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Individualized pathway activity algorithm identifies oncogenic pathways in pan-cancer analysis. EBioMedicine. 2022 Apr 26; 79:104014.
Ke X, Wu H, Chen YX, Guo Y, Yao S, Guo MR, Duan YY, Wang NN, Shi W, Wang C, Dong SS, Kang H, Dai Z, Yang TL. PMID: 35487057.
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An Osteoporosis Susceptibility Allele at 11p15 Regulates SOX6 Expression by Modulating TCF4 Chromatin Binding. J Bone Miner Res. 2022 Apr 04.
Zhu DL, Chen XF, Zhou XR, Hu SY, Tuo XM, Hao RH, Dong SS, Jiang F, Rong Y, Yang TL, Yang Z, Guo Y. PMID: 35373860.
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MetaDecoder: a novel method for clustering metagenomic contigs. Microbiome. 2022 03 10; 10(1):46.
Liu CC, Dong SS, Chen JB, Wang C, Ning P, Guo Y, Yang TL. PMID: 35272700; PMCID: PMC8908641.
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Transcriptome-wide association study identifies multiple genes and pathways associated with thyroid function. Hum Mol Genet. 2021 Dec 28.
Ke X, Tian X, Yao S, Wu H, Duan YY, Wang NN, Shi W, Yang TL, Dong SS, Huang D, Guo Y. PMID: 34962261.
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Exome sequencing of fetuses with congenital diaphragmatic hernia supports a causal role for NR2F2, PTPN11, and WT1 variants. Am J Surg. 2022 Jan; 223(1):182-186.
Schwab ME, Dong S, Lianoglou BR, Aguilar Lucero AF, Schwartz GB, Norton ME, MacKenzie TC, Sanders SJ. PMID: 34315577.
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PubMed Mentions:
1 Fields:
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DDRS: Detection of drug response SNPs specifically in patients receiving drug treatment. Comput Struct Biotechnol J. 2021; 19:3650-3657.
Rong Y, Dong SS, Hu WX, Guo Y, Chen YX, Chen JB, Zhu DL, Chen H, Yang TL. PMID: 34257842; PMCID: PMC8254081.
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An Intronic Risk SNP rs12454712 for Central Obesity Acts As an Allele-Specific Enhancer To Regulate BCL2 Expression. Diabetes. 2021 08; 70(8):1679-1688.
Dong SS, Zhu DL, Zhou XR, Rong Y, Zeng M, Chen JB, Jiang F, Tuo XM, Feng Z, Yang TL, Guo Y. PMID: 34035043.
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Translation:
HumansCells
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Prenatal exposure to paternal smoking and likelihood for autism spectrum disorder. Autism. 2021 10; 25(7):1946-1959.
Kim B, Ha M, Kim YS, Koh YJ, Dong S, Kwon HJ, Kim YS, Lim MH, Paik KC, Yoo SJ, Kim H, Hong PS, Sanders SJ, Leventhal BL. PMID: 33878952; PMCID: PMC8419001.
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Translation:
Humans
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Phenome-wide investigation of the causal associations between childhood BMI and adult trait outcomes: a two-sample Mendelian randomization study. Genome Med. 2021 03 26; 13(1):48.
Dong SS, Zhang K, Guo Y, Ding JM, Rong Y, Feng JC, Yao S, Hao RH, Jiang F, Chen JB, Wu H, Chen XF, Yang TL. PMID: 33771188; PMCID: PMC8004431.
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PubMed Mentions:
2 Fields:
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Transcriptome-wide association study identifies multiple genes associated with childhood body mass index. Int J Obes (Lond). 2021 05; 45(5):1105-1113.
Yao S, Wu H, Ding JM, Wang ZX, Ullah T, Dong SS, Chen H, Guo Y. PMID: 33627773.
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An integrative multi-omics network-based approach identifies key regulators for breast cancer. Comput Struct Biotechnol J. 2020; 18:2826-2835.
Chen YX, Rong Y, Jiang F, Chen JB, Duan YY, Dong SS, Zhu DL, Chen H, Yang TL, Dai Z, Guo Y. PMID: 33133424; PMCID: PMC7585874.
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PubMed Mentions:
1
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Modeling circRNA expression pattern with integrated sequence and epigenetic features demonstrates the potential involvement of H3K79me2 in circRNA expression. Bioinformatics. 2020 09 15; 36(18):4739-4748.
Chen JB, Dong SS, Yao S, Duan YY, Hu WX, Chen H, Wang NN, Chen XF, Hao RH, Thynn HN, Guo MR, Zhang YJ, Rong Y, Chen YX, Zhou FL, Guo Y, Yang TL. PMID: 32539144.
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1 Fields:
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Multiomics dissection of molecular regulatory mechanisms underlying autoimmune-associated noncoding SNPs. JCI Insight. 2020 09 03; 5(17).
Chen XF, Guo MR, Duan YY, Jiang F, Wu H, Dong SS, Zhou XR, Thynn HN, Liu CC, Zhang L, Guo Y, Yang TL. PMID: 32879140; PMCID: PMC7526455.
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PubMed Mentions:
2 Fields:
Translation:
HumansCells
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RTN4B-mediated suppression of Sirtuin 2 activity ameliorates β-amyloid pathology and cognitive impairment in Alzheimer's disease mouse model. Aging Cell. 2020 08; 19(8):e13194.
Wang Y, Yang JQ, Hong TT, Sun YH, Huang HL, Chen F, Chen XJ, Chen HY, Dong SS, Cui LL, Yang TL. PMID: 32700357; PMCID: PMC7431833.
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PubMed Mentions:
5 Fields:
Translation:
HumansAnimalsCells
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Whole-Genome and RNA Sequencing Reveal Variation and Transcriptomic Coordination in the Developing Human Prefrontal Cortex. Cell Rep. 2020 04 07; 31(1):107489.
Werling DM, Pochareddy S, Choi J, An JY, Sheppard B, Peng M, Li Z, Dastmalchi C, Santpere G, Sousa AMM, Tebbenkamp ATN, Kaur N, Gulden FO, Breen MS, Liang L, Gilson MC, Zhao X, Dong S, Klei L, Cicek AE, Buxbaum JD, Adle-Biassette H, Thomas JL, Aldinger KA, O'Day DR, Glass IA, Zaitlen NA, Talkowski ME, Roeder K, State MW, Devlin B, Sanders SJ, Sestan N. PMID: 32268104; PMCID: PMC7295160.
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PubMed Mentions:
17 Fields:
Translation:
HumansCells
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Transcription Factor Enrichment Analysis in Enhancers Identifies EZH2 as a Susceptibility Gene for Osteoporosis. J Clin Endocrinol Metab. 2020 04 01; 105(4).
Li M, Yao S, Duan YY, Zhang YJ, Guo Y, Niu HM, Dong SS, Qiu YS, Yang TL. PMID: 31833556.
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HumansCells
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The hornwort genome and early land plant evolution. Nat Plants. 2020 02; 6(2):107-118.
Zhang J, Fu XX, Li RQ, Zhao X, Liu Y, Li MH, Zwaenepoel A, Ma H, Goffinet B, Guan YL, Xue JY, Liao YY, Wang QF, Wang QH, Wang JY, Zhang GQ, Wang ZW, Jia Y, Wang MZ, Dong SS, Yang JF, Jiao YN, Guo YL, Kong HZ, Lu AM, Yang HM, Zhang SZ, Van de Peer Y, Liu ZJ, Chen ZD. PMID: 32042158; PMCID: PMC7027989.
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PubMed Mentions:
25 Fields:
Translation:
Animals
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A road map for understanding molecular and genetic determinants of osteoporosis. Nat Rev Endocrinol. 2020 02; 16(2):91-103.
Yang TL, Shen H, Liu A, Dong SS, Zhang L, Deng FY, Zhao Q, Deng HW. PMID: 31792439; PMCID: PMC6980376.
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PubMed Mentions:
33 Fields:
Translation:
Humans
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An Allele-Specific Functional SNP Associated with Two Systemic Autoimmune Diseases Modulates IRF5 Expression by Long-Range Chromatin Loop Formation. J Invest Dermatol. 2020 02; 140(2):348-360.e11.
Thynn HN, Chen XF, Hu WX, Duan YY, Zhu DL, Chen H, Wang NN, Chen HH, Rong Y, Lu BJ, Yang M, Jiang F, Dong SS, Guo Y, Yang TL. PMID: 31421124.
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PubMed Mentions:
7 Fields:
Translation:
HumansCells
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Sex-specific SNP-SNP interaction analyses within topologically associated domains reveals ANGPT1 as a novel tumor suppressor gene for lung cancer. Genes Chromosomes Cancer. 2019 Aug 05.
Yao S, Dong SS, Ding JM, Rong Y, Zhang YJ, Chen H, Chen JB, Chen YX, Yan H, Dai Z, Guo Y. PMID: 31385379.
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PubMed Mentions:
5 Fields:
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Addressing the Missing Heritability Problem With the Help of Regulatory Features. Evol Bioinform Online. 2019; 15:1176934319860861.
Dong SS, Guo Y, Yang TL. PMID: 31320792; PMCID: PMC6610400.
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PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format files. Bioinformatics. 2019 05 15; 35(10):1786-1788.
Zhang C, Dong SS, Xu JY, He WM, Yang TL. PMID: 30321304.
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PubMed Mentions:
113 Fields:
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Comprehensive functional annotation of susceptibility SNPs prioritized 10 genes for schizophrenia. Transl Psychiatry. 2019 01 31; 9(1):56.
Niu HM, Yang P, Chen HH, Hao RH, Dong SS, Yao S, Chen XF, Yan H, Zhang YJ, Chen YX, Jiang F, Yang TL, Guo Y. PMID: 30705251; PMCID: PMC6355777.
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PubMed Mentions:
3 Fields:
Translation:
HumansCells
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Integrating regulatory features data for prediction of functional disease-associated SNPs. Brief Bioinform. 2019 01 18; 20(1):26-32.
Dong SS, Guo Y, Yao S, Chen YX, He MN, Zhang YJ, Chen XF, Chen JB, Yang TL. PMID: 28968709.
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PubMed Mentions:
3 Fields:
Translation:
HumansCells
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Genome-wide de novo risk score implicates promoter variation in autism spectrum disorder. Science. 2018 12 14; 362(6420).
An JY, Lin K, Zhu L, Werling DM, Dong S, Brand H, Wang HZ, Zhao X, Schwartz GB, Collins RL, Currall BB, Dastmalchi C, Dea J, Duhn C, Gilson MC, Klei L, Liang L, Markenscoff-Papadimitriou E, Pochareddy S, Ahituv N, Buxbaum JD, Coon H, Daly MJ, Kim YS, Marth GT, Neale BM, Quinlan AR, Rubenstein JL, Sestan N, State MW, Willsey AJ, Talkowski ME, Devlin B, Roeder K, Sanders SJ. PMID: 30545852; PMCID: PMC6432922.
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PubMed Mentions:
63 Fields:
Translation:
HumansCells
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De Novo Sequence and Copy Number Variants Are Strongly Associated with Tourette Disorder and Implicate Cell Polarity in Pathogenesis. Cell Rep. 2018 09 25; 24(13):3441-3454.e12.
Wang S, Mandell JD, Kumar Y, Sun N, Morris MT, Arbelaez J, Nasello C, Dong S, Duhn C, Zhao X, Yang Z, Padmanabhuni SS, Yu D, King RA, Dietrich A, Khalifa N, Dahl N, Huang AY, Neale BM, Coppola G, Mathews CA, Scharf JM, Tourette International Collaborative Genetics Study (TIC Genetics), Tourette Syndrome Genetics Southern and Eastern Europe Initiative (TSGENESEE), Tourette Association of America International Consortium for Genetics (TAAICG), Fernandez TV, Buxbaum JD, De Rubeis S, Grice DE, Xing J, Heiman GA, Tischfield JA, Paschou P, Willsey AJ, State MW. PMID: 30257206; PMCID: PMC6475626.
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PubMed Mentions:
19 Fields:
Translation:
Humans
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An analytical framework for whole-genome sequence association studies and its implications for autism spectrum disorder. Nat Genet. 2018 04 26; 50(5):727-736.
Werling DM, Brand H, An JY, Stone MR, Zhu L, Glessner JT, Collins RL, Dong S, Layer RM, Markenscoff-Papadimitriou E, Farrell A, Schwartz GB, Wang HZ, Currall BB, Zhao X, Dea J, Duhn C, Erdman CA, Gilson MC, Yadav R, Handsaker RE, Kashin S, Klei L, Mandell JD, Nowakowski TJ, Liu Y, Pochareddy S, Smith L, Walker MF, Waterman MJ, He X, Kriegstein AR, Rubenstein JL, Sestan N, McCarroll SA, Neale BM, Coon H, Willsey AJ, Buxbaum JD, Daly MJ, State MW, Quinlan AR, Marth GT, Roeder K, Devlin B, Talkowski ME, Sanders SJ. PMID: 29700473; PMCID: PMC5961723.
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PubMed Mentions:
65 Fields:
Translation:
Humans
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Whole genome sequencing in psychiatric disorders: the WGSPD consortium. Nat Neurosci. 2017 12; 20(12):1661-1668.
Sanders SJ, Neale BM, Huang H, Werling DM, An JY, Dong S, Whole Genome Sequencing for Psychiatric Disorders (WGSPD), Abecasis G, Arguello PA, Blangero J, Boehnke M, Daly MJ, Eggan K, Geschwind DH, Glahn DC, Goldstein DB, Gur RE, Handsaker RE, McCarroll SA, Ophoff RA, Palotie A, Pato CN, Sabatti C, State MW, Willsey AJ, Hyman SE, Addington AM, Lehner T, Freimer NB. PMID: 29184211; PMCID: PMC7785336.
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PubMed Mentions:
29 Fields:
Translation:
Humans
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De Novo Coding Variants Are Strongly Associated with Tourette Disorder. Neuron. 2017 May 03; 94(3):486-499.e9.
Willsey AJ, Fernandez TV, Yu D, King RA, Dietrich A, Xing J, Sanders SJ, Mandell JD, Huang AY, Richer P, Smith L, Dong S, Samocha KE, Tourette International Collaborative Genetics (TIC Genetics), Tourette Syndrome Association International Consortium for Genetics (TSAICG), Neale BM, Coppola G, Mathews CA, Tischfield JA, Scharf JM, State MW, Heiman GA. PMID: 28472652; PMCID: PMC5769876.
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PubMed Mentions:
46 Fields:
Translation:
Humans
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Insights into Autism Spectrum Disorder Genomic Architecture and Biology from 71 Risk Loci. Neuron. 2015 Sep 23; 87(6):1215-1233.
Sanders SJ, He X, Willsey AJ, Ercan-Sencicek AG, Samocha KE, Cicek AE, Murtha MT, Bal VH, Bishop SL, Dong S, Goldberg AP, Jinlu C, Keaney JF, Klei L, Mandell JD, Moreno-De-Luca D, Poultney CS, Robinson EB, Smith L, Solli-Nowlan T, Su MY, Teran NA, Walker MF, Werling DM, Beaudet AL, Cantor RM, Fombonne E, Geschwind DH, Grice DE, Lord C, Lowe JK, Mane SM, Martin DM, Morrow EM, Talkowski ME, Sutcliffe JS, Walsh CA, Yu TW, Autism Sequencing Consortium, Ledbetter DH, Martin CL, Cook EH, Buxbaum JD, Daly MJ, Devlin B, Roeder K, State MW. PMID: 26402605; PMCID: PMC4624267.
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PubMed Mentions:
438 Fields:
Translation:
Humans
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The female protective effect in autism spectrum disorder is not mediated by a single genetic locus. Mol Autism. 2015; 6:25.
Gockley J, Willsey AJ, Dong S, Dougherty JD, Constantino JN, Sanders SJ. PMID: 25973162; PMCID: PMC4429476.
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23 Fields:
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The contribution of de novo coding mutations to autism spectrum disorder. Nature. 2014 Nov 13; 515(7526):216-21.
Iossifov I, O'Roak BJ, Sanders SJ, Ronemus M, Krumm N, Levy D, Stessman HA, Witherspoon KT, Vives L, Patterson KE, Smith JD, Paeper B, Nickerson DA, Dea J, Dong S, Gonzalez LE, Mandell JD, Mane SM, Murtha MT, Sullivan CA, Walker MF, Waqar Z, Wei L, Willsey AJ, Yamrom B, Lee YH, Grabowska E, Dalkic E, Wang Z, Marks S, Andrews P, Leotta A, Kendall J, Hakker I, Rosenbaum J, Ma B, Rodgers L, Troge J, Narzisi G, Yoon S, Schatz MC, Ye K, McCombie WR, Shendure J, Eichler EE, State MW, Wigler M. PMID: 25363768; PMCID: PMC4313871.
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PubMed Mentions:
830 Fields:
Translation:
Humans
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De novo insertions and deletions of predominantly paternal origin are associated with autism spectrum disorder. Cell Rep. 2014 Oct 09; 9(1):16-23.
Dong S, Walker MF, Carriero NJ, DiCola M, Willsey AJ, Ye AY, Waqar Z, Gonzalez LE, Overton JD, Frahm S, Keaney JF, Teran NA, Dea J, Mandell JD, Hus Bal V, Sullivan CA, DiLullo NM, Khalil RO, Gockley J, Yuksel Z, Sertel SM, Ercan-Sencicek AG, Gupta AR, Mane SM, Sheldon M, Brooks AI, Roeder K, Devlin B, State MW, Wei L, Sanders SJ. PMID: 25284784; PMCID: PMC4194132.
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PubMed Mentions:
65 Fields:
Translation:
Humans
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Coexpression networks implicate human midfetal deep cortical projection neurons in the pathogenesis of autism. Cell. 2013 Nov 21; 155(5):997-1007.
Willsey AJ, Sanders SJ, Li M, Dong S, Tebbenkamp AT, Muhle RA, Reilly SK, Lin L, Fertuzinhos S, Miller JA, Murtha MT, Bichsel C, Niu W, Cotney J, Ercan-Sencicek AG, Gockley J, Gupta AR, Han W, He X, Hoffman EJ, Klei L, Lei J, Liu W, Liu L, Lu C, Xu X, Zhu Y, Mane SM, Lein ES, Wei L, Noonan JP, Roeder K, Devlin B, Sestan N, State MW. PMID: 24267886; PMCID: PMC3995413.
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PubMed Mentions:
346 Fields:
Translation:
HumansAnimalsCells
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H2A.Z nucleosome positioning has no impact on genetic variation in Drosophila genome. PLoS One. 2013; 8(3):e58295.
Tang Y, Dong S, Cao X, Zhou Q, Ding G, Jiang C. PMID: 23472174; PMCID: PMC3589275.
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PubMed Mentions:
1 Fields:
Translation:
AnimalsCells
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Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor). Genome Biol. 2011 Nov 21; 12(11):R114.
Zheng LY, Guo XS, He B, Sun LJ, Peng Y, Dong SS, Liu TF, Jiang S, Ramachandran S, Liu CM, Jing HC. PMID: 22104744; PMCID: PMC3334600.
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PubMed Mentions:
106 Fields:
Translation:
AnimalsCells
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KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases. Nucleic Acids Res. 2011 Jul; 39(Web Server issue):W316-22.
Xie C, Mao X, Huang J, Ding Y, Wu J, Dong S, Kong L, Gao G, Li CY, Wei L. PMID: 21715386; PMCID: PMC3125809.
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PubMed Mentions:
1135 Fields:
Translation:
HumansCells
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Molecular genetic studies of gene identification for osteoporosis. Expert Rev Endocrinol Metab. 2008 Mar; 3(2):223-267.
Guo Y, Yang TL, Pan F, Xu XH, Dong SS, Deng HW. PMID: 30764094.
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PubMed Mentions:
1 Fields: