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Items: 38

1.

A comparative evaluation of hybrid error correction methods for error-prone long reads.

Fu S, Wang A, Au KF.

Genome Biol. 2019 Feb 4;20(1):26. doi: 10.1186/s13059-018-1605-z.

2.

E-C coupling structural protein junctophilin-2 encodes a stress-adaptive transcription regulator.

Guo A, Wang Y, Chen B, Wang Y, Yuan J, Zhang L, Hall D, Wu J, Shi Y, Zhu Q, Chen C, Thiel WH, Zhan X, Weiss RM, Zhan F, Musselman CA, Pufall M, Zhu W, Au KF, Hong J, Anderson ME, Grueter CE, Song LS.

Science. 2018 Dec 21;362(6421). pii: eaan3303. doi: 10.1126/science.aan3303. Epub 2018 Nov 8.

PMID:
30409805
3.

Revealing tumor heterogeneity of breast cancer by utilizing the linkage between somatic and germline mutations.

Zou M, Jin R, Au KF.

Brief Bioinform. 2018 Sep 18. doi: 10.1093/bib/bby084. [Epub ahead of print]

PMID:
30239581
4.

A Statistical Method for Observing Personal Diploid Methylomes and Transcriptomes with Single-Molecule Real-Time Sequencing.

Suzuki Y, Wang Y, Au KF, Morishita S.

Genes (Basel). 2018 Sep 19;9(9). pii: E460. doi: 10.3390/genes9090460.

5.

Delayed diagnosis of tuberculosis: risk factors and effect on mortality among older adults in Hong Kong.

Leung EC, Leung CC, Chang KC, Chan CK, Mok TY, Chan KS, Lau KS, Chau CH, Yee WK, Law WS, Lee SN, Au KF, Tai LB, Leung WM.

Hong Kong Med J. 2018 Aug;24(4):361-368. doi: 10.12809/hkmj177081. Epub 2018 Jul 30.

6.

Single cell expression analysis of primate-specific retroviruses-derived HPAT lincRNAs in viable human blastocysts identifies embryonic cells co-expressing genetic markers of multiple lineages.

Glinsky G, Durruthy-Durruthy J, Wossidlo M, Grow EJ, Weirather JL, Au KF, Wysocka J, Sebastiano V.

Heliyon. 2018 Jun 28;4(6):e00667. doi: 10.1016/j.heliyon.2018.e00667. eCollection 2018 Jun.

7.

IDP-denovo: de novo transcriptome assembly and isoform annotation by hybrid sequencing.

Fu S, Ma Y, Yao H, Xu Z, Chen S, Song J, Au KF.

Bioinformatics. 2018 Jul 1;34(13):2168-2176. doi: 10.1093/bioinformatics/bty098.

8.

Hybrid Sequencing of Full-Length cDNA Transcripts of Stems and Leaves in Dendrobium officinale.

He L, Fu S, Xu Z, Yan J, Xu J, Zhou H, Zhou J, Chen X, Li Y, Au KF, Yao H.

Genes (Basel). 2017 Oct 5;8(10). pii: E257. doi: 10.3390/genes8100257.

9.

CF airway smooth muscle transcriptome reveals a role for PYK2.

Cook DP, Adam RJ, Zarei K, Deonovic B, Stroik MR, Gansemer ND, Meyerholz DK, Au KF, Stoltz DA.

JCI Insight. 2017 Sep 7;2(17). pii: 95332. doi: 10.1172/jci.insight.95332. eCollection 2017 Sep 7.

10.

Comprehensive comparison of Pacific Biosciences and Oxford Nanopore Technologies and their applications to transcriptome analysis.

Weirather JL, de Cesare M, Wang Y, Piazza P, Sebastiano V, Wang XJ, Buck D, Au KF.

Version 2. F1000Res. 2017 Feb 3 [revised 2017 Jan 1];6:100. doi: 10.12688/f1000research.10571.2. eCollection 2017.

11.

Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis.

Sahraeian SME, Mohiyuddin M, Sebra R, Tilgner H, Afshar PT, Au KF, Bani Asadi N, Gerstein MB, Wong WH, Snyder MP, Schadt E, Lam HYK.

Nat Commun. 2017 Jul 5;8(1):59. doi: 10.1038/s41467-017-00050-4.

12.

Discovery of novel determinants of endothelial lineage using chimeric heterokaryons.

Wong WT, Matrone G, Tian X, Tomoiaga SA, Au KF, Meng S, Yamazoe S, Sieveking D, Chen K, Burns DM, Chen JK, Blau HM, Cooke JP.

Elife. 2017 Mar 21;6. pii: e23588. doi: 10.7554/eLife.23588.

13.

IDP-ASE: haplotyping and quantifying allele-specific expression at the gene and gene isoform level by hybrid sequencing.

Deonovic B, Wang Y, Weirather J, Wang XJ, Au KF.

Nucleic Acids Res. 2017 Mar 17;45(5):e32. doi: 10.1093/nar/gkw1076.

14.

The primate-specific noncoding RNA HPAT5 regulates pluripotency during human preimplantation development and nuclear reprogramming.

Durruthy-Durruthy J, Sebastiano V, Wossidlo M, Cepeda D, Cui J, Grow EJ, Davila J, Mall M, Wong WH, Wysocka J, Au KF, Reijo Pera RA.

Nat Genet. 2016 Jan;48(1):44-52. doi: 10.1038/ng.3449. Epub 2015 Nov 23.

15.

PacBio Sequencing and Its Applications.

Rhoads A, Au KF.

Genomics Proteomics Bioinformatics. 2015 Oct;13(5):278-89. doi: 10.1016/j.gpb.2015.08.002. Epub 2015 Nov 2. Review.

16.

Characterization of fusion genes and the significantly expressed fusion isoforms in breast cancer by hybrid sequencing.

Weirather JL, Afshar PT, Clark TA, Tseng E, Powers LS, Underwood JG, Zabner J, Korlach J, Wong WH, Au KF.

Nucleic Acids Res. 2015 Oct 15;43(18):e116. doi: 10.1093/nar/gkv562. Epub 2015 Jun 3.

17.

Full-length transcriptome sequences and splice variants obtained by a combination of sequencing platforms applied to different root tissues of Salvia miltiorrhiza and tanshinone biosynthesis.

Xu Z, Peters RJ, Weirather J, Luo H, Liao B, Zhang X, Zhu Y, Ji A, Zhang B, Hu S, Au KF, Song J, Chen S.

Plant J. 2015 Jun;82(6):951-61. doi: 10.1111/tpj.12865. Epub 2015 May 25.

18.

Accurate mapping of RNA-Seq data.

Au KF.

Methods Mol Biol. 2015;1269:147-61. doi: 10.1007/978-1-4939-2291-8_9.

PMID:
25577377
19.

The transcriptome of human pluripotent stem cells.

Au KF, Sebastiano V.

Curr Opin Genet Dev. 2014 Oct;28:71-7. doi: 10.1016/j.gde.2014.09.012. Epub 2014 Oct 27. Review.

20.

Human tRNA synthetase catalytic nulls with diverse functions.

Lo WS, Gardiner E, Xu Z, Lau CF, Wang F, Zhou JJ, Mendlein JD, Nangle LA, Chiang KP, Yang XL, Au KF, Wong WH, Guo M, Zhang M, Schimmel P.

Science. 2014 Jul 18;345(6194):328-32. doi: 10.1126/science.1252943.

21.

ALS-associated mutation FUS-R521C causes DNA damage and RNA splicing defects.

Qiu H, Lee S, Shang Y, Wang WY, Au KF, Kamiya S, Barmada SJ, Finkbeiner S, Lui H, Carlton CE, Tang AA, Oldham MC, Wang H, Shorter J, Filiano AJ, Roberson ED, Tourtellotte WG, Chen B, Tsai LH, Huang EJ.

J Clin Invest. 2014 Mar;124(3):981-99. doi: 10.1172/JCI72723. Epub 2014 Feb 10.

22.

Characterization of the human ESC transcriptome by hybrid sequencing.

Au KF, Sebastiano V, Afshar PT, Durruthy JD, Lee L, Williams BA, van Bakel H, Schadt EE, Reijo-Pera RA, Underwood JG, Wong WH.

Proc Natl Acad Sci U S A. 2013 Dec 10;110(50):E4821-30. doi: 10.1073/pnas.1320101110. Epub 2013 Nov 26.

23.

An Oct4-Sall4-Nanog network controls developmental progression in the pre-implantation mouse embryo.

Tan MH, Au KF, Leong DE, Foygel K, Wong WH, Yao MW.

Mol Syst Biol. 2013;9:632. doi: 10.1038/msb.2012.65.

24.

Activation of innate immunity is required for efficient nuclear reprogramming.

Lee J, Sayed N, Hunter A, Au KF, Wong WH, Mocarski ES, Pera RR, Yakubov E, Cooke JP.

Cell. 2012 Oct 26;151(3):547-58. doi: 10.1016/j.cell.2012.09.034.

25.

Improving PacBio long read accuracy by short read alignment.

Au KF, Underwood JG, Lee L, Wong WH.

PLoS One. 2012;7(10):e46679. doi: 10.1371/journal.pone.0046679. Epub 2012 Oct 4.

26.

RNA sequencing reveals a diverse and dynamic repertoire of the Xenopus tropicalis transcriptome over development.

Tan MH, Au KF, Yablonovitch AL, Wills AE, Chuang J, Baker JC, Wong WH, Li JB.

Genome Res. 2013 Jan;23(1):201-16. doi: 10.1101/gr.141424.112. Epub 2012 Sep 7.

27.

A strong tuberculin reaction in primary school children predicts tuberculosis in adolescence.

Leung CC, Yew WW, Au KF, Tam CM, Chang KC, Mak KY, Tam SY, Chan KF, Fong KL, Tam SW.

Pediatr Infect Dis J. 2012 Feb;31(2):150-3. doi: 10.1097/INF.0b013e318236ae2b.

PMID:
21983215
28.

A longitudinal study of serial BODE indices in predicting mortality and readmissions for COPD.

Ko FW, Tam W, Tung AH, Ngai J, Ng SS, Lai K, Au KF, Hui DS.

Respir Med. 2011 Feb;105(2):266-73. doi: 10.1016/j.rmed.2010.06.022. Epub 2010 Jul 22.

29.

T-Spot.TB outperforms tuberculin skin test in predicting tuberculosis disease.

Leung CC, Yam WC, Yew WW, Ho PL, Tam CM, Law WS, Au KF, Tsui PW.

Am J Respir Crit Care Med. 2010 Sep 15;182(6):834-40. doi: 10.1164/rccm.200912-1875OC. Epub 2010 May 27.

PMID:
20508217
30.

Detection of splice junctions from paired-end RNA-seq data by SpliceMap.

Au KF, Jiang H, Lin L, Xing Y, Wong WH.

Nucleic Acids Res. 2010 Aug;38(14):4570-8. doi: 10.1093/nar/gkq211. Epub 2010 Apr 5.

31.

Passive smoking and tuberculosis.

Leung CC, Lam TH, Ho KS, Yew WW, Tam CM, Chan WM, Law WS, Chan CK, Chang KC, Au KF.

Arch Intern Med. 2010 Feb 8;170(3):287-92. doi: 10.1001/archinternmed.2009.506.

PMID:
20142576
32.

TB surveillance in correctional institutions in Hong Kong, 1999-2005.

Wong MY, Leung CC, Tam CM, Kam KM, Ma CH, Au KF.

Int J Tuberc Lung Dis. 2008 Jan;12(1):93-8.

PMID:
18173884
33.

A neuro-fuzzy inference system through integration of fuzzy logic and extreme learning machines.

Sun ZL, Au KF, Choi TM.

IEEE Trans Syst Man Cybern B Cybern. 2007 Oct;37(5):1321-31.

PMID:
17926712
34.

Lysine methylation as a routine rescue strategy for protein crystallization.

Walter TS, Meier C, Assenberg R, Au KF, Ren J, Verma A, Nettleship JE, Owens RJ, Stuart DI, Grimes JM.

Structure. 2006 Nov;14(11):1617-22.

35.

Chest radiograph screening for tuberculosis in a Hong Kong prison.

Leung CC, Chan CK, Tam CM, Yew WW, Kam KM, Au KF, Tai LB, Leung SM, Ng J.

Int J Tuberc Lung Dis. 2005 Jun;9(6):627-32.

PMID:
15971389
36.

Tuberculin response in BCG vaccinated schoolchildren and the estimation of annual risk of infection in Hong Kong.

Leung CC, Yew WW, Tam CM, Chan CK, Chang KC, Law WS, Lee SN, Wong MY, Au KF.

Thorax. 2005 Feb;60(2):124-9.

37.

Socio-economic factors and tuberculosis: a district-based ecological analysis in Hong Kong.

Leung CC, Yew WW, Tam CM, Chan CK, Chang KC, Law WS, Wong MY, Au KF.

Int J Tuberc Lung Dis. 2004 Aug;8(8):958-64.

PMID:
15305477
38.

Levofloxacin in the treatment of drug-resistant tuberculosis.

Yew WW, Au KF, Lee J, Chau CH.

Int J Tuberc Lung Dis. 1997 Feb;1(1):89. No abstract available.

PMID:
9441068

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