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黃柏榕(Po-Jung Huang)

黃柏榕 (Po-Jung Huang)

職稱

助理教授

最高學歷

國立清華大學生物資訊與結構生物研究所(Ph.D. National Tsing Hua University)

E-mail

pjhuang@gap.cgu.edu.tw

電話:

+886-3-211-8800 ext.3729

傳真

+886-3-211-8122

實驗室

應用生物資訊研究室

專長

應用生物資訊、生物大數據自動化分析流程開發與資料庫整合

研究方向及研究室特色

研究方向

  1. 癌症體學大數據應用分析平台
  2. 病原微生物生物資訊學
  3. 生物大數據視覺化輔助分析工具開發
  4. 生物大數據自動化分析流程開發與資料庫整合

研究室特色

  1. 推動前瞻性癌症基因體、蛋白體學、病原微生物生物資訊學研究
  2. 跨體學大數據資料庫整合
  3. 生物資訊、程式設計、大數據資料庫整合人才的培育跨科系、學院的整合

論文與著作

Publications:

1.Lin CC, Lee CC, Lin SH, Huang PJ, Li HP, Chang YS, Tang P*, Chao M*.(2016) RNA recombination in Hepatitis delta virus: Identification of a novel naturally occurring recombinant. J Microbiol Immunol Infect. 2015 Nov 27. doi: 10.1016/j.jmii.2015.10.013. [Epub ahead of print]

2. Huang, P.-J., Lee, C.-C., Tan, B.C.-M., Yeh, Y.-M., Huang, K.-Y., Gan, R.-C., Chen, T.-W., Lee, C.-Y., Yang, S.-T., Liao, C.-S., Liu, H., Tang, P. (2015, Feb) Vanno: A visualization-aided variant annotation tool . Human Mutation, 36 (2), pp. 167-174.?(SCI, IF=5.34; R/C=25/167, GENETICS & HEREDITY)

3. Huang, P.-J., Lee, C.-C., Tan, B.C.-M., Yeh, Y.-M., Chu, L.J., Chen, T.W., Chang, K.-P., Lee, C.-Y., Gan, R.-C., Liu, H., Tang, P. (2015, Jan). CMPD: Cancer mutant proteome database. Nucleic Acids Research, 43 (D1), pp. D849-D855.?(SCI, IF=9.112; R/C=20/290, BIOCHEMISTRY & MOLECULAR BIOLOGY)

4. Chen SJ, Liu H, Liao CT, Huang PJ, Huang Y, Hsu A, Tang P, Chang YS, Chen HC, Yen Tc (2015, Apr). Ultra-deep targeted sequencing of advanced oral squamous cell carcinoma identifies a mutation-based prognostic gene signature. Oncotarget , 6(20):18066-18080.?(SCI, IF=6.359; R/C=21/211, ONCOLOGY)

5. Chen WH, Huang KY, Huang PJ, Hsu JH, Fang YK, Chiu CH, Tang P* (2015, Jul). Nitric oxide maintains cell survival of Trichomonas vaginalis upon iron depletion. Parasites & Vectors, 8:393. (SCI, IF=3.43; R/C=7/36, PARASITOLOGY)?

6. Huang KY, Ku FM, Cheng WH, Lee CC, Huang PJ, Chu LCJ, Cheng CC, Fang YK, Wu HH, Tang P* (2015, Nov). Novel insights into the molecular events linking to cell death induced by tetracycline in the amitochondriate protozoan Trichomonas vaginalis. . Antimicrob. Agents Chemother, 59:11 6891-6903. (SCI, IF=4.476; R/C=19/119, MICROBIOLOGY)?

7. Chen TW, Gan RC, Chang YF, Liao WC, Wu TH, Lee CC, Huang PJ, Lee CY, Chen YYM, Chiu CH, Tang P (2015, Aug). Is the whole greater than the sum of its parts? De novo assembly strategies?for bacterial genomes based on paired-end sequencing. BMC Genomics , 16:648.?(SCI, IF=3.986; R/C=40/167, GENETICS & HEREDITY)?

8. Fang YK, Huang KY, Huang PJ, Lin R, Chao M, Tang P (2014, Oct). Gene expression analysis of cold-stress response in the sexually transmitted protist Trichomonas vaginalis. Journal of Microbiology, Immunology and Infection, S1684-1182(14)00175-3.?(SCI, IF=2.349; R/C=69/119, MICROBIOLOGY)?

9. Chen, T.-W., Li, H.-P., Lee, C.-C., Gan, R.-C., Huang, P.-J., Wu, T.H., Lee, C.-Y., Chang, Y.-F., Tang, P. (2014, Jun). ChIPseek, a web-based analysis tool for ChIP data. BMC Genomics, 15 (1), 539. (SCI, IF=3.986; R/C=40/167, GENETICS & HEREDITY)?

10. Huang, P.-J., Yeh, Y.-M., Gan, R.-C., Lee, C.-C., Chen, T.-W., Lee, C.-Y., Liu, H., Chen, S.-J., Tang, P. (2013, Oct). CPAP: Cancer panel analysis pipeline. Human Mutation, 34 (10), pp. 1340-1346. (SCI, IF=5.34; R/C=25/167, GENETICS & HEREDITY).?

11. Hackenberg, M., Huang, P.-J., Huang, C.-Y., Shi, B.-J., Gustafson, P., Langridge, P. (2013, Apr). A Comprehensive expression profile of micrornas and other classes of non-coding small RNAs in?barley under phosphorous-deficient and- sufficient conditions. DNA Research, 20 (2), pp. 109-125. (SCI, IF=5.477; R/C=23/167, GENETICS & HEREDITY).?

12. Huang, K.-Y., Shin, J.-W., Huang, P.-J., Ku, F.-M., Lin, W.-C., Lin, R., Hsu, W.- M., Tang, P. (2013, Jan). Functional profiling of the Tritrichomonas foetus transcriptome and proteome. Molecular and Biochemical Parasitology, 187 (1), pp. 60-71. (SCI, IF=1.787; R/C=17/36, PARASITOLOGY)?

13. Huang KY, Huang PJ, Ku FM, Lin R, Alderete JF, Tang P. (2012, Nov). Comparative transcriptomic and proteomic analyses of Trichomonas vaginalis following adherence to fibronectin. Infection and Immunity, 80 (11), pp. 3900- 3911. (SCI, IF=3.731; R/C=23/78, INFECTIOUS DISEASES).

14. Chen, T.W., Gan, R.C., Wu, T.H., Huang, P.J., Lee, C.Y., Chen, Y.Y., Chen, C.C., Tang, P. (2012,Jun). FastAnnotator--an efficient transcript annotation web tool.. BMC Genomics, 13 Suppl 7, S9.?(SCI,IF=3.986; R/C=40/167, GENETICS & HEREDITY)

15. Huang PJ, Lin WC, Chen SC, Lin YH, Sun CH, Lyu PC, Tang P. (2012, Feb). Identification of?putative miRNAs from the deep-branching unicellular flagellates. Genomics, 99 (2), pp. 101-107. (SCI, IF=2.284; R/C=77/163, BIOTECHNOLOGY & APPLIED MICROBIOLOGY).?

16. Horváthová L, Šafaríková L, Basler M, Hrdy I, Campo NB, Shin JW, Huang KY, Huang PJ, Lin R,Tang P, Tachezy J. (2012, Apr). Transcriptomic identification of iron-regulated and iron-independent gene copies within the heavily duplicated trichomonas vaginalis genome. Genome Biology and Evolution, 4 (10), pp. 1017- 1029.?(SCI, IF=4.229; R/C=37/167, GENETICS & HEREDITY).?

17. Huang PJ, Liu YC, Lee CC, Lin WC, Gan RR, Lyu PC, Tang P. (2010, Jul). DSAP: deep-sequencing small RNA analysis pipeline. . Nucleic Acids Research, 38 (SUPPL. 2), gkq392, pp. W385-W391. (SCI, IF=9.112; R/C=20/290, BIOCHEMISTRY & MOLECULAR BIOLOGY).

18. Lin WC, Huang KY, Chen SC, Huang TY, Chen SJ, Huang PJ, Tang P. (2009, Nov). Malate dehydrogenase is negatively regulated by miR-1 in Trichomonas vaginalis. . Parasitology Research , 105 (6), pp. 1683-1689.?(SCI, IF=2.098; R/C=15/36, PARASITOLOGY).?

19. Lin WC, Li SC, Lin WC, Shin JW, Hu SN, Yu XM, Huang TY, Chen SC, Chen HC, Chen SJ, Huang PJ, Gan RR, Chiu CH, Tang P. (2009, May). Identification of microRNA in the protist Trichomonas vaginalis. . Genomics, 93 (5), pp. 487-493.?(SCI, IF=2.284; R/C=77/163,?BIOTECHNOLOGY & APPLIED MICROBIOLOGY)?

20. Huang KY, Chien KY, Lin YC, Hsu WM, Fong IK, Huang PJ, Yueh YM, Gan RRC, Tang P*. (2009) A Proteome Reference Map of Trichomonas vaginalis. Parasitol. Res. 104(4):927-933.?(SCI,?IF=2.098; R/C=15/36, PARASITOLOGY).?

21. Lo WC, Huang PJ, Chang CH, Lyu PC. (2007, Aug). Protein structural similarity search by Ramachandran codes. . BMC Bioinformatics, 8, 307.?(SCI, IF=2.576; R/C=11/57, MATHEMATICAL& COMPUTATIONAL BIOLOGY)