Publications

  1. Scherer SW, Cheung J, Venter JC, Li PW, Mural RJ, Adams MD, Tsui LC. Human chromosome 7: DNA sequence and biology. Science. 2003 May 2; 300(5620):767-72.
    View PubMed
  2. Li P. Biological Data Extinction. OMICS. 2003 Spr; 7(1):49-50.
    View PubMed
  3. Mural RJ, Adams MD, Myers EW, Smith HO, Miklos GL, Wides R, Halpern A, Li PW, et al. A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome. Science. 2002 May 31; 296(5573):1661-71.
    View PubMed
  4. Rubin GM, Yandell MD, Wortman JR, Gabor Miklos GL, Nelson CR, Hariharan IK, Fortini ME, Li PW, Apweiler R, Fleischmann W, Cherry JM, Henikoff S, Skupski MP, Misra S, Ashburner M, Birney E, Boguski MS, Brody T, Brokstein P, Celniker SE, Chervitz SA, Coates D, Cravchik A, Gabrielian A, Galle RF, Gelbart WM, George RA, Goldstein LS, Gong F, Guan P, Harris NL, Hay BA, Hoskins RA, Li J, Li Z, Hynes RO, Jones SJ, Kuehl PM, Lemaitre B, Littleton JT, Morrison DK, Mungall C, O'Farrell PH, Pickeral OK, Shue C, Vosshall LB, Zhang J, Zhao Q, Zheng XH, Lewis S. D, Cravchik A, Gabrielian A, Galle RF, Gelbart WM, George RA, Goldstein LS, Gong F, Guan P, Harris NL, Hay BA, Hoskins RA, Li J, Li Z, Hynes RO, Jones SJ, Kuehl PM, Lemaitre B, Littleton JT, Morrison DK, Mungall C, O'Farrell PH, Pickeral OK, Shue C, Voss Comparative genomics of the eukaryotes. Science. 2000 Mar 24; 287(5461):2204-15.
    View PubMed
  5. Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD, Amanatides PG, Scherer, SE, Li PW, et al. The Genome Sequence of Drosophila melanogaster. Science. 2000 Mar 24; 287(5461):2185-95.
    View PubMed
  6. Letovsky S, Cottingham R, Porter C, Li P. GDB: the Human Genome Database. Nucleic Acid Research. 1998; 26(1):94-9.
    View PubMed
  7. Fasman KH, Letovsky SI, Li P, Cottingham RW, Kingsbury DT. The GDB Human Genome Database Anno 1997. Nucleic Acids Res 1 1997 Jan 1; 25(1):72-81.
    View PubMed
  8. Pearson P, Francomano C, Foster P, Bocchini C, Li P, McKusick V. The status of online Mendelian inheritance in man (OMIM) medio 1994. Nucleic Acids Res. 1994 Sep; 22(17):3470-3.
    View PubMed
  9. Florea L, Di Francesco V, Miller J, Turner R, Yao A, Harris M, Walenz B, Mobarry C, Merkulov GV, Charlab R, Dew I, Deng Z, Istrail S, Li P, Sutton G. Gene and alternative splicing annotation with AIR. Genome Res. 2005 Jan; 15(1):54-66.
    View PubMed
  10. Li P, Waldo D, Pineo S, Foster P. An efficient delivery historical information for the mendelian inheritance in Man Database. JAMIA Symposium Supplement:1995 SCAMC Proceedings. New Orleans,LA, 1995 Nov:127-31.
  11. Li P, Fasman K. Toolkit technology for database federation. 1995 Annual Meeting of CODATA Task Group on Biological Macromolecules. George Mason University, Fairfax, Virginia, 1995 Jun.
  12. Li P, Kramer L, Pineo S, Kulp D. Evolving a legacy system: restructuring the mendelian inheritance in Man Database. JAMIA Symposium Supplement: SCAMC Proceedings. Washington, DC. 1994 Nov:344-8.
  13. Brzoska PM, Brown C, Cassel M, Ceccardi T, Di Francisco V, Dubman A, Evans J, Fang R, Harris M, Hoover J, Hu F, Larry C, Li P, Malicdem M, Maltchenko S, Shannon M, Perkins S, Poulter K, Webster-Laig M, Xiao C, Young S, Spier G, Guegler K, Gilbert D, Samaha RR. Samaha RR. An efficient and high-throughput approach for experimental validation of novel human gene predictions. Genomics. 2006 Apr; 87(4):437-45. Epub 2006 Jan 09.
    View PubMed
  14. Bailey JA, Gu Z, Clark RA, Reinert K, Samonte RV, Schwartz S, Adams MD, Myers EW, Li PW, Eichler EE. Recent segmental duplications in the human genome. Science. 2002 Aug 9; 297(5583):1003-7.
    View PubMed
  15. Kerlavage A, Bonazzi V, di Tommaso M, Lawrence C, Li P, Mayberry F, Mural R, Nodell M, Yandell M, Zhang J, Thomas P. The Celera Discovery System. Nucleic Acids Res. 2002 Jan 1; 30(1):129-36.
    View PubMed
  16. Yao A, Charlab R, Li P. Systematic identification of pseudogenes through whole genome expression evidence profiling. Nucleic Acids Res. 2006; 34(16):4477-85. Epub 2006 Aug 31.
    View PubMed
  17. Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA, Gocayne JD, Amanatides P, Ballew RM, Huson DH, Wortman JR, Zhang Q, Kodira CD, Zheng XH, Chen L, Skupski M, Subramanian G, Thomas PD, Zhang J, Gabor Miklos GL, Nelson C, Broder S, Clark AG, Nadeau J, McKusick VA, Zinder N, Levine AJ, Roberts RJ, Simon M, Slayman C, Hunkapiller M, Bolanos R, Delcher A, Dew I, Fasulo D, Flanigan M, Florea L, Halpern A, Hannenhalli S, Kravitz S, Levy S, Mobarry C, Reinert K, Remington K, Abu-Threideh J, Beasley E, Biddick K, Bonazzi V, Brandon R, Cargill M, Chandramouliswaran I, Charlab R, Chaturvedi K, Deng Z, Di Francesco V, Dunn P, Eilbeck K, Evangelista C, Gabrielian AE, Gan W, Ge W, Gong F, Gu Z, Guan P, Heiman TJ, Higgins ME, Ji RR, Ke Z, Ketchum KA, Lai Z, Lei Y, Li Z, Li J, Liang Y, Lin X, Lu F, Merkulov GV, Milshina N, Moore HM, Naik AK, Narayan VA, Neelam B, Nusskern D, Rusch DB, Salzberg S, Shao W, Shue B, Sun J, Wang Z, Wang A, Wang X, Wang J, Wei M, Wides R, Xiao C, Yan C, Yao A, Ye J, Zhan M, Zhang W, Zhang H, Zhao Q, Zheng L, Zhong F, Zhong W, Zhu S, Zhao S, Gilbert D, Baumhueter S, Spier G, Carter C, Cravchik A, Woodage T, Ali F, An H, Awe A, Baldwin D, Baden H, Barnstead M, Barrow I, Beeson K, Busam D, Carver A, Center A, Cheng ML, Curry L, Danaher S, Davenport L, Desilets R, Dietz S, Dodson K, Doup L, Ferriera S, Garg N, Gluecksmann A, Hart B, Haynes J, Haynes C, Heiner C, Hladun S, Hostin D, Houck J, Howland T, Ibegwam C, Johnson J, Kalush F, Kline L, Koduru S, Love A, Mann F, May D, McCawley S, McIntosh T, McMullen I, Moy M, Moy L, Murphy B, Nelson K, Pfannkoch C, Pratts E, Puri V, Qureshi H, Reardon M, Rodriguez R, Rogers YH, Romblad D, Ruhfel B, Scott R, Sitter C, Smallwood M, Stewart E, Strong R, Suh E, Thomas R, Tint NN, Tse S, Vech C, Wang G, Wetter J, Williams S, Williams M, Windsor S, Winn-Deen E, Wolfe K, Zaveri J, Zaveri K, Abril JF, Guigo R, Campbell MJ, Sjolander KV, Karlak B, Kejariwal A, Mi H, Lazareva B, Hatton T, Narechania A, Diemer K, Muruganujan A, Guo N, Sato S, Bafna V, Istrail S, Lippert R, Schwartz R, Walenz B, Yooseph S, Allen D, Basu A, Baxendale J, Blick L, Caminha M, Carnes-Stine J, Caulk P, Chiang YH, Coyne M, Dahlke C, Mays A, Dombroski M, Donnelly M, Ely D, Esparham S, Fosler C, Gire H, Glanowski S, Glasser K, Glodek A, Gorokhov M, Graham K, Gropman B, Harris M, Heil J, Henderson S, Hoover J, Jennings D, Jordan C, Jordan J, Kasha J, Kagan L, Kraft C, Levitsky A, Lewis M, Liu X, Lopez J, Ma D, Majoros W, McDaniel J, Murphy S, Newman M, Nguyen T, Nguyen N, Nodell M. GL, Nelson C, Broder S, Clark AG, Nadeau J, McKusick VA, Zinder N, Levine AJ, Roberts RJ, Simon M, Slayman C, Hunkapiller M, Bolanos R, Delcher A, Dew I, Fasulo D, Flanigan M, Florea L, Halpern A, Hannenhalli S, Kravitz S, Levy S, Mobarry C, Reinert K, R The sequence of the human genome. Science. 2001 Feb 16; 291(5507):1304-51.
    View PubMed
  18. Oberg AL, Kennedy RB, Li P, Ovsyannikova IG, Poland GA. Systems biology approaches to new vaccine development. Curr Opin Immunol. 2011 Jun; 23(3):436-43. Epub 2011 May 11.
    View PubMed
  19. Simon GJ, Li PW, Jack CR Jr, Vemuri P. Understanding atrophy trajectories in Alzheimer's disease using association rules on MRI images. Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. 2011:369-76.
  20. Simon GJ, Kumar V, Li PW. A simple statistical model and association rule filtering for classification. Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. 2011; 823-31.
  21. Kolbert CP, Feddersen RM, Rakhshan F, Grill DE, Simon G, Middha S, Jang JS, Simon V, Schultz DA, Zschunke M, Lingle W, Carr JM, Thompson EA, Oberg AL, Eckloff BW, Wieben ED, Li P, Yang P, Jen J. Multi-platform analysis of microRNA expression measurements in RNA from fresh frozen and FFPE tissues. PLoS One. 2013; 8(1):e52517. Epub 2013 Jan 31.
    View PubMed
  22. Hellmann I, Mang Y, Gu Z, Li P, de la Vega FM, Clark AG, Nielsen R. Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals. Genome Res. 2008 Jul; 18(7):1020-9. Epub 2008 Apr 14
    View PubMed
  23. McKinney BA, White BC, Grill DE, Li PW, Kennedy RB, Poland GA, Oberg AL. ReliefSeq: a gene-wise adaptive-K nearest-neighbor feature selection tool for finding gene-gene interactions and main effects in mRNA-Seq gene expression data. PLoS One. 2013; 8(12):e81527. Epub 2013 Dec 10.
    View PubMed
  24. Simon GJ, Caraballo PJ, Therneau TM, Cha SS, Castro MR, Li PW. Extending Association Rule Summarization Techniques to Assess Risk of Diabetes Mellitus. IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING (In-Press). 2013.
  25. Simon GJ, Schrom J, Castro MR, Li PW, Caraballo PJ. Survival association rule mining towards type 2 diabetes risk assessment. AMIA Annu Symp Proc. 2013; 2013:1293-302. Epub 2013 Nov 16.
    View PubMed
  26. Asiedu MK, Thomas CF Jr, Tomaszek SC, Peikert T, Sanyal B, Sutor SL, Aubry MC, Li P, Wigle DA. Generation and sequencing of pulmonary carcinoid tumor cell lines. J Thorac Oncol. 2014 Dec; 9(12):1763-71.
    View PubMed
  27. Price DL , Li P , Chen CH , Wong D , Yu Z , Chen NG , Yu YA , Szalay AA , Cappello J , Fong Y , Wong RJ . Silk-elastin-like protein polymer matrix for intraoperative delivery of an oncolytic vaccinia virus. Head Neck 2016 Feb; 38 (2):237-46 Epub 2015 June 16
    View PubMed
  28. Techentin R, Foti D, Li P, Daniel E, Gilbert B, Holmes D, Al-Saffar S. Development of a semi-synthetic dataset as a testbed for big-data semantic analytics. Proceedings - 2014 IEEE International Conference on Semantic Computing, ICSC 2014. 2014; (2):252-3.
  29. Simon GJ, Caraballo PJ, Therneau TM, Cha SS, Castro MR, Li PW. Extending association rule summarization techniques to assess risk of diabetes mellitus. IEEE Transactions on Knowledge and Data Engineering. 2015; 27(1):130-41.
  30. Techentin R, Foti D, Al-Saffar S, Li P, Daniel E, Gilbert B, Holmes D. Characterization of semi-synthetic dataset for big-data semantic analysis. 2014 IEEE High Performance Extreme Computing Conference, HPEC 2014. 2014; 7040994.
  31. Zhu Y , Tchkonia T , Stout MB , Giorgadze N , Wang L , Li PW , Heppelmann CJ , Bouloumie A , Jensen MD , Bergen HR 3rd, Kirkland JL . Inflammation and the depot-specific secretome of human preadipocytes. Obesity (Silver Spring) 2015 May; 23 (5):989-99 Epub 2015 Apr 10
    View PubMed
  32. Jang JS , Lee A , Li J , Liyanage H , Yang Y , Guo L , Asmann YW , Li PW , Erickson-Johnson M , Sakai Y , Sun Z , Jeon HS , Hwang H , Bungum AO , Edell ES , Simon VA , Kopp KJ , Eckloff B , Oliveira AM , Wieben E , Aubry MC , Yi E , Wigle D , Diasio RB , Yang P , Jen J . Common Oncogene Mutations and Novel SND1-BRAF Transcript Fusion in Lung Adenocarcinoma from Never Smokers. Sci Rep 2015; 5:9755 Epub 2015 May 18
    View PubMed
  33. Kang R , Li P , Wang T , Li X , Wei Z , Zhang Z , Zhong L , Cao L , Heckman MG , Zhang YW , Xu H , Huang C , Bu G , Chen XF . Apolipoprotein E epsilon 2 allele and low serum cholesterol as risk factors for gastric cancer in a Chinese Han population. Sci Rep 2016; 6:19930 Epub 2016 Jan 28
    View PubMed
  34. Price DL , Li PD , Chen CH , Wong DN , Yu ZK , Chen NHG , Yu YA , Szalay AA , Cappello J , Fong YM , Wong RJ . Silk-elastin-like protein polymer matrix for intraoperative delivery of an oncolytic vaccinia virus Head And Neck-journal For The Sciences And Specialties Of The Head And Neck 2016 Feb; 38 (2):237-46