陳志杰 老師
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陳志杰 副教授
研究領域：
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| 研究室：國研大樓1006-5室 | |
| 連絡電話：07-5252000 ext 7156 | |
| 學歷：交通大學 生物資訊及系統生物研究所博士 | |
| 電子信箱：chieh@imst.nsysu.edu.tw | |
學歷:
• 國立陽明交通大學生物資訊及系統生物研究所博士
研究專長:
• 生物資訊
• 結構生物資訊
• 生物分子模擬
• 基因體分析
• 計算生物學
• 113學年度『學術研究績優教師』
• 112學年度『學術研究績優教師』
• 111學年度『全校優良導師』、『醫學院優良導師』
• 111學年度『醫學院優良導師』
• 111學年度『醫學院優良導師』
• 107學年度『理學院優良導師』
• 112學年度『學術研究績優教師』
• 111學年度『全校優良導師』、『醫學院優良導師』
• 111學年度『醫學院優良導師』
• 111學年度『醫學院優良導師』
• 107學年度『理學院優良導師』
• 生物資訊學
• 結構生物學
• 計算生物學
• 生物模擬
• 結構生物學
• 計算生物學
• 生物模擬
專利:
Nil
Nil
代表著作:
1. Jong-Shian Liou; Wei-Ling Zhang; Li-Wen Hsu; Chih-Chieh Chen; Yu-Ting Wang; Koji Mori; Kohei Hidaka; Moriyuki Hamada; Lina Huang; Koichi Watanabe; Chien-Hsun Huang (2024) Faecalibacterium taiwanense sp. nov., isolated from human faeces. International Journal of Systematic and Evolutionary Microbiology
2. Wang YT, Lin YC, Hsieh YH, Lin YT, Hamada M, Chen CC, Liou JS, Lee AY, Zhang WL, Chen YT, Huang CH* (2024) Staphylococcus hsinchuensis sp. nov. Isolated from Soymilk. Pathogens 13, 343.
3. Tseng YW†, Huang CW, Chen CC†, Er TK* (2024) Assessment of Antibiotic Resistance Patterns in Central Taiwan during the COVID-19 Pandemic: A Retrospective Study. Journal of Infection and Public Health 17, 229-235. (IF = 6.7; 18/96 (Q1) in INFECTIOUS DISEASES)
4. Liu YY, Hsu CY, Yang YC, Huang CH, Chen CC* (2023) ProbioMinServer: an integrated platform for assessing the safety and functional properties of potential probiotic strains. Bioinformatics Advances 3, vbad153.
5. Yen KT, Jiang JF, Chen CC, Er TK* (2023) Performance Evaluation of the VIDAS® D-Dimer Exclusion™ II Assay and the Beckman Coulter D-Dimer Assay. Clin Lab. 69, doi: 10.7754/Clin.Lab.2023.230414. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
6. Tseng YW, Chen CC, Liao YY, Er TK* (2023) Optimizing Blood Culture Volumes by Implementing PDCA Cycle Management. Clin Lab. 69, 850-852. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
7. Chen YJ†, Chen CC†, Er TK* (2023) Cardiac markers and the incidence of cardiovascular disease in patients with chronic kidney disease. Advances in clinical chemistry 115, 63-80. (IF = 6.303; 6/29 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
8. Lee AY†, Chen CH†, Liou JS, Lin YC, Hamada M, Wang YT, Peng LL, Chang SC, Chen CC, Lin CF, Huang L, Huang CH*. (2022) Micrococcus porci sp. nov., Isolated from Feces of Black Pig (Sus scrofa). Life 12, 1749.
9. Chen CC, Chou YC, Hsu CY, Tsai EM, Er TK* (2022) Transcriptome profiling of eutopic and ectopic endometrial stromal cells in women with endometriosis based on high throughput sequencing. Biomedicines 10, 2432. (IF = 4.757; 87/279 in PHARMACOLOGY & PHARMACY)
10. Chen CC*, Liu YY, Yang YC, Hsu CY (2022) 5NosoAE: a web server for nosocomial bacterial antibiogram investigation and epidemiology survey. Nucleic Acids Research 50, W21-W28. (IF = 19.160; 8/297 (Q1) in BIOCHEMISTRY & MOLECULAR BIOLOGY)
11. Chen CC, Zhuang ZJ, Wu CW, Tan YL, Huang CH, Hsu CY, Tsai EM, Hsieh TH* (2022) Venetoclax Decreases the Expression of the Spike Protein through Amino Acids Q493 and S494 in SARS-CoV-2. Cells 11, 1924. (IF = 7.666; 51/195 in CELL BIOLOGY)
12. Chen CC, Er TK* (2022) Detection of the SARS-CoV-2 D614G Mutation Using VirSNiP SARS-CoV-2 Spike D614G Assay. Clin. Lab. 68, 1305-1308. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
13. Liu YY†, Chen CC†, Yang CH, Hsieh HY, He JX, Lin HH, Lee CC* (2022) LmTraceMap: A Listeria monocytogenes fast-tracing platform for global surveillance. PLoS One 17, e0267972. (IF = 3.752; 29/74 in MULTIDISCIPLINARY SCIENCES)
14. Lu CH, Chen CC, Yu CS, Liu YY, Liu JJ, Wei ST, Lin YF* (2022) MIB2: metal ion-binding site prediction and modeling server. Bioinformatics 38, 4428-4429. (IF = 6.931, 5/57 (Q1) in MATHEMATICAL & COMPUTATIONAL BIOLOGY)
15. Liu YY, Chen CC* (2021) A machine learning-based typing scheme refinement for Listeria monocytogenes core genome multilocus sequence typing with high discriminatory power for common source outbreak tracking. PLoS One 16, e0260293. (IF = 3.752; 29/74 in MULTIDISCIPLINARY SCIENCES)
16. Liu YY†, Chen BH†, Chen CC, Chiou CS* (2021) Assessment of metrics in next-generation sequencing experiments for use in core-genome multilocus sequence type. PeerJ 9, e11842. (IF = 3.061; 33/73 in MULTIDISCIPLINARY SCIENCES)
17. Ramireddy L*, Tsen HY*, Chiang YC, Hung CY, Wu SR, Young S, Lin JS, Huang CH, Chiu SH, Chen CC, Chen CC (2021) Molecular Identification and Selection of Probiotic Strains Able to Reduce the Serum TMAO Level in Mice Challenged with Choline. Foods 10, 2931. (IF = 5.561; 35/143 (Q1) in FOOD SCIENCE & TECHNOLOGY)
18. Chen TR, Lin YC, Huang YW, Chen CC, Lo WC* (2021) CirPred, the first structure modeling and linker design system for circularly permuted proteins. BMC Bioinformatics 22, 494. (IF = 3.307; 20/57 in MATHEMATICAL & COMPUTATIONAL BIOLOGY)
19. Chan TH, Wang YY, Chen CC, Huang WL, Lin IY, Er TK* (2021) A Comparison of Two Molecular Methods for Detecting CALR Mutations in Myeloproliferative Neoplasms. Clin. Lab. 67, 2018-2023. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
20. Huang CH*, Chen CC, Lin YC, Chen CH, Lee AY, Liou JS, Gu CT, Huang LN (2021) The mutL Gene as a Genome-Wide Taxonomic Marker for High Resolution Discrimination of Lactiplantibacillus plantarum and Its Closely Related Taxa. Microorganisms 9, 1570. (IF = 4.926; 54/136 in MICROBIOLOGY)
21. Chen, C.C., Hsu, C.Y., Lin, H.Y., Zeng, H.Q., Cheng, K.H., Wu, C.W., Tsai, E.M.*, Hsieh, T.H.* (2020) KRAS K104 modification affects the KRASG12D-GEF interaction and mediates cell growth and motility. Scientific Reports 10, 17447. (IF = 4.997; 19/74 (Q2) in MULTIDISCIPLINARY SCIENCES)
22. Korla, P.K.†, Chen, C.C.†, Gracilla, D.E.†, Lai, M.T., Chen, C.M., Chen, H.Y., Hwang, T., Chen, S.Y.*, Sheu, J.C.* (2020) Somatic mutational landscapes of adherens junctions and their functional consequences in cutaneous melanoma development. Theranostics 10, 12026. (IF = 11.600; 13/139 (Q1) in MEDICINE, RESEARCH & EXPERIMENTAL)
23. Huang, C.H.†, Chen, C.C.†, Chiu, S.H., Liou, J.S., Lin, Y.C., Lin, J.S., Huang, L. and Watanabe, K.* (2020) Development of a High-Resolution Single-Nucleotide Polymorphism Strain-Typing Assay Using Whole Genome-Based Analyses for the Lactobacillus acidophilus Probiotic Strain. Microorganisms 8, 1445. (IF = 4.926; 54/137 in MICROBIOLOGY)
24. Liou, J.S.†, Huang, C.H.†, Ikeyama, N., Lee, A.Y., Chen, I.C., Blom, J., Chen, C.C., Chen, C.H., Lin, Y.C., Hsieh, S.Y., Huang, L., Ohkuma, M., Watanabe, K., Sakamoto, M.* (2020) Prevotella hominis sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 70, 4767-4773. (IF = 2.531; 136/629 (Q1) in ECOLOGY, EVOLUTION, BEHAVIOR AND SYSTEMATICS)
25. Ke, L.Y.*, Chan, H.C., Chen, C.C., Chang, C.F., Lu, P.L., Chu, C.S., Lai, W.T., Shin, S.J., Liu, F.T., Chen, C.H.* (2020) Increased APOE glycosylation plays a key role in the atherogenicity of L5 low-density lipoprotein. FASEB Journal 34, 9802–9813. (IF = 4.966; 9/93 (Q1) in BIOLOGY)
26. Huang, C.H., Chen, C.C., Liou, J.S., Lee, A.Y., Blom, J., Lin, Y.C., Huang, L., Watanabe, K.* (2020) Genome-based reclassification of Lactobacillus casei: emended classification and description of the species Lactobacillus zeae. Int. J. Syst. Evol. Microbiol. 70, 3755–3762. (IF = 2.531; 136/629 (Q1) in ECOLOGY, EVOLUTION, BEHAVIOR AND SYSTEMATICS)
27. Liu, Y.Y.†, Lin, J.W.†, Chen, C.C.* (2019) cano-wgMLST_BacCompare: A Bacterial Genome Analysis Platform for Epidemiological Investigation and Comparative Genomic Analysis. Frontiers in Microbiology 10, 1687. (IF = 6.064; 34/136 (Q1) in MICROBIOLOGY)
28. Liu, Y.Y., Lin, J.W., Chen, C.C.* (2019) The Cano-eMLST Program: An Approach for the Calculation of Canonical Extended Multi-Locus Sequence Typing, Making Comparison of Genetic Differences Among Bunches of Bacterial Strains. Microorganisms 7, 98. (IF = 4.167; 34/133 in MICROBIOLOGY)
29. Tsai, M.H.†, Liu, Y.Y.†, Chen, C.C.* (2019) OutbreakFinder: a visualization tool for rapid detection of bacterial strain clusters based on optimized multidimensional scaling. PeerJ 7, e7600. (IF = 3.061; 33/73 in MULTIDISCIPLINARY SCIENCES)
30. Tsai, M.H.†, Liu, Y.Y.†, Soo, V.W.*, Chen, C.C.* (2019) A New Genome-to-Genome Comparison Approach for Large-Scale Revisiting of Current Microbial Taxonomy. Microorganisms 7, 161. (IF = 4.167; 34/133 in MICROBIOLOGY)
31. Parveen, F.†, Bender, D.†, Law, S.H., Mishra, V.K., Chen, C.C., Ke, L.Y.* (2019) Role of Ceramidases in Sphingolipid Metabolism and Human Diseases. Cells 8, 1573. (IF = 4.366; 70/195 in CELL BIOLOGY)
32. Herreros-Villanueva, M.†, Chen, C.C.†, Tsai, E.M., Er, T.K.* (2019) Endometriosis-associated ovarian cancer: What have we learned so far? Clinica Chimica Acta 493, 63-72. (IF = 6.314; 5/29 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
33. Sua, Y.F.†, Tsai, E.M.†, Chen, C.C., Wue, C.C., Er, T.K.* (2019) Targeted sequencing of a specific gene panel detects a high frequency of ARID1A and PIK3CA mutations in ovarian clear cell carcinoma. Clinica Chimica Acta 494, 1-7. (IF = 6.314; 5/29 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
34. Liu, Y.Y., Chen, C.C.* (2017) Computational Analysis of the Molecular Mechanism of RamR Mutations Contributing to Antimicrobial Resistance in Salmonella enterica. Scientific Reports 7, 13418. (IF = 4.122; 12/64 (Q1) in MULTIDISCIPLINARY SCIENCES)
35. Lee, H.C.*, Chen, C.C., Tsai, W.C., Lin, H.T., Hsiao, Y.L., Sheu, S.H., Wu, B.N., Chen, C.H., Lai, W.T. (2017) Very-Low-Density Lipoprotein of Metabolic Syndrome Modulates Gap Junctions and Slows Cardiac Conduction. Scientific Reports 7, 12050. (IF = 4.122; 12/64 (Q1) in MULTIDISCIPLINARY SCIENCES)
36. Lee, H.C., Rudy, Y., Liang, H., Chen, C.C., Luo, C.H., Chang, J.G., Lai, W.T., Sheu, S.H., Cui, J. (2017) Pro-arrhythmogenic effects of the V141M KCNQ1 mutation in short QT syndrome and its potential therapeutic targets: insights from modeling. Journal of Medical and Biological Engineering 37, 780-789. (IF = 2.213; 75/98 in ENGINEERING, BIOMEDICAL)
37. Liu, Y.Y, Chiou, C.S., Chen, C.C.* (2016) PGAdb-builder: A web service tool for creating pan-genome allele database for molecular fine typing. Scientific Reports 6, 36213. (IF = 4.122; 12/64 (Q1) in MULTIDISCIPLINARY SCIENCES)
38. Liu, Y.Y.†, Chen, C.C.†, Chiou, C.S.* (2016) Construction of a Pan-Genome Allele Database of Salmonella enterica Serovar Enteritidis for Molecular Subtyping and Disease Cluster Identification. Frontiers in Microbiology 7, 2010. (IF = 4.165; 23/123 (Q1) in MICROBIOLOGY)
39. Stancel, J.N.†, Chen, C.C.†, Ke, L.Y., Chu, C.S., Lu, J., Sawamura, T., Chen, C.H.* (2016) Interplay Between CRP and LDL in the Pathogenesis of Atherosclerosis. Clinical Chemistry 62, 320-327. (IF = 8.008; 1/30 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
40. Er, T.K., Su, Y.F., Wu, C.C., Chen, C.C., Wang, J., Hsieh, T.H., Herreros-Villanueva, M., Chen, W.T., Chen, Y.T., Liu, T.C., Chen, H.S., Tsai, E.M.* (2016) Targeted next-generation sequencing for molecular diagnosis of endometriosis-associated ovarian cancer. Journal of Molecular Medicine 2016 Feb 27. (IF = 5.107; 6/157 (Q1) in DRUG DISCOVERY)
41. Ke, L.Y., Chan, H.C., Chen, C.C., Lu, X., Marathe, G., Chu, C.S., Chan, H.C., Wang, C.Y., Tung, Y.C., McIntyre, T., Yen, J.H.*, Chen, C.H.* (2016) Enhanced Sphingomyelinase Activity Contributes to the Apoptotic Capacity of Electronegative Low-Density Lipoprotein. Journal of Medicinal Chemistry 59, 1032-1040. (IF = 5.447; 3/59 (Q1) in CHEMISTRY, MEDICINAL)
42. Huang, T.T., Hwang, J.K., Chen, C.H., Chu, C.S., Lee, C.W., Chen, C.C.* (2015) (PS)2: Protein Structure Prediction Server Version 3.0. Nucleic Acids Research 43, W338-W342. (IF = 10.162; 20/290 (Q1) in BIOCHEMISTRY & MOLECULAR BIOLOGY)
43. Er, T.K., Wang, Y.Y., Chen, C.C., Marta, H.V., Liu, T.C., Yuan, S.S.* (2015) Molecular characterization of oral squamous cell carcinoma using targeted next-generation sequencing, Oral Diseases 21, 872-878. (IF = 2.427; 17/8 (Q1) in DENTISTRY, ORAL SURGERY & MEDICINE)
44. Er, T.K.†, Chen, C.C.†, Bujanda L., Marta, H.V.* (2014) Current Approaches for Predicting a Lack of Response to Anti-EGFR Therapy in KRAS Wild-Type Patients. BioMed Research International 2014, 591867. (IF = 2.706; 50/124 in MEDICINE, RESEARCH & EXPERIMENTAL)
45. Marta, H.V.†, Chen, C.C.†, Yuan, S.F., Liu, T.C., Er, T.K.* (2014). KRAS mutations: Analytical considerations. Clinica Chimica Acta 431, 211-220. (IF = 2.850; 6/32 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
46. Er, T.K.†, Chen, C.C.†, Chien, Y.H., Liang, W.C., Kan, T.M., Jong, Y.J.* (2014). Development of a feasible assay for the detection of GAA mutations in patients with Pompe disease. Clinica Chimica Acta 429, 18-25. (IF = 2.824; 5/30 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
47. Er, T.K., Lin, C.W., Liu, T.C., Chen, C.C., Wang, L.H., Hsieh, L.L., and Tsai, W.C.* (2014). Increase EGFR Mutations Detection Rate in Lung Adenocarcinoma by Real-Time PCR Screening Followed by Direct Sequencing. Diagn Mol Pathol. 2014 Jan 30. (IF = 2.275; 33/76 in PATHOLOGY)
48. Er, T.K., Chen, C.C., Bujanda, L., and Herreros-Villanueva, M.* (2014). Clinical relevance of KRAS mutations in codon 13: Where are we? Cancer Lett. 343, 1-5. (IF = 5.016; 33/203 (Q1) in ONCOLOGY)
49. Chen, C.C.†, Er, T.K.†, Liu, Y.Y., Hwang, J.K., Maximiliano, R., Enrique, G.T., Maria, J.B. and Marta, H.V.* (2013). Computational analysis of KRAS mutations: Implications for different effects on the KRAS p.G12D and p.G13D mutations. PLoS ONE 8, e55793. (IF = 3.730; 7/56 (Q1) in MULTIDISCIPLINARY SCIENCES)
50. Liu, Y.Y., Shih, C.H., Hwang, J.K. and Chen, C.C.* (2013). Deriving correlated motions in proteins from X-ray structure refinement by using TLS parameters. Gene 518, 52-58. (IF = 2.196; 99/161 in GENETICS & HEREDITY)
51. Lai, Y.L., Chen, C.C., and Hwang, J.K.* (2012) pKNOT v.2: the protein KNOT web server. Nucleic Acids Research 40, W228-W231. (IF = 8.026; 26/290 (Q1) in BIOCHEMISTRY & MOLECULAR BIOLOGY)
52. Hsieh, L.L., Er, T.K., Chen, C.C., Hsieh, J.S., Chang, J.G. and Liu, T.C.* (2012) Characteristics and prevalence of KRAS, BRAF, and PIK3CA mutation in colorectal cancer by high-resolution melting in Taiwanese Population. Clinica Chimica Acta 413, 1605-1611 (IF = 2.535; 6/32 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
53. Er, T.K.†, Chen, C.C.†, Liu, Y.Y., Chang, H.C., Chien, Y.H., Chang, J.G., Hwang, J.K.* and Jong, Y.J.* (2011) Computational analysis of a novel mutation in ETFDH gene highlights its long-range effects on the FAD-binding motif. BMC Structural Biology 11, 34. (IF = 2.258; 46/73 in BIOPHYSICS)
54. Chen, C.C., Hwang, J.K., and Yang, J.M.* (2009). (PS)2-v2: template-based protein structure prediction server. BMC Bioinformatics 10, 366. (IF = 3.781; 3/29 (Q1) in MATHEMATICAL & COMPUTATIONAL BIOLOGY)
55. Chen, C.C., Hwang, J.K., and Yang, J.M.* (2006). (PS)2: protein structure prediction server. Nucleic Acids Research 34, W152-W157. (IF = 7.552, 24/261 (Q1) in BIOCHEMISTRY & MOLECULAR BIOLOGY)
56. Hung, S.W., Hwang, J.K., Tseng, F., Chang, J.M., Chen, C.C., and Chieng, C.C.* (2006). Molecular dynamics simulation of the enhancement of cobra cardiotoxin and E6 protein binding on mixed self-assembled monolayer molecules. Nanotechnology 17, S8-S13. (IF = 2.993; 1/65 (Q1) in ENGINEERING, MULTIDISCIPLINARY)
1. Jong-Shian Liou; Wei-Ling Zhang; Li-Wen Hsu; Chih-Chieh Chen; Yu-Ting Wang; Koji Mori; Kohei Hidaka; Moriyuki Hamada; Lina Huang; Koichi Watanabe; Chien-Hsun Huang (2024) Faecalibacterium taiwanense sp. nov., isolated from human faeces. International Journal of Systematic and Evolutionary Microbiology
2. Wang YT, Lin YC, Hsieh YH, Lin YT, Hamada M, Chen CC, Liou JS, Lee AY, Zhang WL, Chen YT, Huang CH* (2024) Staphylococcus hsinchuensis sp. nov. Isolated from Soymilk. Pathogens 13, 343.
3. Tseng YW†, Huang CW, Chen CC†, Er TK* (2024) Assessment of Antibiotic Resistance Patterns in Central Taiwan during the COVID-19 Pandemic: A Retrospective Study. Journal of Infection and Public Health 17, 229-235. (IF = 6.7; 18/96 (Q1) in INFECTIOUS DISEASES)
4. Liu YY, Hsu CY, Yang YC, Huang CH, Chen CC* (2023) ProbioMinServer: an integrated platform for assessing the safety and functional properties of potential probiotic strains. Bioinformatics Advances 3, vbad153.
5. Yen KT, Jiang JF, Chen CC, Er TK* (2023) Performance Evaluation of the VIDAS® D-Dimer Exclusion™ II Assay and the Beckman Coulter D-Dimer Assay. Clin Lab. 69, doi: 10.7754/Clin.Lab.2023.230414. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
6. Tseng YW, Chen CC, Liao YY, Er TK* (2023) Optimizing Blood Culture Volumes by Implementing PDCA Cycle Management. Clin Lab. 69, 850-852. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
7. Chen YJ†, Chen CC†, Er TK* (2023) Cardiac markers and the incidence of cardiovascular disease in patients with chronic kidney disease. Advances in clinical chemistry 115, 63-80. (IF = 6.303; 6/29 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
8. Lee AY†, Chen CH†, Liou JS, Lin YC, Hamada M, Wang YT, Peng LL, Chang SC, Chen CC, Lin CF, Huang L, Huang CH*. (2022) Micrococcus porci sp. nov., Isolated from Feces of Black Pig (Sus scrofa). Life 12, 1749.
9. Chen CC, Chou YC, Hsu CY, Tsai EM, Er TK* (2022) Transcriptome profiling of eutopic and ectopic endometrial stromal cells in women with endometriosis based on high throughput sequencing. Biomedicines 10, 2432. (IF = 4.757; 87/279 in PHARMACOLOGY & PHARMACY)
10. Chen CC*, Liu YY, Yang YC, Hsu CY (2022) 5NosoAE: a web server for nosocomial bacterial antibiogram investigation and epidemiology survey. Nucleic Acids Research 50, W21-W28. (IF = 19.160; 8/297 (Q1) in BIOCHEMISTRY & MOLECULAR BIOLOGY)
11. Chen CC, Zhuang ZJ, Wu CW, Tan YL, Huang CH, Hsu CY, Tsai EM, Hsieh TH* (2022) Venetoclax Decreases the Expression of the Spike Protein through Amino Acids Q493 and S494 in SARS-CoV-2. Cells 11, 1924. (IF = 7.666; 51/195 in CELL BIOLOGY)
12. Chen CC, Er TK* (2022) Detection of the SARS-CoV-2 D614G Mutation Using VirSNiP SARS-CoV-2 Spike D614G Assay. Clin. Lab. 68, 1305-1308. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
13. Liu YY†, Chen CC†, Yang CH, Hsieh HY, He JX, Lin HH, Lee CC* (2022) LmTraceMap: A Listeria monocytogenes fast-tracing platform for global surveillance. PLoS One 17, e0267972. (IF = 3.752; 29/74 in MULTIDISCIPLINARY SCIENCES)
14. Lu CH, Chen CC, Yu CS, Liu YY, Liu JJ, Wei ST, Lin YF* (2022) MIB2: metal ion-binding site prediction and modeling server. Bioinformatics 38, 4428-4429. (IF = 6.931, 5/57 (Q1) in MATHEMATICAL & COMPUTATIONAL BIOLOGY)
15. Liu YY, Chen CC* (2021) A machine learning-based typing scheme refinement for Listeria monocytogenes core genome multilocus sequence typing with high discriminatory power for common source outbreak tracking. PLoS One 16, e0260293. (IF = 3.752; 29/74 in MULTIDISCIPLINARY SCIENCES)
16. Liu YY†, Chen BH†, Chen CC, Chiou CS* (2021) Assessment of metrics in next-generation sequencing experiments for use in core-genome multilocus sequence type. PeerJ 9, e11842. (IF = 3.061; 33/73 in MULTIDISCIPLINARY SCIENCES)
17. Ramireddy L*, Tsen HY*, Chiang YC, Hung CY, Wu SR, Young S, Lin JS, Huang CH, Chiu SH, Chen CC, Chen CC (2021) Molecular Identification and Selection of Probiotic Strains Able to Reduce the Serum TMAO Level in Mice Challenged with Choline. Foods 10, 2931. (IF = 5.561; 35/143 (Q1) in FOOD SCIENCE & TECHNOLOGY)
18. Chen TR, Lin YC, Huang YW, Chen CC, Lo WC* (2021) CirPred, the first structure modeling and linker design system for circularly permuted proteins. BMC Bioinformatics 22, 494. (IF = 3.307; 20/57 in MATHEMATICAL & COMPUTATIONAL BIOLOGY)
19. Chan TH, Wang YY, Chen CC, Huang WL, Lin IY, Er TK* (2021) A Comparison of Two Molecular Methods for Detecting CALR Mutations in Myeloproliferative Neoplasms. Clin. Lab. 67, 2018-2023. (IF = 1.053; 26/29 in MEDICAL LABORATORY TECHNOLOGY)
20. Huang CH*, Chen CC, Lin YC, Chen CH, Lee AY, Liou JS, Gu CT, Huang LN (2021) The mutL Gene as a Genome-Wide Taxonomic Marker for High Resolution Discrimination of Lactiplantibacillus plantarum and Its Closely Related Taxa. Microorganisms 9, 1570. (IF = 4.926; 54/136 in MICROBIOLOGY)
21. Chen, C.C., Hsu, C.Y., Lin, H.Y., Zeng, H.Q., Cheng, K.H., Wu, C.W., Tsai, E.M.*, Hsieh, T.H.* (2020) KRAS K104 modification affects the KRASG12D-GEF interaction and mediates cell growth and motility. Scientific Reports 10, 17447. (IF = 4.997; 19/74 (Q2) in MULTIDISCIPLINARY SCIENCES)
22. Korla, P.K.†, Chen, C.C.†, Gracilla, D.E.†, Lai, M.T., Chen, C.M., Chen, H.Y., Hwang, T., Chen, S.Y.*, Sheu, J.C.* (2020) Somatic mutational landscapes of adherens junctions and their functional consequences in cutaneous melanoma development. Theranostics 10, 12026. (IF = 11.600; 13/139 (Q1) in MEDICINE, RESEARCH & EXPERIMENTAL)
23. Huang, C.H.†, Chen, C.C.†, Chiu, S.H., Liou, J.S., Lin, Y.C., Lin, J.S., Huang, L. and Watanabe, K.* (2020) Development of a High-Resolution Single-Nucleotide Polymorphism Strain-Typing Assay Using Whole Genome-Based Analyses for the Lactobacillus acidophilus Probiotic Strain. Microorganisms 8, 1445. (IF = 4.926; 54/137 in MICROBIOLOGY)
24. Liou, J.S.†, Huang, C.H.†, Ikeyama, N., Lee, A.Y., Chen, I.C., Blom, J., Chen, C.C., Chen, C.H., Lin, Y.C., Hsieh, S.Y., Huang, L., Ohkuma, M., Watanabe, K., Sakamoto, M.* (2020) Prevotella hominis sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 70, 4767-4773. (IF = 2.531; 136/629 (Q1) in ECOLOGY, EVOLUTION, BEHAVIOR AND SYSTEMATICS)
25. Ke, L.Y.*, Chan, H.C., Chen, C.C., Chang, C.F., Lu, P.L., Chu, C.S., Lai, W.T., Shin, S.J., Liu, F.T., Chen, C.H.* (2020) Increased APOE glycosylation plays a key role in the atherogenicity of L5 low-density lipoprotein. FASEB Journal 34, 9802–9813. (IF = 4.966; 9/93 (Q1) in BIOLOGY)
26. Huang, C.H., Chen, C.C., Liou, J.S., Lee, A.Y., Blom, J., Lin, Y.C., Huang, L., Watanabe, K.* (2020) Genome-based reclassification of Lactobacillus casei: emended classification and description of the species Lactobacillus zeae. Int. J. Syst. Evol. Microbiol. 70, 3755–3762. (IF = 2.531; 136/629 (Q1) in ECOLOGY, EVOLUTION, BEHAVIOR AND SYSTEMATICS)
27. Liu, Y.Y.†, Lin, J.W.†, Chen, C.C.* (2019) cano-wgMLST_BacCompare: A Bacterial Genome Analysis Platform for Epidemiological Investigation and Comparative Genomic Analysis. Frontiers in Microbiology 10, 1687. (IF = 6.064; 34/136 (Q1) in MICROBIOLOGY)
28. Liu, Y.Y., Lin, J.W., Chen, C.C.* (2019) The Cano-eMLST Program: An Approach for the Calculation of Canonical Extended Multi-Locus Sequence Typing, Making Comparison of Genetic Differences Among Bunches of Bacterial Strains. Microorganisms 7, 98. (IF = 4.167; 34/133 in MICROBIOLOGY)
29. Tsai, M.H.†, Liu, Y.Y.†, Chen, C.C.* (2019) OutbreakFinder: a visualization tool for rapid detection of bacterial strain clusters based on optimized multidimensional scaling. PeerJ 7, e7600. (IF = 3.061; 33/73 in MULTIDISCIPLINARY SCIENCES)
30. Tsai, M.H.†, Liu, Y.Y.†, Soo, V.W.*, Chen, C.C.* (2019) A New Genome-to-Genome Comparison Approach for Large-Scale Revisiting of Current Microbial Taxonomy. Microorganisms 7, 161. (IF = 4.167; 34/133 in MICROBIOLOGY)
31. Parveen, F.†, Bender, D.†, Law, S.H., Mishra, V.K., Chen, C.C., Ke, L.Y.* (2019) Role of Ceramidases in Sphingolipid Metabolism and Human Diseases. Cells 8, 1573. (IF = 4.366; 70/195 in CELL BIOLOGY)
32. Herreros-Villanueva, M.†, Chen, C.C.†, Tsai, E.M., Er, T.K.* (2019) Endometriosis-associated ovarian cancer: What have we learned so far? Clinica Chimica Acta 493, 63-72. (IF = 6.314; 5/29 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
33. Sua, Y.F.†, Tsai, E.M.†, Chen, C.C., Wue, C.C., Er, T.K.* (2019) Targeted sequencing of a specific gene panel detects a high frequency of ARID1A and PIK3CA mutations in ovarian clear cell carcinoma. Clinica Chimica Acta 494, 1-7. (IF = 6.314; 5/29 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
34. Liu, Y.Y., Chen, C.C.* (2017) Computational Analysis of the Molecular Mechanism of RamR Mutations Contributing to Antimicrobial Resistance in Salmonella enterica. Scientific Reports 7, 13418. (IF = 4.122; 12/64 (Q1) in MULTIDISCIPLINARY SCIENCES)
35. Lee, H.C.*, Chen, C.C., Tsai, W.C., Lin, H.T., Hsiao, Y.L., Sheu, S.H., Wu, B.N., Chen, C.H., Lai, W.T. (2017) Very-Low-Density Lipoprotein of Metabolic Syndrome Modulates Gap Junctions and Slows Cardiac Conduction. Scientific Reports 7, 12050. (IF = 4.122; 12/64 (Q1) in MULTIDISCIPLINARY SCIENCES)
36. Lee, H.C., Rudy, Y., Liang, H., Chen, C.C., Luo, C.H., Chang, J.G., Lai, W.T., Sheu, S.H., Cui, J. (2017) Pro-arrhythmogenic effects of the V141M KCNQ1 mutation in short QT syndrome and its potential therapeutic targets: insights from modeling. Journal of Medical and Biological Engineering 37, 780-789. (IF = 2.213; 75/98 in ENGINEERING, BIOMEDICAL)
37. Liu, Y.Y, Chiou, C.S., Chen, C.C.* (2016) PGAdb-builder: A web service tool for creating pan-genome allele database for molecular fine typing. Scientific Reports 6, 36213. (IF = 4.122; 12/64 (Q1) in MULTIDISCIPLINARY SCIENCES)
38. Liu, Y.Y.†, Chen, C.C.†, Chiou, C.S.* (2016) Construction of a Pan-Genome Allele Database of Salmonella enterica Serovar Enteritidis for Molecular Subtyping and Disease Cluster Identification. Frontiers in Microbiology 7, 2010. (IF = 4.165; 23/123 (Q1) in MICROBIOLOGY)
39. Stancel, J.N.†, Chen, C.C.†, Ke, L.Y., Chu, C.S., Lu, J., Sawamura, T., Chen, C.H.* (2016) Interplay Between CRP and LDL in the Pathogenesis of Atherosclerosis. Clinical Chemistry 62, 320-327. (IF = 8.008; 1/30 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
40. Er, T.K., Su, Y.F., Wu, C.C., Chen, C.C., Wang, J., Hsieh, T.H., Herreros-Villanueva, M., Chen, W.T., Chen, Y.T., Liu, T.C., Chen, H.S., Tsai, E.M.* (2016) Targeted next-generation sequencing for molecular diagnosis of endometriosis-associated ovarian cancer. Journal of Molecular Medicine 2016 Feb 27. (IF = 5.107; 6/157 (Q1) in DRUG DISCOVERY)
41. Ke, L.Y., Chan, H.C., Chen, C.C., Lu, X., Marathe, G., Chu, C.S., Chan, H.C., Wang, C.Y., Tung, Y.C., McIntyre, T., Yen, J.H.*, Chen, C.H.* (2016) Enhanced Sphingomyelinase Activity Contributes to the Apoptotic Capacity of Electronegative Low-Density Lipoprotein. Journal of Medicinal Chemistry 59, 1032-1040. (IF = 5.447; 3/59 (Q1) in CHEMISTRY, MEDICINAL)
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44. Er, T.K.†, Chen, C.C.†, Bujanda L., Marta, H.V.* (2014) Current Approaches for Predicting a Lack of Response to Anti-EGFR Therapy in KRAS Wild-Type Patients. BioMed Research International 2014, 591867. (IF = 2.706; 50/124 in MEDICINE, RESEARCH & EXPERIMENTAL)
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46. Er, T.K.†, Chen, C.C.†, Chien, Y.H., Liang, W.C., Kan, T.M., Jong, Y.J.* (2014). Development of a feasible assay for the detection of GAA mutations in patients with Pompe disease. Clinica Chimica Acta 429, 18-25. (IF = 2.824; 5/30 (Q1) in MEDICAL LABORATORY TECHNOLOGY)
47. Er, T.K., Lin, C.W., Liu, T.C., Chen, C.C., Wang, L.H., Hsieh, L.L., and Tsai, W.C.* (2014). Increase EGFR Mutations Detection Rate in Lung Adenocarcinoma by Real-Time PCR Screening Followed by Direct Sequencing. Diagn Mol Pathol. 2014 Jan 30. (IF = 2.275; 33/76 in PATHOLOGY)
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近年計畫:
• 113年度 開發進階型次世代益生菌之基因體分析及功能性預測平台並建立加值型資料庫NSTC 113-2221-E-110-066 -(主持人)
• 112年度 高效率蛋白質結構及序列分析預測系統之延續計畫NSTC 112-2221-E-A49 -119 -(共同主持人)
• 112年度 利用泛基因體等位基因資料庫與機器學習方法建置重要院內感染病原菌之大規模視覺化抗藥譜比對與流行病學分析平台(II)NSTC 112-2221-E-018 -019 -(共同主持人)
• 111年度 利用泛基因體等位基因資料庫與機器學習方法建置重要院內感染病原菌之大規模視覺化抗藥譜比對與流行病學分析平台MOST 111-2221-E-039-017 -(共同主持人)
• 111年度 高效率蛋白質結構及序列分析預測系統MOST 111-2221-E-A49-163 -(共同主持人)
• 113年度 開發進階型次世代益生菌之基因體分析及功能性預測平台並建立加值型資料庫NSTC 113-2221-E-110-066 -(主持人)
• 112年度 高效率蛋白質結構及序列分析預測系統之延續計畫NSTC 112-2221-E-A49 -119 -(共同主持人)
• 112年度 利用泛基因體等位基因資料庫與機器學習方法建置重要院內感染病原菌之大規模視覺化抗藥譜比對與流行病學分析平台(II)NSTC 112-2221-E-018 -019 -(共同主持人)
• 111年度 利用泛基因體等位基因資料庫與機器學習方法建置重要院內感染病原菌之大規模視覺化抗藥譜比對與流行病學分析平台MOST 111-2221-E-039-017 -(共同主持人)
• 111年度 高效率蛋白質結構及序列分析預測系統MOST 111-2221-E-A49-163 -(共同主持人)
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