2023

Chen Z, Song W, Shu XO, Wen W, Devall M, Dampier C, Moratalla-Navarro F, Cai Q, Long J, Van Kaer L, Wu L, Huyghe JR, Thomas M, Hsu L, Woods MO, Albanes D, Buchanan DD, Gsur A, Hoffmeister M, Vodicka P, Wolk A, Marchand LL, Wu AH, Phipps AI, Moreno V, Ulrike P, Zheng W, Casey G#,  Guo X#. 
Novel insights into genetic susceptibility for colorectal cancer from transcriptome-wide association and functional investigation. J Natl Cancer Inst. 2023 Aug 26:djad178. doi: 10.1093/jnci/djad178. PMID: 37632791.

Awan UA, Guo X, Khattak AA, Hassan U, Bashir S. HPV vaccination and cervical cancer screening in Afghanistan threatened. Lancet Infect Dis. 2023 Feb;23(2):141-142. doi: 10.1016/S1473-3099(22)00868-4. Epub 2023 Jan 4. PMID: 36610440. 

Awan UA, Hussain M, Qureshi M, Siddique Z, Khattak AA, Akhtar S, Guo X. From COVID-19 to measles: Prioritizing immunization in Pakistan's far-flung regions. J Infect. 2023 Jul;87(1):76-79. doi: 10.1016/j.jinf.2023.04.017. Epub 2023 Apr 26. PMID: 37116619.

Song W, Postoak JL, Yang G, Guo X, Pua HH, Bader J, Rathmell JC, Kobayashi H, Haase VH, Leaptrot KL, Schrimpe-Rutledge AC, Sherrod SD, McLean JA, Zhang J, Wu L, Van Kaer L. Lipid kinase PIK3C3 maintains healthy brown and white adipose tissues to prevent metabolic diseases. Proc Natl Acad Sci U S A. 2023 Jan 3;120(1):e2214874120. doi: 10.1073/pnas.2214874120. Epub 2022 Dec 27.PMID: 36574710.

Awan UA, Khattak AA, Ahmed N, Guo X, Akhtar S, Kamran S, Yongjing Z, Liu J, Khan S. An updated systemic review and meta-analysis on human papillomavirus in breast carcinogenesis. Front Oncol. 2023 Aug 11;13:1219161. doi: 10.3389/fonc.2023.1219161. eCollection 2023.PMID: 37711194. 

He J, Wen W, Ping J, Li Q, Chen Z, Perera D, Shu X, Long J, Cai Q, Shu XO, Zheng W, Long Q#,  Guo X#. Enhancing Disease Risk Gene Discovery by Integrating Transcription Factor-Linked Trans-located Variants into Transcriptome-Wide Association Analyses. medRxiv. 2023 Oct 12:2023.10.10.23295443. doi: 10.1101/2023.10.10.23295443. Preprint.PMID: 37873299.

Guo X#, *, Ping J*, Yang Y*, Su X*, Shu XO, Wen W, Chen Z, Zhang Y, Tao R, Jia G, He J, Cai Q, Zhang Q, Giles GG, Pearlman R, Rennert G, Vodicka P, Phipps A, Gruber SB, Casey G, Peters U, Long J, Lin W#, Zheng W #.  Large-scale alternative polyadenylation (APA)-wide association studies to identify putative susceptibility genes in human common cancers. medRxiv. 2023 Nov 7:2023.11.05.23298125. doi: 10.1101/2023.11.05.23298125. Preprint.PMID: 37986797.

Yang Y, Xu S, Jia G, Yuan F, Ping J, Guo X, Tao R, Shu XO, Zheng W, Long J, Cai Q. Integrating genomics and proteomics data to identify candidate plasma biomarkers for lung cancer risk among European descendants. Br J Cancer. 2023 Oct;129(9):1510-1515. PMID: 37679517.

Wang X, Lu M, Gu H, Xiao T, Hu G, Luo M, Guo X, Xia Y. Conjugation of the Fn14 Ligand to a SMAC Mimetic Selectively Suppresses Experimental Squamous Cell Carcinoma in Mice. J Invest Dermatol. 2023 Feb;143(2):242-253.e6. doi: 10.1016/j.jid.2022.08.039. Epub 2022 Sep 3.PMID: 36063885.

Awan UA, Naeem W, Khattak AA, Mahmood T, Kamran S, Khan S, Guo X, Yongjing Z, Liu J, Nasir A. An exploratory study of knowledge, attitudes, and practices toward HPV associated anal cancer among Pakistani population. Front Oncol. 2023 Oct 25;13:1257401. doi: 10.3389/fonc.2023.1257401. eCollection 2023.PMID: 37954070.

Jia G, Yang Y, Ping J, Xu S, Liu L, Guo X, Tao R, Long J, Zheng W. Identification of target proteins for breast cancer genetic risk loci and blood risk biomarkers in a large study by integrating genomic and proteomic data. Int J Cancer. 2023 Jun 1;152(11):2314-2320. doi: 10.1002/ijc.34472. Epub 2023 Feb 21.PMID: 36779764.

Chen Z, Lin W, Cai Q, Kweon SS, Shu XO, Tanikawa C, Jia WH, Wang Y, Su X, Yuan Y, Wen W, Kim J, Shin A, Jee SH, Matsuo K, Kim DH, Wang N, Ping J, Shin MH, Ren Z, Oh JH, Oze I, Ahn YO, Jung KJ, Gao YT, Pan ZZ, Kamatani Y, Han W, Long J, Matsuda K, Zheng W,  Guo X#. A large-scale microRNA transcriptome-wide association study identifies two susceptibility microRNAs, miR-1307-5p and miR-192-3p, for colorectal cancer risk. Hum Mol Genet. 2023 Oct 30:ddad185. doi: 10.1093/hmg/ddad185. Online ahead of print.PMID: 37903058.

Wang D, Perera D, He J, Cao C, Kossinna P, Li Q, Zhang W, Guo X, Platt A, Wu J, Zhang Q. cLD: Rare-variant linkage disequilibrium between genomic regions identifies novel genomic interactions. PLoS Genet. 2023 Dec 18;19(12):e1011074. doi: 10.1371/journal.pgen.1011074. Online ahead of print.PMID: 38109434.

Qing Li, Deshan Perera, Zhishan Chen, Wanqing Wen, Dinghao Wang, Jun Yan, Xiao-ou Shu, Wei Zheng, Guo X #, Long Q#. Tissue-specific transfer-learning enables retasking of a general comprehensive model to a specific domain. bioRxiv 2023.09. 11.557208

2022

Fernandez-Rozadilla C, Timofeeva M, Chen Z, Law P, Thomas M, Schmit S, Díez-Obrero V, Hsu L, Fernandez-Tajes J, Palles C, Sherwood K, Briggs S, Svinti V, Donnelly K, Farrington S, Blackmur J, Vaughan-Shaw P, Shu XO, Long J, Cai Q, Guo X, Lu Y, many others, Tomlinson I, Zheng W, Dunlop M, Houlston R, Peters U. Deciphering colorectal cancer genetics through multi-omic analysis of 100,204 cases and 154,587 controls of European and east Asian ancestries. Nat Genet. 2022 Dec 20. doi: 10.1038/s41588-022-01222-9. Online ahead of print. PMID: 36539618.

Holowatyj AN#, Wen W, Gibbs T, Seagle HM, Keller SR, Velez Edwards DR, Washington MK, Eng C, Perea J, Zheng W, Guo X#. Racial/ethnic and sex differences in somatic cancer gene mutations among patients with early-onset colorectal cancer. Cancer Discov. 2022 Dec 15:CD-22-0764. doi: 10.1158/2159-8290.CD-22-0764. PMID: 36520636.

He J, Wen W, Beeghly A, Chen Z, Cao C, Shu XO, Zheng W, Long Q#, Guo X#. Integrating transcription factor occupancy with transcriptome-wide association analysis identifies susceptibility genes in human cancers. Nat Commun. 2022 Nov 19;13(1):7118. doi: 10.1038/s41467-022-34888-0. PMID: 36402776.

Choi J, Holowatyj AN, Du M, Chen Z, Wen W, Schultz N, Lipworth L, Guo X#. Distinct Genomic Landscapes in Early-Onset and Late-Onset Endometrial Cancer. JCO Precis Oncol. 2022 Feb;6:e2100401. doi: 10.1200/PO.21.00401. PMID: 35108035.

Cao C, Kossinna P, Kwok D, Li Q, He J, Su L, Guo X, Zhang Q, Long Q. Disentangling genetic feature selection and aggregation in transcriptome-wide association studies. Genetics. 2022 Feb 4;220(2):iyab216. doi: 10.1093/genetics/iyab216. PMID: 34849857 Free PMC article.

Wang X, Cai Q, Ping J, Diaz-Zabala H, Xia Y#, Guo X#. The putative oncogenic role of WDTC1 in colorectal cancer. Carcinogenesis. 2022 Jun 27;43(6):594-600. doi: 10.1093/carcin/bgac027. PMID: 35238908

Zhao Y, Nogueira MS, Milne GL, Guo X, Cai H, Lan Q, Rothman N, Cai Q, Gao YT, Chen Q, Shu XO, Yang G. Association between lipid peroxidation biomarkers and microRNA expression profiles. Redox Biol. 2022 Dec;58:102531. doi: 10.1016/j.redox.2022.102531. Epub 2022 Nov 2. PMID: 36335760.

Díaz-Zabala H, Guo X, Ping J, Wen W, Shu XO, Long J, Lipworth L, Li B, Fadden MK, Pal T, Blot WJ, Cai Q, Haiman CA, Palmer JR, Sanderson M, Zheng W. Evaluating breast cancer predisposition genes in women of African ancestry. Genet Med. 2022 Jul;24(7):1468-1475. doi: 10.1016/j.gim.2022.03.015. Epub 2022 Apr 8. PMID: 35396981

Wang Y, Zhang Y, Su X, Qiu Q, Yuan Y, Weng C, Zou S, Tian Y, Han W, Liu P, Guo X, Mao J, Fu X, Wang P, Lin W. Circular RNA circDVL1 inhibits clear cell renal cell carcinoma progression through the miR-412-3p/PCDH7 axis. Int J Biol Sci. 2022 Jan 24;18(4):1491-1507. doi: 10.7150/ijbs.69351. eCollection 2022. PMID: 35280687.

Choi J#, Kim JS, Sung HJ, Chen YW, Chen Z, Wen W, Shu XO, Guo X#. Polygenic Risk Scores Associated with Tumor Immune Infiltration in Common Cancers. Cancers (Basel). 2022 Nov 14;14(22):5571. doi: 10.3390/cancers14225571. PMID: 36428664.

Postoak JL, Song W, Yang G, Guo X, Xiao S, Saffold CE, Zhang J, Joyce S, Manley NR, Wu L, Van Kaer L. Thymic epithelial cells require lipid kinase Vps34 for CD4 but not CD8 T cell selection. J Exp Med. 2022 Oct 3;219(10):e20212554. doi: 10.1084/jem.20212554. Epub 2022 Aug 23. PMID: 35997680

Song W, Postoak JL, Yang G, Guo X, many others, Wu L, Van Kaer L. Lipid kinase PIK3C3 maintains healthy brown and white adipose tissues to prevent metabolic diseases. PNAS. 2022. https://doi.org/10.1073/pnas.2214874120. 

Huang S, Shu X, Ping J, Wu J, Wang J, Shidal C, Guo X, Bauer JA, Long J, Shu XO, Zheng W, Cai Q. TBX1 functions as a putative oncogene of breast cancer through promoting cell cycle progression. Carcinogenesis. 2022 Feb 11;43(1):12-20. doi: 10.1093/carcin/bgab111. PMID: 34919666 Free PMC article.

Wang X, Lu M, Gu H, Xiao T, Hu G, Luo M, Guo X, Xia Y. Conjugation of the Fn14 Ligand to a SMAC Mimetic Selectively Suppresses Experimental Squamous Cell Carcinoma in Mice. J Invest Dermatol. 2022 Sep 3:S0022-202X(22)01891-7. doi: 10.1016/j.jid.2022.08.039. PMID: 36063885

Shu X, Zhou Q, Sun X, Flesaker M, Guo X, Long J, Robson ME, Shu XO, Zheng W, Bernstein JL. Associations between circulating proteins and risk of breast cancer by intrinsic subtypes: a Mendelian randomisation analysis. Br J Cancer. 2022 Nov;127(8):1507-1514. doi: 10.1038/s41416-022-01923-2. Epub 2022 Jul 26. PMID: 35882941

Jia G, Ping J, Shu X, Yang Y, Cai Q, Kweon SS, Choi JY, Kubo M, Park SK, Bolla MK, Dennis J, Wang Q, Guo X, Li B, Tao R, many others, Zheng W. Genome- and transcriptome-wide association studies of 386,000 Asian and European-ancestry women provide new insights into breast cancer genetics.
Am J Hum Genet. 2022 Dec 1;109(12):2185-2195. doi: 10.1016/j.ajhg.2022.10.011. Epub 2022 Nov 9. PMID: 36356581.

Shu X, Chen Z, Long J, Guo X, Yang Y, many others, Zheng W. Large-scale Integrated Analysis of Genetics and Metabolomic Data Reveals Potential Links Between Lipids and Colorectal Cancer Risk. Cancer Epidemiol Biomarkers Prev. 2022 Jun 1;31(6):1216-1226. doi: 10.1158/1055-9965.EPI-21-1008. PMID: 35266989.

2021

Jahanafrooz Z, Chen Z, Bao J, Li H, Lipworth L, Guo X#. An overview of human proteins and genes involved in SARS-CoV-2 infection. Gene. 2022 Jan 15;808:145963.  PMID: 34530086

Huang S, Shu X, Ping J, Wu J, Wang J, Shidal C, Guo X, Bauer JA, Long J, Shu XO, Zheng W, Cai Q. TBX1 functions as a putative oncogene of breast cancer through promoting cell cycle progression. Carcinogenesis. 2021 Dec 17:bgab111. PMID: 34919666

Cao C, Kossinna P, Kwok D, Li Q, He J, Su L, Guo X, Zhang Q, Long Q. Disentangling genetic feature selection and aggregation in transcriptome-wide association studies. Genetics. 2021 Nov 27:iyab216. doi: 10.1093/genetics/iyab216.  PMID: 34849857

Zhu J, Yang Y, Kisiel JB, Mahoney DW, Michaud DS, Guo X, Taylor WR, Shu XO, Shu X, Liu D, Li B, Tao R, Cai Q, Zheng W, Long J, Wu L. Integrating Genome and Methylome Data to Identify Candidate DNA Methylation Biomarkers for Pancreatic Cancer Risk. Cancer Epidemiol Biomarkers Prev. 2021 Nov;30(11):2079-2087. PMID: 34497089

Discovery of structural deletions in breast cancer predisposition genes using whole genome sequencing data from > 2000 women of African-ancestry.
Chen Z, Guo X, Long J, Ping J, Li B, Fadden MK, Ahearn TU, Stram DO, Shu XO, Jia G, Figueroa J; Ghana Breast Health Study team, Palmer JR, Sanderson M, Haiman CA, Blot WJ, Garcia-Closas M, Cai Q, Zheng W. Hum Genet. 2021 Oct;140(10):1449-1457.  PMID: 34487234

Wen W#, Chen Z, Bao J, Long Q, Shu XO, Zheng W, Guo X#. Genetic variations of DNA bindings of FOXA1 and co-factors in breast cancer susceptibility. Nature communcations 10.1038/s41467-021-25670-9. (#corresponding author) 

Ren H, Guo X, Palazón-Bru A, Yang P, Huo N, Wang R, Sun Y, Hu Q, Yang H, Xu G. Regional Differences in Epidemiological and Clinical Characteristics, Treatment, and Clinical Outcomes of COVID-19 in Wuhan and Remote Areas of Hubei Province. Front Med (Lausanne). 2021 Jul 15;8:667623. PMID: 34336881.

Saab-Chalhoub MW, Guo X, Shi Q, Chernock RD, Lewis JS Jr. Low Grade Papillary Sinonasal (Schneiderian) Carcinoma: A Series of Five Cases of a Unique Malignant Neoplasm with Comparison to Inverted Papilloma and Conventional Nonkeratinizing Squamous Cell Carcinoma. Head Neck Pathol. 2021 May 26. doi: 10.1007/s12105-021-01335-3.  PMID: 34041710.

Functional Genomic Analyses of the 21q22.3 Locus Identifying Functional Variants and Candidate Gene YBEY for Breast Cancer Risk.
Shidal C, Shu X, Wu J, Wang J, Huang S, Long J, Bauer JA, Ping J, Guo X, Zheng W, Shu XO, Cai Q. Cancers (Basel). 2021 Apr 23;13(9):2037. PMID: 33922500.

Yuan Y*, Bao J*, Chen Z, Villanueva AD, Wen W, Wang F, Zhao D, Fu X, Cai Q, Long J, Shu XO, Zheng D, Moreno V, Zheng W, Lin W#, Guo X# . Multi-omics analysis to identify susceptibility genes for colorectal cancer. Hum Mol Genet. 2021 Jan 22:ddab021. doi: 10.1093/hmg/ddab021. Online ahead of print.
PMID: 33481017.  (#corresponding author) 

Campbell BR, Chen Z, Faden DL, Agrawal N, Li RJ, Hanna GJ, Iyer NG, Boot A, Rozen SG, Vettore AL, Panda B, Krishnan NM, Pickering CR, Myers JN, Guo X* , Lang Kuhs KA*. The mutational landscape of early- and typical-onset oral tongue squamous cell carcinoma.  Cancer. 2021 Feb 15;127(4):544-553. doi: 10.1002/cncr.33309. Epub 2020 Nov 4. PMID: 33146897. (*equal contribution) 

2020
Holowatyj AN#, Eng C, Wen W, Idrees K, Guo X#. Spectrum of Somatic Cancer Gene Variations Among Adults With Appendiceal Cancer by Age at Disease Onset. JAMA Netw Open. 2020 Dec 1;3(12):e2028644. doi: 10.1001/jamanetworkopen.2020.28644. PMID: 33295976. (#corresponding author)  

Ping J, Huang S, Wu J, Bao P, Su T, Gu K, Cai H, Guo X, Lipworth L, Blot WJ, Zheng W, Cai Q, Shu XO. Association between lincRNA expression and overall survival for patients with triple-negative breast cancer. Breast Cancer Res Treat. 2020 Nov 27. doi: 10.1007/s10549-020-06021-6. Online ahead of print.
PMID: 33247368.

Guo X#,*, Lin W*, Wen W, Huyghe J, Bien S, Cai Q, Harrison T, Chen Z, Qu C, Bao J, Long J, ... Casey G, Hsu L, Jenkins MA, Gruber SB, Peters U, Zheng W.Identifying Novel Susceptibility Genes for Colorectal Cancer Risk From a Transcriptome-Wide Association Study of 125,478 Subjects. Gastroenterology. 2020 Oct 12:S0016-5085(20)35243-4. doi: 10.1053/j.gastro.2020.08.062. Online ahead of print. PMID: 33058866. ( #corresponding author; *equal contribution )  

Chen Z, Wen W, Cai Q, Long J, Wang Y, Lin W, Shu XO, Zheng W, Guo X# . From tobacco smoking to mutational signature: the role of epigenetic changes in human cancers. BMC Cancer. 2020 Sep 14;20(1):880. doi: 10.1186/s12885-020-07368-1.PMID: 32928150. (#Corresponding author) 

Guo X# , Chen Z, Xia Y, Lin W#. Li H#. Investigation of the genetic variation in ACE2 on the structural recognition by the novel coronavirus (SARS-CoV-2). Journal of Translational Medicine. 2020 Aug 24;18(1):321. PMID: 3283110. (#corresponding author)  

Wu L, Yang Y, Guo X, Shu XO, Cai Q, Shu X, Li B, Tao R, Wu C, Nikas JB, Sun Y, Zhu J, Roobol MJ, Giles GG, Brenner H, John EM, Clements J, Grindedal EM, Park JY, Stanford JL, Kote-Jarai Z, Haiman CA, Eeles RA, Zheng W, Long J; PRACTICAL consortium; CRUK Consortium; BPC3 Consortium; CAPS Consortium; PEGASUS Consortium. An integrative multi-omics analysis to identify candidate DNA methylation biomarkers related to prostate cancer risk. Nat Commun. 2020 Aug 6;11(1):3905. PMID: 32764609.    

Zhu J, Shu X, Guo X, Liu D, Bao J, ... Shu XO, Zheng W, Wu L. Associations between genetically predicted blood protein biomarkers and pancreatic cancer risk . Cancer Epidemiol Biomarkers Prev. 2020 Jul;29(7):1501-1508. PMID: 32439797.   

Zeng C, Guo X, Wen W, Shi J, Long J, Cai Q, Shu XO, Xiang Y, Zheng W. Evaluation of pathogenetic mutations in breast cancer predisposition genes in population-based studies conducted among Chinese women. Breast Cancer Res Treat. 2020 Apr 21. doi: 10.1007/s10549-020-05643-0. [Epub ahead of print] PMID: 32318955.    

Ping J, Guo X, Ye F, Long J, Lipworth L, Cai Q, Blot W, Shu XO, Zheng W. Differences in Gene-Expression Profiles in Breast Cancer between African and European-ancestry Women. Carcinogenesis. 2020 Apr 8. pii: bgaa035. doi: 10.1093/carcin/bgaa035. [Epub ahead of print] PMID: 32267939.    

Shu X, Long J, Cai Q, Kweon SS, Choi JY, Kubo M, Park SK, Bolla MK, Dennis J, Wang Q, Yang Y, Shi J, Guo X, ... Easton DF, Simard J, Zheng W. Identification of novel breast cancer susceptibility loci in meta-analyses conducted among Asian and European descendants. Nat Commun. 2020 Mar 5;11(1):1217. doi: 10.1038/s41467-020-15046-w. PMID: 32139696.

Lu Y, Kweon SS, Cai Q, Tanikawa C, Shu XO, Jia WH, Xiang YB, Huyghe JR, Harrison TA, Kim J, Shin A, Kim DH, Matsuo K, Jee SH, Guo X, ... Hsu L, Zeng YX, Long J, Peters U, Matsuda K, Zheng W. Identification of Novel Loci and New Risk Variant in Known Loci for Colorectal Cancer Risk in East Asians. Cancer Epidemiol Biomarkers Prev. 2020 Feb;29(2):477-486. doi: 10.1158/1055-9965.EPI-19-0755. Epub 2019 Dec 11. PMID: 31826910.

2019    
Guo X# , Long J, Chen Z, Shu XO, Xiang YB, Wen W, Zeng C, Gao Y, Cai Q, Zheng W. Discovery of rare coding variants in OGDHL and BRCA2 in relation to breast cancer risk in Chinese women. Int J Cancer. 2019 Dec 13. PMID: 31837001.  (#corresponding author)   

Xue Y, Lian W, Zhi J, Yang W, Li Q, Guo X, Gao J, Qu H, Lin W, Li Z, Lai L, Wang Q. HDAC5-mediated deacetylation and nuclear localisation of SOX9 is critical for tamoxifen resistance in breast cancer. Br J Cancer. 2019 Nov 6. PMID: 31690832.  
  
Zhao J, Giri A, Zhu X, Shrubsole MJ, Jiang Y, Guo X, Ness R, Seidner DL, Giovannucci E, Edwards TL, Dai Q. Calcium: magnesium intake ratio and colorectal carcinogenesis, results from the prostate, lung, colorectal, and ovarian cancer screening trial. Br J Cancer. 2019 Oct;121(9):796-804. PMID: 31543516. 

Chen Z, Wen W, Bao J, Kuhs KL, Cai Q, Long J, Shu XO, Zheng W, Guo X# . Integrative genomic analyses of APOBEC-mutational signature, expression and germline deletion of APOBEC3 genes, and immunogenicity in multiple cancer types. BMC Med Genomics. 2019 Sep 18;12(1):131. PMID: 31533728. (#corresponding author)   

Chen Z, Wen W, Beeghly-Fadiel A, Shu XO, Díez-Obrero V, Long J, Bao J, Wang J, Liu Q, Cai Q, Moreno V, Zheng W, Guo X# . Identifying Putative Susceptibility Genes and Evaluating Their Associations with Somatic Mutations in Human Cancers. Am J Hum Genet. 2019 Jul 26. pii: S0002-9297(19)30269-1. PMID: 31402092. (#corresponding author; VUMC reporter/ Medical Xpress/BioArt/genomeweb) 
   
Wu L, Shu X, Bao J, Guo X, Kote-Jarai Z, Haiman CA, Eeles RA, Zheng W; PRACTICAL, CRUK, BPC3, CAPS, PEGASUS Consortia. Analysis of Over 140,000 European Descendants Identifies Genetically Predicted Blood Protein Biomarkers Associated with Prostate Cancer Risk. Cancer Res. 2019 Sep 15;79(18):4592-4598. doi: 10.1158/0008-5472.CAN-18-3997. Epub 2019 Jul 23. PMID: 31337649   
 
Shu X, Bao J, Wu L, Long J, Shu XO, Guo X, Yang Y, ... Simard J, Easton DF, Zheng W. Evaluation of associations between genetically predicted circulating protein biomarkers and breast cancer risk. Int J Cancer. 2019 Jul 2. PMID: 31265136.    

Guo X# , Lin W#, Bai M, Li H, Wen W, Zeng C, Chen Z, He J, Chen J, Cai Q, Long J, Jia WH, Shu XO, Zheng W. Discovery of a Pathogenic Variant rs139379666 (p. P2974L) in ATM for Breast Cancer Risk in Chinese Populations. Cancer Epidemiol Biomarkers Prev. 2019 Aug;28(8):1308-1315. PMID: 31160347. ( #corresponding author; cover image)    

Yang Y, Wu L, Shu XO, Cai Q, Shu X, Li B, Guo X, Ye F, ... Easton DF, Zheng W, Long J. Genetically Predicted Levels of DNA Methylation Biomarkers and Breast Cancer Risk: Data From 228 951 Women of European Descent. J Natl Cancer Inst. 2020 Mar 1;112(3):295-304. doi: 10.1093/jnci/djz109. PMID: 31143935    

Wu L, Wang J, Cai Q, Cavazos TB, Emami NC, Long J, Shu XO, Lu Y, Guo X, Bauer JA, Pasaniuc B, Penney KL, Freedman ML, Kote-Jarai Z, Witte JS, Haiman CA, Eeles RA, Zheng W; PRACTICAL, CRUK, BPC3, CAPS, PEGASUS Consortia.. Identification of Novel Susceptibility Loci and Genes for Prostate Cancer Risk: A Transcriptome-Wide Association Study in Over 140,000 European Descendants. Cancer Res. 2019 Jul 1;79(13):3192-3204. PMID: 31101764    

Bien SA, Su YR, Conti DV, Harrison TA, Qu C, Guo X, ... Casey G, Nickerson DA, Gruber SB, Hsu L, Zheng W, Peters U.. Genetic variant predictors of gene expression provide new insight into risk of colorectal cancer. Hum Genet. 2019 Feb 28. doi: 10.1007/s00439-019-01989-8. PMID: 30820706.  

2018  
Lu Y, Kweon SS, Tanikawa C, Jia WH, Xiang YB, Cai Q, Zeng C, Schmit SL, Shin A, Matsuo K, Jee SH, Kim DH, Kim J, Wen W, Shi J, Guo X, ... Long J, Matsuda K, Zheng W. Large-scale Genome-wide Association Study of East Asians Identifies Loci Associated With Risk for Colorectal Cancer. Gastroenterology. 2018 Dec 6. pii: S0016-5085(18)35385-X. PMID: 30529582.    

Lu Y, Beeghly-Fadiel A, Wu L, Guo X, Li B, ... Pharoah PDP, Zheng W, Long J.. A Transcriptome-Wide Association Study Among 97,898 Women to Identify Candidate Susceptibility Genes for Epithelial Ovarian Cancer Risk. Cancer Res. 2018 Sep 15;78(18):5419-5430. PMID: 30054336. PMCID: PMC6139053.   
 
Wu L, Shi W, Long J, Guo X, ... Kraft P, Easton DF, Chenevix-Trench G, Zheng W. A transcriptome-wide association study of 229,000 women identifies new candidate susceptibility genes for breast cancer.  Nat Genet. 2018 Jul;50(7):968-978.PMID: 29915430.    

Shi J, Wu L, Li B, Lu Y, Guo X, Cai Q, Long J, Wen W, Zheng W, Shu XO. Transcriptome-Wide Association Study Identifies Susceptibility Loci and Genes for Age at Natural Menopause. Reprod Sci. 2019 Apr;26(4):496-502. doi: 10.1177/1933719118776788. Epub 2018 May 30. 

Wang S, Beeghly-Fadiel A, Cai Q, Cai H, Guo X, Shi L, Wu J, Ye F, Qiu Q, Zheng Y, Zheng W, Bao PP, Shu XO. Gene expression in triple-negative breast cancer in relation to survival. Breast Cancer Res Treat. 2018 Aug;171(1):199-207. PMID: 29748761.    

Guo X#,* , Lin W*, Bao J, Cai Q, Pan X, Bai M, Yuan Y, Shi J, Sun Y, Han MR, Wang J, Liu Q, Wen W, Li B, Long J, Chen J, Zheng W. A Comprehensive cis-eQTL Analysis Revealed Target Genes in Breast Cancer Susceptibility Loci Identified in Genome-wide Association Studies. Am J Hum Genet. 2018 May 3;102(5):890-903. PMID: 29727689. PMCID: PMC5986971. ( #corresponding author; *equal contribution;  VUMC reporter)    

Liu M, Zhu J, Wu S, Wang C, Guo X, Wu J, Zhou M. De novo assembly and analysis of the Artemisia argyi transcriptome and identification of genes involved in terpenoid biosynthesis. Sci Rep. 2018 Apr 11;8(1):5824. doi: 10.1038/s41598-018-24201-9.    PMID: 2964339743    

Guo X# , Shi J, Cai Q, Shu XO, He J, Wen W, Allen J, Pharoah P, Dunning A, Hunter DJ, Kraft P, Easton DF, Zheng W, Long J. Use of deep whole genome sequencing data to identify structure risk variants in breast cancer susceptibility genes. Human Molecular Genetics. 2018 Jan 8. doi: 10.1093/hmg/ddy005. PMID: 29325031. (#corresponding author)   

2017
Seki Y, Suzuki M, Guo X, Glenn AS, Vuguin PM, Fiallo A, Du Q, Ko YA, Yu Y, Susztak K, Zheng D, Greally JM, Katz EB, Charron MJ. In utero exposure to a high-fat diet programs hepatic hypermethylation and gene dysregulation and development of metabolic syndrome in male mice. Endocrinology, 2017.   
  
Lin W, Lin H, Guo X, Lin Y, Su F, Jia W, Tang L, Zheng W, Long J, Ren Z. Allelic expression imbalance polymorphisms in susceptibility chromosome regions and the risk and survival of breast cancer. Molecular carcinogenesis. 2017;56(1):300-11. doi: 10.1002/mc.22493. PubMed PMID: 27128794.    

2016
Wen W, Shu XO, Guo X, Cai Q, ... Easton DF, Zheng W.. Prediction of breast cancer risk based on common genetic variants in women of East Asian ancestry. Breast cancer research : BCR. 2016;18(1):124. doi: 10.1186/s13058-016-0786-1. PubMed PMID: 27931260; PMCID: 5146840.     

Zhang Y, Wagner EK, Guo X, May I, Cai Q, Zheng W, He C, Long J. Long intergenic non-coding RNA expression signature in human breast cancer. Scientific reports. 2016;6:37821. doi: 10.1038/srep37821. PubMed PMID: 27897201; PMCID: 5126689.    

Johnson DB, Frampton GM, Rioth MJ, Yusko E, Xu Y, Guo X, ... Sosman JA, Lovly CM. Targeted Next Generation Sequencing Identifies Markers of Response to PD-1 Blockade. Cancer Immunol Res. 2016 Nov;4(11):959-967. Epub 2016 Sep 26. PMID: 27671167    

Wang Y, Guo X, Bray MJ, Ding Z, Zhao Z. An integrative genomics approach for identifying novel functional consequences of PBRM1 truncated mutations in clear cell renal cell carcinoma (ccRCC). BMC genomics. 2016;17 Suppl 7:515. doi: 10.1186/s12864-016-2906-9. PubMed PMID: 27556922; PMCID: 5001239.  

 Zeng C, Guo X, Long J, ... Simard J, Couch FJ, Antoniou AC, Easton DF, Zheng W. Identification of independent association signals and putative functional variants for breast cancer risk through fine-scale mapping of the 12p11 locus. Breast cancer research : BCR. 2016;18(1):64. doi: 10.1186/s13058-016-0718-0. PubMed PMID: 27459855; PMCID: 4962376.    

Guo X, Delio M, Haque N, Castellanos R, Hestand MS, Vermeesch JR, Morrow BE, Zheng D. Variant discovery and breakpoint region prediction for studying the human 22q11.2 deletion using BAC clone and whole genome sequencing analysis. Hum Mol Genet. 2016 Sep 1;25(17):3754-3767. PMID: 27436579. 

Han MR, Long J, Choi JY, Low SK, Kweon SS, Zheng Y, Cai Q, Shi J, Guo X, ... Shu XO, Kang D, Zheng W. Genome-wide association study in East Asians identifies two novel breast cancer susceptibility loci. Human molecular genetics. 2016;25(15):3361-71. doi: 10.1093/hmg/ddw164. PubMed PMID: 27354352; PMCID: 5179918.    

Guo X, Cai Q, Bao P, Wu J, Wen W, Ye F, Zheng W, Zheng Y, Shu XO. Long-term soy consumption and tumor tissue MicroRNA and gene expression in triple-negative breast cancer. Cancer. 2016;122(16):2544-51. doi: 10.1002/cncr.29981. PubMed PMID: 27183356; PMCID: 4974138.    

Shi J, Zhang Y, Zheng W, Michailidou K, Ghoussaini M, Bolla MK, Wang Q, Dennis J, Lush M, Milne RL, Shu XO, Beesley J, Kar S, Andrulis IL, Anton-Culver H, Arndt V, Beckmann MW, Zhao Z, Guo X, ... Antoniou AC, Easton DF, Cai Q, Long J.. International journal of cancer. 2016;139(6):1303-17. doi: 10.1002/ijc.30150. PubMed PMID: 27087578; PMCID: 5110427.    

Zeng C, Matsuda K, Jia WH, Chang J, Kweon SS, Xiang YB, Shin A, Jee SH, Kim DH, Zhang B, Cai Q, Guo X, ... Shu XO, Lin D, Zeng YX, Zheng W. Identification of Susceptibility Loci and Genes for Colorectal Cancer Risk. Gastroenterology. 2016;150(7):1633-45. doi: 10.1053/j.gastro.2016.02.076. PubMed PMID: 26965516; PMCID: 4909543.    

Wen W*, Kato N*, Hwang JY*, Guo X* , Tabara Y*, Li H, ... Takeuchi F, Zheng W, Shu XO. Genome-wide association studies in East Asians identify new loci for waist-hip ratio and waist circumference. Scientific reports. 2016;6:17958. doi: 10.1038/srep17958. PubMed PMID: 26785701; PMCID: 4726286. (*equal contribution)    

2015
Zhang Y, Delahanty R, Guo X, Zheng W, Long J. Integrative genomic analysis reveals functional diversification of APOBEC gene family in breast cancer. Human genomics. 2015;9(1):34. doi: 10.1186/s40246-015-0056-9. PubMed PMID: 26682542; PMCID: 4684623.   
 
Sun Y, Ye C, Guo X, Wen W, Long J, Gao YT, Shu XO, Zheng W, Cai Q. Evaluation of potential regulatory function of breast cancer risk locus at 6q25.1. Carcinogenesis. 2016;37(2):163-8. doi: 10.1093/carcin/bgv170. PubMed PMID: 26645718; PMCID: 5006208.   
 
Liu Y, Cai Q, Bao PP, Su Y, Cai H, Wu J, Ye F, Guo X, Zheng W, Zheng Y, Shu XO. Tumor tissue microRNA expression in association with triple-negative breast cancer outcomes. Breast cancer research and treatment. 2015;152(1):183-91. doi: 10.1007/s10549-015-3460-x. PubMed PMID: 26062749; PMCID: 4484742.    

Guo X, Xu Y, Zhao Z. In-depth genomic data analyses revealed complex transcriptional and epigenetic dysregulations of BRAFV600E in melanoma. Molecular cancer. 2015;14:60. doi: 10.1186/s12943-015-0328-y. PubMed PMID: 25890285; PMCID: 4373107.  
  
G uo X, Long J, Zeng C, ... Dunning AM, Easton DF, Zheng W.. Fine-scale mapping of the 4q24 locus identifies two independent loci associated with breast cancer risk. Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology. 2015;24(11):1680-91. doi: 10.1158/1055-9965.EPI-15-0363. PubMed PMID: 26354892; PMCID: 4633342. (cover image)    

Caescu CI, Guo X, Tesfa L, Bhagat TD, Verma A, Zheng D, Stanley ER. Colony stimulating factor-1 receptor signaling networks inhibit mouse macrophage inflammatory responses by induction of microRNA-21. Blood. 2015;125(8):e1-13. doi: 10.1182/blood-2014-10-608000. PubMed PMID: 25573988; PMCID: 4335087.    

2009- 2014 
Xu Y, Guo X, Sun J, Zhao Z. Snowball: resampling combined with distance-based regression to discover transcriptional consequences of a driver mutation. Bioinformatics. 2014. doi: 10.1093/bioinformatics/btu603. PubMed PMID: 25192743.    

Wen W, Zheng W, Okada Y, Takeuchi F, Tabara Y, Hwang JY, Dorajoo R, Li H, Tsai FJ, Yang X, He J, Wu Y, He M, Zhang Y, Liang J, Guo X, Sheu WH, Delahanty R, Guo X, ... Shu XO, Tanaka T. Meta-analysis of genome-wide association studies in East Asian-ancestry populations identifies four new loci for body mass index. Human molecular genetics. 2014;23(20):5492-504. doi: 10.1093/hmg/ddu248. PubMed PMID: 24861553; PMCID: 4168820.    

Guo X, Lin M, Rockowitz S, Lachman HM, Zheng D. Characterization of human pseudogene-derived non-coding RNAs for functional potential. PloS one. 2014;9(4):e93972. doi: 10.1371/journal.pone.0093972. PubMed PMID: 24699680; PMCID: 3974860.    

Keyes BE, Segal JP, Heller E, Lien WH, Chang CY, Guo X, Oristian DS, Zheng D, Fuchs E. Nfatc1 orchestrates aging in hair follicle stem cells. Proceedings of the National Academy of Sciences of the United States of America. 2013;110(51):E4950-9. doi: 10.1073/pnas.1320301110. PubMed PMID: 24282298; PMCID: 3870727.    

Folgueras AR, Guo X, Pasolli HA, Stokes N, Polak L, Zheng D, Fuchs E. Architectural niche organization by LHX2 is linked to hair follicle stem cell function. Cell stem cell. 2013;13(3):314-27. doi: 10.1016/j.stem.2013.06.018. PubMed PMID: 24012369; PMCID: 3856689.    

Wontakal SN*, Guo X* , Smith C, MacCarthy T, Bresnick EH, Bergman A, Snyder MP, Weissman SM, Zheng D, Skoultchi AI. A core erythroid transcriptional network is repressed by a master regulator of myelo-lymphoid differentiation. Proceedings of the National Academy of Sciences of the United States of America. 2012;109(10):3832-7. doi: 10.1073/pnas.1121019109. PubMed PMID: 22357756; PMCID: 3309740. (*equal contribution)    

Wontakal SN*, Guo X*, Will B, Shi M, Raha D, Mahajan MC, Weissman S, Snyder M, Steidl U, Zheng D, Skoultchi AI. A large gene network in immature erythroid cells is controlled by the myeloid and B cell transcriptional regulator PU.1. PLoS genetics. 2011;7(6):e1001392. doi: 10.1371/journal.pgen.1001392. PubMed PMID: 21695229; PMCID: 3111485. (*equal contribution)    

Pedrosa E, Sandler V, Shah A, Carroll R, Chang C, Rockowitz S, Guo X, Zheng D, Lachman HM. Development of patient-specific neurons in schizophrenia using induced pluripotent stem cells. Journal of neurogenetics. 2011;25(3):88-103. doi: 10.3109/01677063.2011.597908. PubMed PMID: 21797804.  
  
Lien WH, Guo X, Polak L, Lawton LN, Young RA, Zheng D, Fuchs E. Genome-wide maps of histone modifications unwind in vivo chromatin states of the hair follicle lineage. Cell stem cell. 2011;9(3):219-32. doi: 10.1016/j.stem.2011.07.015. PubMed PMID: 21885018; PMCID: 3166618.     

Guo X, Freyer L, Morrow B, Zheng D. Characterization of the past and current duplication activities in the human 22q11.2 region. BMC genomics. 2011;12:71. doi: 10.1186/1471-2164-12-71. PubMed PMID: 21269513; PMCID: 3040729.    

Pedrosa E, Shah A, Tenore C, Capogna M, Villa C, Guo X, Zheng D, Lachman HM. beta-catenin promoter ChIP-chip reveals potential schizophrenia and bipolar disorder gene network. Journal of neurogenetics. 2010;24(4):182-93. doi: 10.3109/01677063.2010.495182. PubMed PMID: 20615089.  
  
Goldberg AD, Banaszynski LA, Noh KM, Lewis PW, Elsaesser SJ, Stadler S, Dewell S, Law M, Guo X, ... Urnov FD, Zheng D, Allis CD. Distinct factors control histone variant H3.3 localization at specific genomic regions. Cell. 2010;140(5):678-91. doi: 10.1016/j.cell.2010.01.003. PubMed PMID: 20211137; PMCID: 2885838.  

Chi P, Chen Y, Zhang L, Guo X,Wongvipat J, Shamu T, Fletcher JA, Dewell S, Maki RG, Zheng D, Antonescu CR, Allis CD, Sawyers CL. ETV1 is a lineage  survival factor that cooperates with KIT in gastrointestinal stromal tumours. Nature. 2010;467(7317):849-53. doi: 10.1038/nature09409. PubMed PMID: 20927104; PMCID: 2955195.    

Guo X, Zhang Z, Gerstein MB, Zheng D. Small RNAs originated from pseudogenes: cis- or trans-acting? PLoS computational biology. 2009;5(7):e1000449. doi: 10.1371/journal.pcbi.1000449. PubMed PMID: 19649160; PMCID: 2708354.