M, Xiao Z, Chan TF, Lam HM. Reference-Based Identification of Long Noncoding RNAs in Plants with Strand-Specific RNA-Sequencing Data. Methods in Molecular Biology (Clifton, N.J.). 1933: 245-255. PMID 30945189 DOI: 10.1007/978-1-4939-9045-0_14  0.336
2019 Levy-Sakin M, Pastor S, Mostovoy Y, Li L, Leung AKY, McCaffrey J, Young E, Lam ET, Hastie AR, Wong KHY, Chung CYL, Ma W, Sibert J, Rajagopalan R, Jin N, ... ... Chan TF, et al. Genome maps across 26 human populations reveal population-specific patterns of structural variation. Nature Communications. 10: 1025. PMID 30833565 DOI: 10.1038/S41467-019-08992-7  0.665
2018 Nawaz MA, Lin X, Chan TF, Imtiaz M, Rehman HM, Ali MA, Baloch FS, Atif RM, Yang SH, Chung G. Characterization of Cellulose Synthase A (CESA) Gene Family in Eudicots. Biochemical Genetics. PMID 30267258 DOI: 10.1007/S10528-018-9888-Z  0.333
2018 Jiao J, Ni M, Zhang B, Zhang Z, Young JPW, Chan TF, Chen WX, Lam HM, Tian CF. Coordinated regulation of core and accessory genes in the multipartite genome of Sinorhizobium fredii. Plos Genetics. 14: e1007428. PMID 29795552 DOI: 10.1371/Journal.Pgen.1007428  0.322
2018 To AC, Chu DHT, Wang AR, Li FC, Chiu AW, Gao DY, Choi CHJ, Kong SK, Chan TF, Chan KM, Yip KY. A comprehensive web tool for toehold switch design. Bioinformatics (Oxford, England). PMID 29648573 DOI: 10.1093/Bioinformatics/Bty216  0.314
2018 Qin H, Lo NW, Loo JF, Lin X, Yim AK, Tsui SK, Lau TC, Ip M, Chan TF. Comparative transcriptomics of multidrug-resistant Acinetobacter baumannii in response to antibiotic treatments. Scientific Reports. 8: 3515. PMID 29476162 DOI: 10.1038/S41598-018-21841-9  0.301
2018 Liu XY, Yang KY, Wang MQ, Kwok JS, Zeng X, Yang Z, Xiao XJ, Lau CP, Li Y, Huang ZM, Ba JG, Yim AK, Ouyang CY, Ngai SM, Chan TF, et al. High-quality assembly of Dermatophagoides pteronyssinus genome and transcriptome reveals a wide range of novel allergens. The Journal of Allergy and Clinical Immunology. PMID 29305317 DOI: 10.1016/J.Jaci.2017.11.038  0.34
2017 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, ... ... Chan TF, et al. OMSV enables accurate and comprehensive identification of large structural variations from nanochannel-based single-molecule optical maps. Genome Biology. 18: 230. PMID 29195502 DOI: 10.1186/S13059-017-1356-2  0.655
2017 Chim SSC, Wong KKW, Chung CYL, Lam SKW, Kwok JSL, Lai CY, Cheng YKY, Hui ASY, Meng M, Chan OK, Tsui SKW, Lee KY, Chan TF, Leung TY. Systematic Selection of Reference Genes for the Normalization of Circulating RNA Transcripts in Pregnant Women Based on RNA-Seq Data. International Journal of Molecular Sciences. 18. PMID 28777335 DOI: 10.3390/Ijms18081709  0.319
2017 Leung AK, Jin N, Yip KY, Chan TF. OMTools: a software package for visualizing and processing optical mapping data. Bioinformatics (Oxford, England). PMID 28505226 DOI: 10.1093/Bioinformatics/Btx317  0.332
2017 Leung AK, Kwok TP, Wan R, Xiao M, Kwok PY, Yip KY, Chan TF. OMBlast: alignment tool for optical mapping using a seed-and-extend approach. Bioinformatics (Oxford, England). 33: 311-319. PMID 28172448 DOI: 10.1093/Bioinformatics/Btw620  0.544
2016 Li JW, Lee HM, Wang Y, Tong AH, Yip KY, Tsui SK, Lok S, Ozaki R, Luk AO, Kong AP, So WY, Ma RC, Chan JC, Chan TF. Interactome-transcriptome analysis discovers signatures complementary to GWAS Loci of Type 2 Diabetes. Scientific Reports. 6: 35228. PMID 27752041 DOI: 10.1038/Srep35228  0.309
2015 Mak AC, Lai YY, Lam ET, Kwok TP, Leung AK, Poon A, Mostovoy Y, Hastie AR, Stedman W, Anantharaman T, Andrews W, Zhou X, Pang AW, Dai H, Chu C, ... ... Chan TF, et al. Genome-Wide Structural Variation Detection by Genome Mapping on Nanochannel Arrays. Genetics. PMID 26510793 DOI: 10.1534/Genetics.115.183483  0.672
2015 Yim AK, Wong JW, Ku YS, Qin H, Chan TF, Lam HM. Using RNA-Seq Data to Evaluate Reference Genes Suitable for Gene Expression Studies in Soybean. Plos One. 10: e0136343. PMID 26348924 DOI: 10.1371/Journal.Pone.0136343  0.35
2015 Yim AK, Kwok JS, Yu AC, Leung AK, Lau HH, Chan TF, Ip M, Tsui SK. Draft Genome Sequence of Extensively Drug-Resistant Acinetobacter baumannii Strain CUAB1 from a Patient in Hong Kong, China. Genome Announcements. 3. PMID 25977429 DOI: 10.1128/Genomea.00442-15  0.313
2014 Kwok JS, Ip M, Chan TF, Lam WY, Tsui SK. Draft Genome Sequence of Clostridium butyricum Strain NOR 33234, Isolated from an Elderly Patient with Diarrhea. Genome Announcements. 2. PMID 25540356 DOI: 10.1128/Genomea.01356-14  0.309
2014 Lou S, Lee HM, Qin H, Li JW, Gao Z, Liu X, Chan LL, Kl Lam V, So WY, Wang Y, Lok S, Wang J, Ma RC, Tsui SK, Chan JC, ... Chan TF, et al. Whole-genome bisulfite sequencing of multiple individuals reveals complementary roles of promoter and gene body methylation in transcriptional regulation. Genome Biology. 15: 408. PMID 25074712 DOI: 10.1186/S13059-014-0408-0  0.314
2014 Qi X, Li MW, Xie M, Liu X, Ni M, Shao G, Song C, Kay-Yuen Yim A, Tao Y, Wong FL, Isobe S, Wong CF, Wong KS, Xu C, Li C, ... ... Chan TF, et al. Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. Nature Communications. 5: 4340. PMID 25004933 DOI: 10.1038/Ncomms5340  0.42
2014 Li JW, Lai KP, Ching AK, Chan TF. Transcriptome sequencing of Chinese and Caucasian population identifies ethnic-associated differential transcript abundance of heterogeneous nuclear ribonucleoprotein K (hnRNPK). Genomics. 103: 56-64. PMID 24373910 DOI: 10.1016/J.Ygeno.2013.12.005  0.352
2013 Li SK, Zhou JW, Yim AK, Leung AK, Tsui SK, Chan TF, Lau TC. Organism-specific rRNA capture system for application in next-generation sequencing. Plos One. 8: e74286. PMID 24073205 DOI: 10.1371/Journal.Pone.0074286  0.349
2013 Law PT, Qin H, Ching AK, Lai KP, Co NN, He M, Lung RW, Chan AW, Chan TF, Wong N. Deep sequencing of small RNA transcriptome reveals novel non-coding RNAs in hepatocellular carcinoma. Journal of Hepatology. 58: 1165-73. PMID 23376363 DOI: 10.1016/J.Jhep.2013.01.032  0.306
2013 Li JW, Wan R, Yu CS, Co NN, Wong N, Chan TF. ViralFusionSeq: accurately discover viral integration events and reconstruct fusion transcripts at single-base resolution. Bioinformatics (Oxford, England). 29: 649-51. PMID 23314323 DOI: 10.1093/Bioinformatics/Btt011  0.332
2013 Li SK, Ng PK, Qin H, Lau JK, Lau JP, Tsui SK, Chan TF, Lau TC. Identification of small RNAs in Mycobacterium smegmatis using heterologous Hfq. Rna (New York, N.Y.). 19: 74-84. PMID 23169799 DOI: 10.1261/Rna.034116.112  0.335
2012 Yu CS, Yim KY, Tsui SK, Chan TF. Complete genome sequence of Bacillus subtilis strain QB928, a strain widely used in B. subtilis genetic studies. Journal of Bacteriology. 194: 6308-9. PMID 23105055 DOI: 10.1128/Jb.01533-12  0.338
2011 Lou SK, Li JW, Qin H, Yim AK, Lo LY, Ni B, Leung KS, Tsui SK, Chan TF. Detection of splicing events and multiread locations from RNA-seq data based on a geometric-tail (GT) distribution of intron length. Bmc Bioinformatics. 12: S2. PMID 21988959 DOI: 10.1186/1471-2105-12-S5-S2  0.401
2011 Lou SK, Ni B, Lo LY, Tsui SK, Chan TF, Leung KS. ABMapper: a suffix array-based tool for multi-location searching and splice-junction mapping. Bioinformatics (Oxford, England). 27: 421-2. PMID 21169377 DOI: 10.1093/Bioinformatics/Btq656  0.387
2009 Bodian DL, Chan TF, Poon A, Schwarze U, Yang K, Byers PH, Kwok PY, Klein TE. Mutation and polymorphism spectrum in osteogenesis imperfecta type II: implications for genotype-phenotype relationships. Human Molecular Genetics. 18: 463-71. PMID 18996919 DOI: 10.1093/Hmg/Ddn374  0.42
2008 Chan TF, Poon A, Basu A, Addleman NR, Chen J, Phong A, Byers PH, Klein TE, Kwok PY. Natural variation in four human collagen genes across an ethnically diverse population. Genomics. 91: 307-14. PMID 18272325 DOI: 10.1016/J.Ygeno.2007.12.008  0.453
2007 Xiao M, Gordon MP, Phong A, Ha C, Chan TF, Cai D, Selvin PR, Kwok PY. Determination of haplotypes from single DNA molecules: a method for single-molecule barcoding. Human Mutation. 28: 913-21. PMID 17443670 DOI: 10.1002/Humu.20528  0.438
2006 Chan TF, Ha C, Phong A, Cai D, Wan E, Leung L, Kwok PY, Xiao M. A simple DNA stretching method for fluorescence imaging of single DNA molecules. Nucleic Acids Research. 34: e113. PMID 16971459 DOI: 10.1093/Nar/Gkl593  0.469
2004 Zheng XS, Chan TF, Zhou HH. Genetic and genomic approaches to identify and study the targets of bioactive small molecules. Chemistry & Biology. 11: 609-18. PMID 15157872 DOI: 10.1016/J.Chembiol.2003.08.011  0.313
2002 Zheng XF, Chan TF. Chemical genomics in the global study of protein functions. Drug Discovery Today. 7: 197-205. PMID 11815236 DOI: 10.1016/S1359-6446(01)02118-3  0.317
2001 Chan T, Bertram PG, Ai W, Zheng XFS. Regulation of APG14 Expression by the GATA-type Transcription Factor Gln3p Journal of Biological Chemistry. 276: 6463-6467. PMID 11096087 DOI: 10.1074/Jbc.M008162200  0.329
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