(*: co-first authors; $: (co-) corresponding author)

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• Sun K$, Wang J, Wang H, and Sun H$: GeneCT: a generalizable cancerous status and tissue origin classifier for pan-cancer biopsies. Bioinformatics 2018 Jun 27. PubMed

• Sun K, Jiang P, Wong AIC, Cheng YKY, Cheng SH, Zhang H, Chan KCA, Leung TY, Chiu RWK, and Lo YMD: Size-tagged preferred ends in maternal plasma DNA shed light on production mechanism and show utility in noninvasive prenatal testing. Proc Natl Acad Sci U S A 2018 May 29; 15(22):E5106-E5114. PubMed

• Sun K, Lun FMF, Leung TY, Chiu RWK, Lo YMD and Sun H: Noninvasive reconstruction of placental methylome from maternal plasma DNA: potential for prenatal testing and monitoring. Prenat Diagn. 2018 Feb; 38(3):196-203. Issue cover article PubMed

• Sun K, Lun FMF, Jiang P and Sun H: BSviewer: a genotype-preserving, nucleotide-level visualizer for bisulfite sequencing data. Bioinformatics 2017 Nov 1; 33(21):3495-3496. PubMed

• Lam WKJ*, Gai W*, Sun K*, Wong RSM, Chan RWY, Jiang P, Chan NPH, Hui WWI, Chan AWH, Szeto CC, Ng SC, Law MF, Chan KCA, Chiu RWK, and Lo YMD: DNA of erythroid origin is present in human plasma and informs the types of anemia. Clin Chem 2017 Oct; 63(10):1614-1623. PubMed

• Sun K, Wang H, and Sun H: mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors. Sci Rep. 2017 Jun 8; 7(1):3022. PubMed

• Sun K, Chan KCA, Hudecova I, Chiu RWK, Lo YMD, and Jiang P: COFFEE: control-free noninvasive fetal chromosomal examination using maternal plasma DNA. Prenat Diagn 2017 Apr; 37(4):336-340. Issue cover article PubMed

• Chan KCA*, Jiang P*, Sun K*, Cheng YKY, Tong YK, Cheng SH, Wong AIC, Hudecova I, Leung TY, Chiu RWK, and Lo YMD: Second generation noninvasive fetal genome analysis reveals de novo mutations, single-base parental inheritance, and preferred DNA ends. Proc Natl Acad Sci U S A 2016, Dec 13; 113(50):E8159-8168. PubMed

• Sun K, Zhou L, Zhao Y, Wang H, and Sun H: Genome-wide RNA-seq and ChIP-seq reveal Linc-YY1 function in regulating YY1/PRC2 activity during skeletal myogenesis. Genom Data 2016, Feb 2; 7:247-9. PubMed

• Zhou L*, Sun K*, Zhao Y*, Zhang S, Wang X, Li Y, Lu L, Chen X, Chen F, Bao X, Zhu X, Wang L, Tang LY, Esteban MA, Wang R, Jauch R, Sun H, and Wang H: Linc-YY1 promotes myogenic differentiation and muscle regeneration through an interaction with the transcription factor YY1. Nat Commun 2015, Dec 11; 6:10026. PubMed

• Sun K*, Jiang P*, Chan KCA*, Wong J, Cheng YK, Liang RH, Chan WK, Ma ES, Chan SL, Cheng SH, Chan RW, Tong YK, Ng SS, Mong RSM, Hui DS, Leung TN, Leung TY, Lai PBS, Chiu RWK, and Lo YMD: Plasma DNA tissue mapping by genomewide methylation sequencing for noninvasive prenatal, cancer and transplantation assessments. Proc Natl Acad Sci U S A 2015, Oct 6; 112(40):E5503-12. ESI Highly Cited Article PubMed

• Sun K, Jiang P and Chan KCA: The impact of digital DNA counting technologies on noninvasive prenatal testing. Expert Rev Mol Diagn 2015, 15(10):1261-1268. PubMed

• Sun K, Yuen YP, Wang H and Sun H: Online Diagnosis System: a webserver for analysis of Sanger sequencing-based genetic testing data. Methods 2014, 69(3):230-236. PubMed

• Sun K, Lu L, Wang H and Sun H: Genome-wide profiling of YY1 binding in skeletal muscle cells. Genom Data 2014, May 23; 2:89-91. PubMed

• Sun K, Zhao Y, Wang H and Sun H: Sebnif: An Integrated Bioinformatics Pipeline for the Identification of Novel Large Intergenic Noncoding RNAs (lincRNAs) - Application in Human Skeletal Muscle Cells. PLoS ONE 2014, Jan 6; 9(1):e84500. PubMed

• Lu L*, Sun K*, Chen X, Zhao Y, Wang L, Zhou L, Sun H and Wang H: Genome-wide survey by ChIP-seq reveals YY1 regulation of lincRNAs in skeletal myogenesis. EMBO J 2013, Oct 2; 32(19):2575-88. PubMed

• Sun K, Chen X, Jiang P, Song X, Wang H and Sun H: iSeeRNA: identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data. BMC Genomics 2013, 14(Suppl 2):S7. PubMed

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• Gai W, Ji L, Lam WKJ, Sun K, Jiang P, Chan AWH, Wong J, Lai PBS, Ng SSM, Ma BBY, Wong GLH, Wong V, Chan HLY, Chiu RWK, Lo YMD and Chan KCA: Liver- and colon-specific DNA methylation markers in plasma for investigation of colorectal cancers with or without liver metastases. Clin Chem 2018, Aug; 64(8):1239-1249. PubMed

• An Y*, Wang G*, Diao Y*, Long Y, Fu X, Weng M, Zhou L, Sun K, Cheung TH, Ip NY, Sun H, Wang H and Wu Z: A molecular switch regulating the cell fate choice between muscle progenitor cells and brown adipocytes. Dev Cell 2017, May 22; 41(4):382-391.e5. PubMed

• Chen X, He L, Zhao Y, Li Y, Zhang S, Sun K, So K, Chen F, Zhou L, Lu L, Wang L, Zhu X, Bao X, Esteban MA, Nakagawa S, Prasanth KV, Wu Z, Sun H and Wang H: Malat1 regulates myogenic differentiation and muscle regeneration through modulating MyoD transcriptional activity. Cell Discov 2017 Mar 14; 3:17002. PubMed

• Jiang P, Tong YK, Sun K, Cheng SH, Leung TY, Chan KCA, Chiu RWK, and Lo YMD: Gestational age assessment by methylation and size profiling of maternal plasma DNA: a feasibility study. Clin Chem 2017, Feb; 63(2):606-608. PubMed

• Wong FCK, Sun K, Jiang P, Cheng YKY, Chan KCA, Leung TY, Chiu RWK and Lo YMD: Cell-free DNA in maternal plasma and serum: A comparison of quantity, quality and tissue origin using genomic and epigenomic approaches. Clin Biochem 2016, Dec; 49(18):1379-1386. PubMed

• Jiang P*, Peng X*, Su X, Sun K, Yu SC, Chu WI, Leung TK, Sun H, Chiu RWK, Lo YMD and Chan KCA: FetalQuant-SD: Accurate quantification of fetal DNA fraction by shallow-depth sequencing of maternal plasma DNA. npj Genomic Medicine 2016 May 11; 1:16013. PubMed

• Cheng SH, Jiang P, Sun K, Cheng KY, Chan KCA, Leung TK, Chiu RWK and Lo YMD: Noninvasive prenatal testing by nanopore sequencing of maternal plasma DNA: feasibility assessment. Clin Chem 2015, Oct; 61(10):1305-6. PubMed

• Fu X, Xiao J, Wei Y, Li S, Liu Y, Yin J, Sun K, Sun H, Wang H, Zhang Z, Zhang BT, Sheng C, Wang H and Hu P: Combination of inflammation-related cytokines promotes long-term muscle stem cell expansion. Cell Res 2015, Jun; 25(6):655-73. PubMed

• Wang L, Zhao Y, Bao X, Zhu X, Kwok YK, Sun K, Chen X, Huang Y, Jauch R, Esteban MA, Sun H and Wang H: LncRNA Dum interacts with Dnmts to regulate Dppa2 expression during myogenic differentiation and muscle regeneration. Cell Res 2015, Mar; 25(3):335-50. PubMed

• Li L, Zhang Y, Fan Y, Sun K, Su X, Du Z, Tsao SW, Loh TK, Sun H, Chan AT, Zeng YX, Chan WY, Chan FK and Tao Q: Characterization of the nasopharyngeal carcinoma methylome identifies aberrant disruption of key signaling pathways and methylated tumor suppressor genes. Epigenomics 2014, 7(2):155-73. PubMed

• Zhao Y*, Yang Y*, Trovik J, Sun K, Zhou L, Jiang P, Lau TS, Hoivik EA, Salvesen HB, Sun H and Wang H: A novel Wnt regulatory axis in endometrioid endometrial cancer. Cancer Research 2014, Sep 15; 74(18):5103-17. PubMed

• Jiang P, Sun K, Lun FMF, Guo AM, Wang H, Chan KCA, Chiu RWK, Lo YMD and Sun H: Methy-Pipe: An integrated bioinformatics pipeline for whole genome bisulfite sequencing data analysis. PLoS ONE 2014, Jun 19; 9(6):e100360. PubMed

• Chan KCA*, Jiang P*, Chan CW*, Sun K, Wong J, Hui EP, Chan SL, Chan WC, Hui DS, Ng SS, Chan HL, Wong CS, Ma BB, Chan AT, Lai PB, Sun H, Chiu RW, and Lo YMD: Noninvasive detection of cancer-associated genomewide hypomethylation and copy number aberrations using massively parallel bisulfite sequencing of plasma DNA. Proc Natl Acad Sci U S A 2013, Nov 19; 110(47):18761-8. PubMed

• Lun FMF*, Chiu RWK*, Sun K, Leung TY, Jiang P, Chan KCA, Sun H and Lo YMD: Noninvasive prenatal methylomic analysis by genomewide bisulfite sequencing of maternal plasma DNA. Clin Chem 2013, Nov; 59(11):1583-94. PubMed

• Guo AM, Sun K, Su X, Wang H and Sun H: YY1TargetDB: an integral information resource for Yin Yang 1 target loci. Database (Oxford) 2013 Feb 14; 2013:bat007. PubMed

• Lu L, Zhou L, Chen EZ, Sun K, Jiang P, Wang L, Su X, Sun H and Wang H: A novel YY1-miR-1 regulatory circuit in skeletal myogenesis revealed by genome-wide prediction of YY1-miRNA network. PLoS ONE 2012, 7(2):e27596. PubMed

• Diao Y, Guo X, Li Y, Sun K, Lu L, Jiang L, Fu X, Zhu H, Sun H, Wang H and Wu Z: Pax3/7BP is a Pax7- and Pax3-binding protein that regulates the proliferation of muscle precursor cells by an epigenetic mechanism. Cell Stem Cell 2012, Aug 3; 11(2):231-241. PubMed