Sun Kun >> Publication

Academic

Journal papers

    My publication record is also available at ORCID ORCID, Scopus, and Google Scholar.


    (#: co-first authors; *: (co-)corresponding authors)

  • Ju J#, Zhao X#, An Y#, Yang M#, Zhang Z#, Liu X, Hu D, Wang W, Pan Y, Xia Z, Fan F, Shen X,
    Sun K
    *. Cell-free DNA end characteristics enable accurate and sensitive cancer diagnosis. Cell Rep Methods 2024 Oct 21; 4(10):100877. PubMed

  • Liu X#, Yang M#, Hu D, An Y, Wang W, Lin H, Pan Y, Ju J,
    Sun K
    *. Systematic biases in reference-based plasma cell-free DNA fragmentomic profiling. Cell Rep Methods 2024 Jun 17; 4(6):100793. PubMed

  • Zhao Y, Yang M, Gong F, Pan Y, Hu M, Peng Q, Lu L, Lyu X,
    Sun K
    *. Accelerating 3D genomics data analysis with Microcket. Commun Biol. 2024 Jun 1; 7(1):675. PubMed

  • Hu D#, Zhang Z#, Liu X#, Wu Y#, An Y, Wang W, Yang M, Pan Y, Qiao K, Du C, Zhao Y, Li Y, Bao J, Qin T, Pan Y, Xia Z*, Zhao X*,
    Sun K
    *. Generalizable transcriptome-based tumor malignant level evaluation and molecular subtyping towards precision oncology. J Transl Med. 2024 May 28; 22(1):512. PubMed

  • Jin X*, Wang Y, Xu J, Li Y, Cheng F, Luo Y, Zhou H, Lin S, Xiao F, Zhang L, Lin Y, Zhang Z, Jin Y, Zheng F, Chen W, Zhu A, Tao Y, Zhao J, Kuo T, Li Y, Li L, Wen L, Ou R, Li F, Lin L, Zhang Y, Sun J, Yuan H, Zhuang Z, Sun H, Chen Z, Li J, Zhuo J, Chen D, Zhang S, Sun Y, Wei P, Yuan J, Xu T, Yang H, Wang J, Xu X, Zhong N, Xu Y*,
    Sun K
    *, Zhao J*. Plasma cell-free DNA promise monitoring and tissue injury assessment of COVID-19. Mol Genet Genomics. 2023 Jul; 298(4):823-836. PubMed

  • An Y, Zhao X, Zhang Z, Xia Z, Yang M, Ma L, Zhao Y, Xu G, Du S, Wu X, Zhang S, Hong X, Jin X*,
    Sun K
    *. DNA methylation analysis explores the molecular basis of plasma cell-free DNA fragmentation. Nat Commun. 2023 Jan 18; 14(1):287. PubMed

  • Ju J,
    Sun K
    *. Plasma cell-free DNA analysis for COVID-19 and beyond. Clin Transl Discov. 2022 Sep; 2(3):e122. PubMed

  • Li L, An Y, Ma L, Yang M, Yuan P, Liu X, Jin X, Zhao Y, Zhang S*, Hong X*,
    Sun K
    *. Msuite2: all-in-one DNA methylation data analysis toolkit with enhanced usability and performance. Comput Struct Biotechnol J. 2022 Mar 10; 20:1271-1276. PubMed

  • An Y, Fan F, Jiang X*,
    Sun K
    *. Recent advances in liquid biopsy of brain cancers. Front. Genet. 2021 Sep 17; 12:720270. PubMed

  • Li LS, Guo XY,
    Sun K
    *. Recent advances in blood-based and artificial intelligence-enhanced approaches for gastrointestinal cancer diagnosis. World J Gastroenterol 2021 Sep 14; 27(34):5666-5681. PubMed

  • Sun K
    *, Wang H, Sun H*. NAMS webserver: coding potential assessment and functional annotation of plant transcripts. Brief Bioinform 2021 May 20; 22(3):bbaa200. PubMed

  • Sun K
    *, Gu L, Ma L, Duan Y*. Atlas of ACE2 gene expression reveals novel insights into transmission of SARS-CoV-2. Heliyon 2021 Jan; 7(1):e05850. PubMed

  • Sun K
    *, Li L, Ma L, Zhao Y, Deng L, Wang H, Sun H. Msuite: a high-performance and versatile DNA methylation data-analysis toolkit. Patterns (N Y) 2020 Oct 15; 1(8):100127. PubMed

  • Fan F, Chen D, Zhao Y, Wang H, Sun H,
    Sun K
    *. Rapid preliminary purity evaluation of tumor biopsies using deep learning approach. Comput Struct Biotechnol J 2020 Jun 16; 18:1746-1753. PubMed

  • Sun K
    *. Ktrim: an extra-fast and accurate quality- and adapter-trimmer for sequencing data. Bioinformatics 2020 Jun 1; 36(11):3561-3562. PubMed

  • Jiang P#,
    Sun K
    #, Peng W#, Cheng SH, Ni M, Yeung PC, Heung MMS, Xie T, Shang H, Zhou Z, Chan RWY, Wong J, Wong VWS, Poon LC, Leung TY, Lam WKJ, Chan JYK, Chan HLY, Chan KCA, Chiu RWK, Lo YMD. Plasma DNA end motif profiling as a fragmentomic marker in cancer, pregnancy and transplantation. Cancer Discov 2020 May; 10(5):664-673. PubMed

  • Sun K
    *. Clonal hematopoiesis: background player in plasma cell-free DNA variants. Ann Transl Med 2019 Dec; 7(Suppl 8):S384. PubMed

  • Sun K
    *, Jiang P, Cheng SH, Cheng THT, Wong J, Wong VWS, Ng SSM, Ma BBY, Leung TY, Chan SL, Mok TSK, Lai PBS, Chan HLY, Sun H, Chan KCA, Chiu RWK, Lo YMD*. Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin. Genome Res 2019 Mar; 29(3):418-427. PubMed

  • Gai W,
    Sun K
    *. Epigenetic biomarkers in cell-free DNA and applications in liquid biopsy. Genes (Basel) 2019 Jan 9; 10(1):32. PubMed

  • Sun K
    *, Wang J, Wang H, Sun H*. GeneCT: a generalizable cancerous status and tissue origin classifier for pan-cancer biopsies. Bioinformatics 2018 Dec 1; 34(23):4129-4130. PubMed

  • Jiang P#,
    Sun K
    #, Tong YK, Cheng SH, Cheng THT, Heung MMS, Wong J, Wong VWS, Chan HLY, Chan KCA, Lo YMD, Chiu RWK. Preferred end coordinates and somatic variants as signatures of circulating tumor DNA associated with hepatocellular carcinoma. Proc Natl Acad Sci U S A 2018 Nov 13; 115(46):E10925-E10933. PubMed

  • Sun K
    , Jiang P, Wong AIC, Cheng YKY, Cheng SH, Zhang H, Chan KCA, Leung TY, Chiu RWK, 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; 115(22):E5106-E5114. PubMed

  • Sun K
    , Lun FMF, Leung TY, Chiu RWK, Lo YMD, 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. PubMed
    Issue cover article

  • Sun K
    , Lun FMF, Jiang P, 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, 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, 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, Jiang P. COFFEE: control-free noninvasive fetal chromosomal examination using maternal plasma DNA. Prenat Diagn 2017 Apr; 37(4):336-340. PubMed
    Issue cover article

    Certified as "Top Downloaded Article 2017-2018 in Prenatal Diagnosis" by Wiley

  • Chan KCA#, Jiang P#,
    Sun K
    #, Cheng YKY, Tong YK, Cheng SH, Wong AIC, Hudecova I, Leung TY, Chiu RWK, 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, 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, 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, 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. PubMed
    ESI Highly Cited Paper

  • Sun K
    , Jiang P, 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, Sun H. Online Diagnosis System: a webserver for analysis of Sanger sequencing-based genetic testing data. Methods 2014 Oct 1; 69(3):230-236. PubMed

  • Sun K
    , Lu L, Wang H, 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, 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, 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, Sun H. iSeeRNA: identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data. BMC Genomics 2013; 14(Suppl 2):S7. PubMed

  • Liu Z, Shi D, Cai Y, Li A, Lan G, Sun P, Liu L, Zhu Y, Yang J, Zhou Y, Guo L, Zhang L, Deng S, Chen S, Yu X, Chen X, Zhao R, Wang Q, Ran P, Xu L, Zhou L,
    Sun K
    , Wang Z, Peng Q, Han Y, Guo T. Pathophysiology characterization of Alzheimer's disease in South China's aging population: for the Greater-Bay-Area Healthy Aging Brain Study (GHABS). Alzheimers Res Ther. 2024 Apr 16; 16(1):84. PubMed

  • Guo T, Zhang M, Shi D, Li Y, Chen X, Zhao R, Lan G, Cai Y, Sun P, Li A, Zhu Y, Liu L, Guo L, Zhou Y, Liu Z,
    Sun K
    , Wang X, Xu L, Wang Q, Han Y. Plasma biomarker and neuroimaging changes in a Chinese community aging cohort: The Greater-Bay-Area Healthy Aging Brain Study (GHABS). Alzheimer's & Dementia 2023 Dec; 19(S14):e077578.

  • Li A, Du J, Cai Y, Chen X,
    Sun K
    , Guo T. Body Mass Index Decrease Has a Distinct Association with Alzheimer's Disease Pathophysiology in APOE ɛ4 Carriers and Non-Carriers. J Alzheimers Dis. 2023 Nov 7; 96(2):643-655. PubMed

  • Chen Q, Zeng Y, Kang J, Hu M, Li N,
    Sun K
    , Zhao Y. Enhancer RNAs in transcriptional regulation: recent insights. Front Cell Dev Biol. 2023 May 17; 11:1205540. PubMed

  • Du J, Li A, Shi D, Chen X, Wang Q, Liu Z,
    Sun K
    , Guo T. Association of APOE4, osteoarthritis, β-amyloid, and tau accumulation in primary motor and somatosensory regions in Alzheimer's Disease. Neurology 2023 May 15; 10.1212/WNL.0000000000207369. PubMed

  • Liu Y,
    Sun K
    , Gan Y, Liu H, Yu J, Xu W, Zhang L, Chen D. RNA-sequencing reveals gene expression and pathway signatures in umbilical cord blood affected by birth delivery mode. Phenomics 2023 Apr 8; 3(3):228-242. PubMed

  • Cai Y, Du J, Li A, Zhu Y, Xu L,
    Sun K
    , Ma S, Guo T. Initial levels of β-amyloid and tau deposition have distinct effects on longitudinal tau accumulation in Alzheimer's disease. Alzheimers Res Ther 2023 Feb 7; 15(1):30. PubMed

  • Peng Q, Huang Z,
    Sun K
    , Liu Y, Yoon CW, Harrison RES, Schmitt DL, Zhu L, Wu Y, Tasan I, Zhao H, Zhang J, Zhong S, Chien S, Wang Y. Engineering inducible biomolecular assemblies for genome imaging and manipulation in live cells. Nat Commun 2022 Dec 24; 13(1):7933. PubMed

  • Wang Y, Li J, Zhang L, Sun HX, Zhang Z, Xu J, Xu Y, Lin Y, Zhu A, Luo Y, Zhou H, Wu Y, Lin S, Sun Y, Xiao F, Chen R, Wen L, Chen W, Li F, Ou R, Zhang Y, Kuo T, Li Y, Li L, Sun J,
    Sun K
    , Zhuang Z, Lu H, Chen Z, Mai G, Zhuo J, Qian P, Chen J, Yang H, Wang J, Xu X, Zhong N, Zhao J, Li J, Zhao J, Jin X. Plasma cell-free RNA characteristics in COVID-19 patients. Genome Res. 2022 Feb; 32(2):228-241. PubMed

  • Chen X, Wu T, Li L, Lin Y, Ma Z, Xu J, Li H, Cheng F, Chen R,
    Sun K
    , Luo Y, Zhang C, Chen F, Wang J, Kuo T, Li X, Geng C, Lin F, Huang C, Hu J, Yin J, Liu M, Tao Y, Zhang J, Ou R, Zheng F, Jin Y, Yang H, Wang J, Xu X, Fu S, Jiang H, Jin X, Zhang H. Transcriptional Start Site Coverage Analysis in Plasma Cell-Free DNA Reveals Disease Severity and Tissue Specificity of COVID-19 Patients. Front Genet 2021 May 28; 12:663098. PubMed

  • Zhao Y, Zhou J, He L, Li Y, Yuan J,
    Sun K
    , Chen X, Bao X, Esteban MA, Sun H, Wang H. MyoD induced enhancer RNA interacts with hnRNPL to activate target gene transcription during myogenic differentiation. Nat Commun 2019 Dec 19; 10(1):5787. PubMed

  • Serpas L, Chan RWY, Jiang P, Ni M,
    Sun K
    , Rashidfarrokhi A, Soni C, Sisirak V, Lee WS, Cheng SH, Peng W, Chan KCA, Chiu RWK, Reizis B, Lo YMD. Dnase1l3 deletion causes aberrations in length and end motif frequencies in plasma DNA. Proc Natl Acad Sci U S A 2019 Jan 8; 116(2):641-649. PubMed

  • 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, 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, 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, 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, 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, Lo YMD. Cell-free DNA in maternal plasma and serum: A comparison of quantity, quality and tissue origin using genomic and epigenomic approaches. Clinical Biochemistry 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, 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, 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, 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, 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, Tao Q. Characterization of the nasopharyngeal carcinoma methylome identifies aberrant disruption of key signaling pathways and methylated tumor suppressor genes. Epigenomics 2015; 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, 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, 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, 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, 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, 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, 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, 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

Conference papers
  • Sun K
    , Yuen YP, Wang H, and Sun H: The Online Diagnosis System for Sanger sequencing based genetic testing. In: Big Data and Smart Computing (BIGCOMP), 2014 IEEE International Conference on. 2014: 47-51. IEEEXplore

  • Lu L, Zhou L, Chen EZ,
    Sun K
    , Jiang P, Su S, Wang L, Sun H, and Wang H: Genome-wide identification of TF-miRNA regulatory networks in myogenesis. In: Bioinformatics and Biomedicine Workshops (BIBMW), 2011 IEEE International Conference on. 2011: 941. IEEEXplore

  • Jiang P, Sun X, Chen EZ,
    Sun K
    , Chiu RWK, Lo YMD, and Sun H: Methy-Pipe: An integrated bioinformatics data analysis pipeline for whole genome methylome analysis. In: Bioinformatics and Biomedicine Workshops (BIBMW), 2010 IEEE International Conference on. 2010: 585-590. IEEEXplore

Book chapters
  • Liu X, Yuan P,
    Sun K
    *. DNA methylation data analysis using Msuite. Methods Mol Biol 2023; 2624:1-6. PubMed

  • Sablok G*,
    Sun K
    *, and Sun H: NAMS: Noncoding Assessment of long RNAs in Magnoliophyta Species. Methods Mol Biol 2019; 1933:257-264. PubMed

  • Peng X,
    Sun K
    , Zhou J, Sun H, and Wang H: Bioinformatics for Novel Long Intergenic Noncoding RNA (lincRNA) Identification in Skeletal Muscle Cells. Methods Mol Biol 2017 Mar 1; 1556:355-362. PubMed

Presentations
  • Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin. Oral presentation at: 11th International Symposium on Circulating Nucleic Acids in Plasma and Serum (CNAPS), Sep 23-25, 2019; Jerusalem, Israel.

  • Noninvasive reconstruction of fetal methylome by sequencing of maternal plasma DNA. Poster presented at: The American Society of Human Genetics Annual Meeting, Oct 17-21, 2017; Orlando, Florida, U. S. A.
    Reviewers' Choice Abstract

  • To identify and functional validate of novel long intergenic noncoding RNAs in myogenesis using integrated genomic approach. Poster presented at: Intelligent Systems for Molecular Biology, Jul 8-12, 2016; Orlando, Florida, U. S. A.

  • Sebnif: An Integrated Bioinformatics Pipeline for the Identification of Novel Large Intergenic Noncoding RNAs (lincRNAs). Poster presented at: Long Noncoding RNAs: Marching toward Mechanism, Feb 27-Mar 4, 2014; Santa Fe, New Mexico, U. S. A.

  • iSeeRNA: identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data. Paper presented at: ISCB-Asia/SCCG 2012, Dec 17-19, 2012; Shenzhen, Guangdong, P. R. China

Patents
  • Chiu RWK, Chan KCA, Lo YMD, Jiang P,
    Sun K
    . 2016. METHYLATION PATTERN ANALYSIS OF TISSUES IN A DNA MIXTURE. U.S. Patent 11,062,789, filed Jul 20, 2015, and granted Jul 13, 2021. FreePatentsOnline

  • Lo YMD, Chan KCA, Chiu RWK, Jiang P,
    Sun K
    . 2017. METHYLATION PATTERN ANALYSIS OF HAPLOTYPES IN TISSUES IN A DNA MIXTURE. U.S. Patent 10,689,706, filed Jul 20, 2016, and granted Jun 23, 2020. FreePatentsOnline

  • Lo YMD, Chiu RWK, Chan KCA,
    Sun K
    . 2017. DETECTING HEMATOLOGICAL DISORDERS USING CELL-FREE DNA IN BLOOD. U.S. Patent 10,781,490, filed May 30, 2017, and granted Sep 22, 2020. FreePatentsOnline

  • Namsaraev E, Lo YMD, Chiu RWK, Chan KCA, Jiang P,
    Sun K
    , Lam WK. 2017. METHODS AND SYSTEMS FOR TUMOR DETECTION. U.S. Patent 11,459,616, filed Oct 25, 2017, and granted Oct 4, 2022. FreePatentsOnline

  • Lo YMD, Chiu RWK, Chan KCA, Jiang P,
    Sun K
    . 2019. SIZE-TAGGED PREFERRED ENDS AND ORIENTATION-AWARE ANALYSIS FOR MEASURING PROPERTIES OF CELL-FREE MIXTURES. U.S. Patent 20190341127, filed May 3, 2019, and issued Nov 7, 2019. FreePatentsOnline

  • Lo YMD, Chiu RWK, Chan KCA, Jiang P, Chan WY,
    Sun K
    . 2019. CELL-FREE DNA END CHARACTERISTICS. U.S. Patent 20200199656, filed Dec 19, 2019, and issued Jun 25, 2020. FreePatentsOnline

  • 孙坤
    . 2022. 一种基于游离DNA的癌症诊断模型和应用。 中国发明专利202210496595.9，申请日期2022年5月9日，公开日期2022年9月6日；PCT申请号PCT/CN2022/116248。

  • 孙坤
    、胡丁雪、刘晓懿. 2023. 一种肿瘤恶性程度评估方法、电子设备和存储介质。 中国发明专利202310370089.X，申请日期2023年3月31日；公开日期2023年6月23日。

  • 孙坤
    、胡丁雪、刘晓懿、杨梦琦. 2023. 肝细胞癌预后评估以及分子分型的方法、标志物及其应用。 中国发明专利202310362560.0，申请日期2023年3月31日；公开日期2023年7月11日。

  • 孙坤
    、鞠佳、王琦. 2023. 一种无创产前检测胎儿染色体拷贝数异常的优化方法。 中国发明专利202311138167.X，申请日期2023年9月1日；公开日期2023年12月15日。

  • 孙坤
    . 2023. 基于谷氨酰胺代谢模式的癌症风险评估方法及其应用。 中国发明专利202310642438.9，申请日期2023年6月1日；公开日期2023年12月26日。

  • 孙坤
    、鞠佳. 2022. 一种泛癌种血液诊断标志物及其应用。 中国发明专利202211361261.7，申请日期2022年11月2日；公开日期2024年5月14日；PCT申请号PCT/CN2023/093013。

Last update: Jun 14, 2024.