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؍΀ܗ

Lin, Chung-Yen ޼Ӻᔊʧ Research Description
Research Description
޼Ӻᔊʧ
At recent years, I put my focuses on following im-
ͦۃତචݬ˴ࠅٙ޼Ӻ˙Σ̙ʱމ(1)ၣ༩͛ (2) Developing value-added databases and web applica-
portant issues, (1) Deciphering the protein network in the
يʿӻ୕͛يኪ޼Ӻ(2)͛ي༟ৃ̋࠽༟ࣘࢫၾᏐ͜ approach in Network biology and Systems Biology (2) tions for biomedical research communities
ӻ୕ʘܔໄf Developing value-added databases and web applications We have published several web applications and
for biomedical research communities
databases related with bioinformatics for biomedical
ၣ༩͛يʿӻ୕͛يኪ޼Ӻ ༆ؓɛᗳϓᐖཀ೻ (1) Network analysis of human protein interactions for research community. For example, the web application,
ၾषࡡߧषዚᔷʘஐͣሯʹʝၣ༩ Tumorigenesis and infectious diseases in the ap- Primer Design Assistant (PDA, http://dbb.nhri.org.tw/
primer/, figure 2, NAR 2003), can be helpful to large scale
proach of systems biology
͟׵ਿΪ᜗ࠇ೥ٙҞ஺ආ࢝dε၇͛يʘਿ PCR for high throughput experiments like microarray ex-
Ϊ᜗ʊ஗༆ᇁ̈ԸdШ݊࿁׵࢝ତ͛նዚঐٙஐ Advances in molecular biology, analytical and periments. From July 2003 to June 2006, the accumulated
computational technologies are enabling us to investigate visits and processed sequences are 49,000 and 270,000, Research Fellows
ͣሯ᜗ٙ޼ӺdۆΪྼ᜕Ҧஔၾ޼Ӻҿࣘٙልᕏ systematically on complicate molecular processes through respectively. PDA is not only served for research groups,
ܓჃ༰ਿΪ᜗ʱؓމ৷d዆᜗ٙ޼Ӻ໔Ӊଫฆᇠ protein interaction networks underlying biological phe- but also was used to develop the rapid diagnostic kit for
notypes. In this study, we are going to construct the eu- SARS for Central of Disease Control (CDC), Taiwan in
࿔f͉ࠇ೥Ҏૐீཀˢ༰ஐͣሯ᜗ኪ(Comparative 2004. We also implemented a statistical model into our
karyotic protein-protein interaction network from recently
Proteomics)ٙ˙جdਗ਼ତϞʊٝٙஐͣሯʹʝЪ͜ high though-put interactome studies from various species. protein interaction database for validation of two-hybrid
All the interactions will be converted into domain-domain assays of Helicobacter pylori, and prediction of putative
ᗫڷdᔷʷމҏΐᅼଡ଼ၾᅼଡ଼ʘගٙᗫڷdᔟϤܔ protein interactions not yet discovered experimentally
interactions and then the conserved network motifs will
ͭ୕ࠇᅼۨdԸཫ಻̙ঐπίٙஐͣሯʹʝၣ༩ݖ be extracted to infer protein interactome related to hu- (http://dpi.nhri.org.tw/hp/, Bioinformatics 2005). By this
࿴dΎ̋ɪၾ˾ᑽ௄ࢰeਿΪʱᗳၾࣛ٤ߠ౻ഃ man diseases. Using this model, we will build a powerful approach, we can compare the interacting network of vari-
Research Fellows
ਿ ͉ ༟ ࣘ tool to discover unknown interacting protein pairs with ous strains with different virulence to decipher the secret
ਿ ͉ ༟ ࣘ
޴ᗫٙൗ༆dک̙˸՘пҢࡁᐝ༆ίʔΝٙ೯ԃච a probability score. According to the conserved network between hosts and pathogens. In 2005, we have imple-
ݬeᐖ୚ߤ͛ϓᔷ୅ʿषࡡชݑʘყd̙ঐٙପ model with spatio-temporal information, the interactions mented a phylogenetic platform for topology construction
between pathogens and human and the procession of car- and visualization (http://power.nhri.org.tw, NAR, 2005).
ᔖcc၈j п޼Ӻࡰ ͛ஐͣሯၣ༩dආϾ੽ʕҬՑҵՓᐖ୚ߤ͛ϓၾᔷ cinogenesis will be deciphered. The critical target proteins We are working on the best model selection in automatic
Assistant Research Fellow (2005/10--) ୅ٙᗫᒟΪɿd˸ʿԣ˟षࡡชݑၾልႡٙዚᔷ in those networks will be unrevealed by the topological way and try to integrate two systems for biomedical re-
search groups.
(Figure 1)fͦۃ͍л͜ןዎଣሞ(Topology)ၾྡኪ analysis of protein network. The interaction network will
௰৷ኪዝj Ph.D., Zoology, National Taiwan provide potential candidates for developing new thera-
(Graph Theory)ഃၣ༩͛يኪ€Network Biologyٙ peutic strategies of human cancer and infectious diseases.
University (1999) ฿ׂdԸආБӻ୕͛يኪʱؓdਗ਼̙ၾྼ᜕܃޼Ӻ Objectives of this study are to improve our understanding
Selected Publications
of the puzzle during development stage, carcinogenesis Selected Publications
ཥcc༑j+886-2-2788-3799 ext. 1704 ɛࡰɓΝԸආБʹʝЪٙ͜ྼ᜕᜕ᗇdԨཫ΋༆ؓ and infectious mechanism, and to furthermore introduce
዆ࡈஐͣሯʹʝЪ͜ၣ༩ٙ዆᜗฿رdጜ፯̈ᗫᒟ a new paradigm for the diagnosis and treatment of human (A) Publications
ෂccॆj+886-2-2782-4814 ٙஐͣሯdආϾ՘пอۨᖹيٙක೯ၾطᐕҦஔٙ disease to revolutionize current medical services deliv- 1. Lin, C. Y., Chen, S. H, Lo, C.Z., Cho, C.S., Hsiung, C. A. 2003. Prim-
ered.
ཥɿڦᇌjcylin@iis.sinica.edu.tw ߉ॎf er Design Assistant (PDA): a Web-based Primer Design Tool. Nucleic
Acids Res. 31: 3751-3754. (http://dbb.nhri.org.tw) (SCI/ 7.62)
2. Chen, S. H., Lin, C. Y., Huang, F. L. and Kuo, C. M. 2004. Cloning of
Two Crustacean Hyperglycemic Hormone Isoforms from the Freshwa-
ၣccࠫjhttp://www.iis.sinica.edu.tw/pages/cylin ί͛ي༟ৃ̋࠽༟ࣘࢫၾᏐ͜ӻ୕ʘܔໄ˙ࠦj ter Giant Prawn, Macrobrachium rosenbergii: Evidence of Alternative
Splicing. Mar. Biotech. 6 (1): 83-94. (SCI/ 1.40)
3. Li, L.H., Li, J. C., Lin, Y. F., Lin, C. Y., Chen, C.Y., Tsai, S. F. 2004.
ڐ఻ϋʊ೯ڌεࡈ͛ي༟ৃӻ୕ၾʱؓʈ Genomic Shotgun Array: A Procedure Linking Large-Scale DNA
• Assistant Professor, College of Life Science, Na- Ո׵਷ყٝΤ͛يᔼኪಂ̊dᙅνPrimer Design Sequencing with Regional Transcript Mapping. Nucleic Acids Res.
32(3): e27. (SCI/ 7.62)
tional Taiwan University (2005/04- present) Assistant (PDA) (NAR, 2003, http://dbb.nhri.org.tw/ 4. Chen, S. H., Lin, C. Y. and Kuo, C. M. 2005. In silico Analysis of
the Crustacean Hyperglycemic Hormone Family. Mar. Biotech. 7(3):
• Assistant Research Fellow, Division of Biostatistics primer/) (Figure 2), ɽ஝ᅼPCR ࣨაˏɿணࠇᇞɪ 5. 193-206. (SCI/ 1.40)
Lin, C. Y., Chen C.L., Cho, C.S., Wang L.M., Chang C. M., Chen P. Y.,
and Bioinformatics, National Health Research Insti- Ⴞпӻ୕d࿚І2006ϋʬ˜d΍ϞԸІΌଢ΢ήߒ Lo, C.Z., Hsiung, C. A. 2005. hp-DPI: Helicobacter pylori Database
tutes (2004/01--2005/10) ̬ຬɘɷɛϣɪᇞԴ͜d΍ʊஈଣڐɚɤɖຬૢҏ Figure 1. Network of Protein interaction. of Protein Interactomes, A Combined Experimental and Inferring In-
teractions. Bioinformatics, 21: 1288-1290. (Advance Access published
• Postdoctoral Fellow, Division of Biostatistics and ΐdԨ׵2004ϋ՘пሊ͛໇शष၍Փ҅೯࢝SARS on October 28, 2004. doi:10.1093/bioinformatics/bti101) ( NSC92 –
3112 –B – 400 - 007-Y) (http://dpi.nhri.org.tw/hp/)(SCI/ 6.701)
Bioinformatics, National Health Research Institutes Ҟ஺ൢᓙ༊ኒf̤̮dၾߞ௅शषՈϞ৷ܓ޴ᗫ 6. Lin, C. Y., Lin, F.K., Lin, C.H., Lai, L.W., Hsu, S.J., Chen, S.H.,
(1999/10--2003/10) ܑٙژ૖ഽஐͣሯʹʝၣ༩dɰ׵2005ϋ̬˜ٙ Hsiung, C. A. 2005. POWER: PhylOgenetic WEb Repeater - An inte-
grated and user-optimized framework for bio-molecular phylogenetic
analysis. Nucleic Acids Res. 33: 553-556. (http://power.nhri.org.tw)
• Ph.D., Zoology, National Taiwan University (1999), Bioinformatics̊̈(http://dpi.nhri.org.tw/hp/)dͦۃ (SCI/ 7.62)
7. Pan W. H., Lynn K. S., Chen C. H., Wu Y. L., Lin C. Y., Chang H.Y.
͍ආБʔΝۜӻٙʹʝၣ༩ၾߧष׌ʘ޼ӺdԨ
• M.S., Institute of Fishery Science, National Taiwan 2006. Using endophenotypes for pathway clusters to map complex
disease genes. Gen. Epi. 30(2): 143-154. (SCI/1.6 )
University (1993), ༊ഹ༆ؓषࡡၾ੖˴ග̙ঐପ͛ٙʹʝЪ͜f͉ 8. Chang, C. C., Lin, H. C., Lin, I. P., Chang, T. Y., Chen, H. H., Chen,
޼Ӻ܃͵׵2005ϋɖ˜ίNucleic Acid Researchd W. H. Cheng, C. H., Lin, C. Y., Liu, S. M. Chang, C. C. Chaw, S. M.
• B.S., department of Zoology, National Taiwan Uni- 2006. The Chloroplast Genome of Phalaenopsis aphrodite (Orchidace-
versity (1991) ೯ڌɓࡈ͛ي̶ʱɿҏΐፋ๕ᗫڷٙʱؓݖ࿴І ae): Comparative Analysis of Evolutionary Rate with That of Grasses
and Its Phylogenetic Implications. Mol. Bio. Evol. 23: 279 - 291 (SCI/
ਗʷ̨̻dPOWER: PhylOgenetic WEb Repeater - 6.355)
• Principle Investigator, Deciphering the Protein 9. Wen, C. C., Wu, Y. J., Huang, Y. H., Chen, W. C., Liu, S. C., Jiang, S. S.,
Network of human cancer and infectious diseases by An integrated and user-optimized framework for bio- Juang, J. L., Lin, C. Y., Fang, W. T., Hsiung, C. A., Chang, I. S. 2006.
A Bayes Regression Approach to Array-CGH Data. Statistical Ap-
Systems Biology Approach, Fund by National Sci- molecular phylogenetic analysis (http://power.nhri.org. plications in Genetics and Molecular Biology. 5(1): art3, (http://www.
ence Committee (2005-2007) tw)d࿚І2006ϋʬ˜d͉ӻ୕΍Ϟ1,400ɪᇞԴ bepress.com/sagmb/vol5/iss1/art3/), (Medline Index)
͜dʊஈଣ29,000ૢҏΐfͦۃ͍ίආБอɓ˾ӻ (B) Patent
• Co-Principle Investigator, Taiwan Bioinformatics 1. Lin, C.Y., Cho, C.S., Lo, C.Z., Jiang, S. S., Juang, J.L., Hsiung ,C.A.,
Institute (TBI) at NHRI – Bioinformatics Core for ୕ٙක೯dਗ਼ߧɢ༆Ӕፋ๕ዓܔໄཀ೻ʕd௰Գ୕ Apparatus and methods for computer aided primer design and compo-
Comparative Genomics and Interactomics, Na- ࠇᅼۨ፯՟ٙਪᕚdԨၾࡡϞٙӻ୕ආБ዆Υf 2. sitions for detection of the SARS-CoV. 2004. (Provisional)
Juang, J.L., Hsiung ,C.A., Lin, C.Y. “Cross-species nucleic acid
tional Research Program for Genomic Medicine Figure 2. Primer Design Assistant (PDA) (NAR, 2003, probes” 2002. U.S. Serial No. 60/357541.
(NRPGM), Fund by National Science Committee http://dbb.nhri.org.tw/primer/).
(2005-2007)
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