Network Biology Lab - User contributions [en]

People:Han-June KIM

2026-04-02T08:33:28Z

Administrator:

===Hanjune KIM===
{|
|[[File:Hanjune_Kim.jpg|300px]]
|
*'''Ph.D's program student''' (2021~), Department of Biotechnology, Yonsei University
*'''B.S.''' (2020), Department of Biotechnology, Yonsei University
E-mail: kaka0308@yonsei.ac.kr

* '''Research Interest'''
** Human microbiome
** Deep learning

* '''Favorite'''
** Weight training
** IT
|}

People:Euijeong Sung

2026-04-02T08:32:49Z

Administrator: /* Eui Jeong Sung */

===Eui Jeong Sung===
{|
|[[File:Euijeong_Sung.jpg|300px]]
|
*'''Ph.D's program student''' (2021~), Department of Biotechnology, Yonsei University
*'''B.S.''' (2016-2021), Department of Biotechnology, Yonsei University
E-mail: matlab@yonsei.ac.kr

* '''Current research topic(s)'''
** Single Cell Genomics
** Analysis of clinical cancer
** scRNA-seq data

* '''Favorite'''
** travel
|}

People

2026-04-02T08:21:04Z

Administrator:

__NOTOC__
=='''Scientists & Research Staff'''==
{|border="0" width="1080"
|align="center"|[[File:prof_Insuk_fixed.png|100px|link=people:IS_Lee]]
|align="center"|[[File:SM_fixed.png|100px|link=people:SM_Yang]]
|align="center"|[[File:JunHyeong_fixed.png|100px|link=People:Jun_Hyung_Cha]]
|align="center"|[[File:Ilseok_fixed.png|100px|link=People:IS_Choi]]
|align="center"|[[File:JunYeong_fixed.png|100px|link=People:Junyeong_Ma]]
|align="center"|[[File:Hanjune_fixed.png|100px|link=People:Han-June_KIM]]
|align="center"|[[File:EuiJeong_fixed.png|100px|link=People:EuiJeong_Sung]]
|align="center"|[[File:Sehun_fixed.png|100px|link=People:Sehun_Ahn]]
|-

|width=160px; align="center"|[[people:IS_Lee|<big>'''Insuk Lee'''</big>]]
|width=160px; align="center"|[[people:SM_Yang|<big>'''Sunmo Yang'''</big>]]
|width=160px; align="center"|[[People:Jun_Hyung_Cha|<big>'''Jun Hyung Cha'''</big>]]
|width=160px; align="center"|[[People:IS_Choi|<big>'''Ilseok Choi'''</big>]]
|width=160px; align="center"|[[People:Junyeong_Ma|<big>'''Junyeong Ma'''</big>]]
|width=160px; align="center"|[[People:Hanjune_Kim|<big>'''Hanjune Kim'''</big>]]
|width=160px; align="center"|[[People:Euijeong_Sung|<big>'''Euijeong Sung'''</big>]]
|width=160px; align="center"|[[People:Sehun_Ahn|<big>'''Sehun Ahn'''</big>]]
|-

|align="center"|[[people:IS_Lee|Principal Investigator Professor]]
|align="center"|[[people:SM_Yang|Bioinformatics Programmer & Sys. Admin]]
|align="center"|[[People:Jun_Hyung_Cha|Postdoc Fellow (Microbiome) ]]
|align="center"|[[People:IS_Choi|Ph.D candidate (Single-cell Biology) (2020.9 - )]]

|align="center"|[[People:Junyeong_Ma|Ph.D candidate (Microbiome) (2021.3 - )]]
|align="center"|[[People:Hanjune_Kim|Ph.D candidate (Microbiome) (2021.3 - )]]
|align="center"|[[People:Euijeong_Sung|Ph.D candidate (Single-cell Biology) (2021.9 - )]]
|align="center"|[[People:Sehun_Ahn|Ph.D candidate (Microbiome) (2022.3 - )]]

|}
{|border="0" width="1080"
|align="center"|[[File:Jungyeon_fixed.png|100px|link=People:Jungyeon_Kim]]
|align="center"|[[File:Yerin_fixed.png|100px|link=People:Yerin_Kim]]
|align="center"|[[File:Yurim_fixed_(2).jpg|100px|link=People:Yurim_Jung]]
|align="center"|[[File:HaeBeen_fixed.jpg|100px|link=People:Hae_Been_lee]]
|align="center"|[[File:Sebin_fixed.jpg|100px|link=People:Sebin_Lim]]
|align="center"|[[File:Yunyeong_fixed.png|100px|link=People:Yunyeong_Jang]]
|align="center"|[[File:Jonghyun_fixed.png|100px|link=People:Jonghyun_Hwang]]
|-
|width=160px; align="center"|[[People:Jungyeon_Kim|<big>'''Jungyeon Kim'''</big>]]
|width=160px; align="center"|[[People:Yerin_Kim|<big>'''Yerin Kim'''</big>]]
|width=160px; align="center"|[[People:Yurim_Jung|<big>'''Yurim Jung'''</big>]]
|width=160px; align="center"|[[People:Hae_Been_lee|<big>'''Hae Been Lee'''</big>]]
|width=160px; align="center"|[[People:Sebin_Lim|<big>'''Sebin Lim'''</big>]]
|width=160px; align="center"|[[People:Yunyeong_Jang|<big>'''Yunyeong Jang'''</big>]]
|width=160px; align="center"|[[People:Jonghyun_Hwang|<big>'''Jonghyun Hwang'''</big>]]

|-
|align="center"|[[People:Jungyeon_Kim|Ph.D candidate (Microbiome) (2023.3 - )]]
|align="center"|[[People:Yerin_Kim|Integrated Ph.D course (Microbiome) (2024.3 - )]]
|align="center"|[[People:Yurim_Jung|Integrated Ph.D course (Single-cell Biology) (2024.9 - )]]
|align="center"|[[People:Hae_Been_lee|Integrated Ph.D course (Microbiome) (2024.9 - )]]
|align="center"|[[People:Sebin_Lim|Integrated Ph.D course (Microbiome) (2025.3 - )]]
|align="center"|[[People:Yunyeong_Jang|Master course (Microbiome) (2026.3 - )]]
|align="center"|[[People:Jonghyun_Hwang|Master course (Microbiome) (2026.3 - )]]
|}

=='''Administrative Assistant'''==

=='''Undergraduate Students'''==
*Zunu An
*Seung Wan Jeon
*Sung Min Kim
*Zixuan Guo
*Hyeonjin Kim
*Eunjeong Kim

=='''Alumni'''==
*'''Former Post-docs and Staff Scientists'''
**1. Taeyun Oh (2009.5-2011.12), currently Senior Researcher at Cowellbiogim, Korea
**2. Sohyun Hwang (2010.3-2015.8), currently Professor at [https://grad.cha.ac.kr/%ed%99%a9%ec%86%8c%ed%98%84/ Department of Biomedical Science, CHA University], Korea [https://scholar.google.com/citations?user=z5yC9cwAAAAJ&hl=en Google Scholar] (차의과대학 의과학과 교수)
**3. Samuel Beck (2011.2-2011.12), currently Associate Professor at Boston University, USA, [https://beck310.wixsite.com/becklab Lab Homepage] (미 보스턴 대학교 부교수)
**4. Jawon Song (2011.1-2012.5), currently Research Associate at [https://www.tacc.utexas.edu/about/directory/jawon-song Texas Advanced Computing Center], Austin, TX, USA [https://scholar.google.com/citations?user=wv61wGoAAAAJ&hl=en Google Scholar] (미국 텍사스슈퍼컴퓨팅센터 선임연구원)
**5. Yoonhee Ko (2012.8-2014.2), currently Associate Professor at [https://hufsbiomed.weebly.com/ Department of Biomedical Engineering, Hankuk University of Foreign Studies], Korea [https://scholar.google.com/citations?user=GBxCYX8AAAAJ&hl=en Google Scholar] (한국외국어대 바이오공학과 교수)
**6. Jonghoon Lee (2013.10-2014.2), currently Professor at [https://www.gachon.ac.kr/foodbiotech/6142/subview.do Department of Food Biotechnology, Gachon University], Korea (가천대학교 식품생명공학과 교수)
**7. Jung Eun Shim (2009.8-2017.11), currently Staff Scientist at Yonsei Genomics Center Bioinformatics Data Analysis Core (연세의료원 유전체센터 생명정보분석코어 책임연구원)

*'''Former Graduate Students (Ph.D)'''
**1. Junha Shin (2008.9-2014.2), PhD; currently Scientist at [https://wid.wisc.edu/people/junha-shin/ Wisconsin Institute for Discovery], USA (미국 위스콘신 대학연구소 연구원)
**2. Hanhae Kim (2009.9-2015.2), PhD; currently Research Fellow at [http://www.kistep.re.kr Korea Institute of S&T Evaluation and Planning (KISTEP)] (한국과학기술기획평가원 연구위원)
**3. Ara Cho (2009.9-2015.2), PhD; currently Research Fellow at [http://www.kistep.re.kr Korea Institute of S&T Evaluation and Planning (KISTEP)] (한국과학기술기획평가원 연구위원)
**4. Eiru Kim (2010.9-2016.8), PhD; currently Senior Expert in Data Science, [https://www.gnf.org/ The Genomics Institute of the Novartis Research Foundation], San Diego, USA (노바티스 선임데이터분석연구원)
**5. Tak Lee (2011.3-2017.2), PhD; currently Senior Bioinformatician, [https://www.mpipz.mpg.de/en Max Planck Institute for Plant Breeding Research] (독일 막스플랭크 연구소 선임생명정보학자)
**6. Heonjong Han (2013.3~2019.8), PhD; currently Bioinformatics engineer at [https://3billion.io/ 3billion] (바이오기업 데이터사이언티스트)
**7. Kyungsoo Kim (2013.3~2020.2), PhD; currently Research Professor at Severance Hospital (강남세브란스의료원 유방암센터 연구교수)
**8. Jae-Won Cho (2016.9~2021.2), PhD; currently Assistant Professor at [https://ibb.hanyang.ac.kr/ Hanyang Institute of Bioscience and Biotechnology] (한양대학교 한양생명과학기술원 조교수)
**9. Chan Yeong Kim (2015.3~2021.2), PhD; currently Postdoc Fellow at European Molecular Biology Laboratory in Heidelberg [http://www.bork.embl.de/j/ Bork Group] (유럽연합분자생물학연구소 박사후 연구원)
**10. Sungho Lee (2017.3-2024.2), PhD; currently Data Scientist at [http://www.mogam.re.kr/kor/ MOGAM Institute for Biomedical Research] (목암생명과학연구소, (주)녹십자 출연 연구소, 선임연구원)
**11. Junha Cha (2019.9-2025.2), PhD; currently Postdoc Fellow at Stanford University, [https://dna-discovery.stanford.edu/ Prof. Hanlee P. Ji Lab](미국 스탠퍼드대학교 박사후연구원)
**12. Seungbyn Baek (2019.9-2025.2), PhD; currently Postdoc Fellow at Stanford University, [https://kundajelab.github.io/ Prof. Anshul Kundaje Lab](미국 스탠퍼드대학교 박사후연구원)
**13. Nayeon Kim (2019.9-2025.2), PhD; currently Postdoc Fellow at KAIST InnoCORE Research Group (과학기술원 InnoCORE 초거대언어모델 혁신 연구단, 박사후연구원)
**14. Jun Hyung Cha (2020.9-2026.2), PhD;

*'''Former Graduate Students (Master's degree)'''
**1. Sun-Gou Ji (2009.9-2011.8), M.Eng.; PhD from University of Cambridge (Sanger Genome center); currently Vice President, Computational Genetics at [https://bridgebio.com/ BridgeBio Pharma], Boston, USA (미 바이오기업 부대표)
**2. Hyojin Kim (2013.3-2015.2), M.Eng.; PhD from University of Aachen; currently Scientist at Bayer, Germany [https://www.linkedin.com/in/hyojin-kim-b3bb711ab Linkedin] (독일 바이엘 제약회사 선임 연구원)
**3. Hongseok Shim (2013.9-2015.8), M.Eng.; currently PhD student, Arizona State University, Biomedical Informatics program (애리조나주립대 생물정보학 박사과정)
**4. Sunmo Yang (2014.9-2017.2), M.Eng. currently Bioinformatics programmer, Yonsei University (연세대 네트워크생명공학 연구실 책임데이터연구원)
**5. Muyoung Lee (2016.3-2018.2), M.Eng. currently PhD student, University of Texas at Austin, Cellular and Molecular Biology Program (텍사스주립대 생물정보학 박사과정)
**6. Jiwon Yu (2021.9-2023.8), M.Eng. currently Data Scientist at [https://www.samsungbioepis.com/kr/index.do SAMSUNG BIOEPIS] (삼성바이오에피스 데이터사이언티스트)
**7. Geon_Koh (2022.9-2025.2), M.Eng. currently Researcher at Gachon University, College of Medicine (가천의대 시스템생물학 연구실 연구원)
**8. Wonjong Kim (2023.3-2025.8), M.Eng. currently Researcher at [https://samsungbiologics.com/ SAMSUNG Biologics] (삼성바이오로직스 연구원)

*'''Former Visiting Scientists/Students'''
**1. Minkyung Shin (2012.3-2012.7), went to University of Southern California graduate school
**2. Paul Chung (2012 summer), currently work at [https://about.meta.com/ Meta], USA
**3. Hyunjin Cho (2014 summer), currently Bioinformatics research assistant at [http://www.libd.org/ The Lieber Institute for Brain Development | LIBD], USA
**4. Michael Chung (2016.8-2016.12), currently work at [https://about.meta.com/ Meta], USA

*'''Former Undergraduate Students'''
**1. Ila Shin, went to medical school (Yonsei Univ.) Currently Professor, Kyunghee University School of Medicine (경희대학교 의과대학 교수)
**2. Yoonkyung Ko
**3. Sangyo Park, went to law school (Kyounghee Univ.)
**4. Jayoon Shin, went to medical school (Pusan National Univ.)
**5. Dongjoo Sun, went to dental school (Wongwang Univ.)
**6. Eulsoo Kim
**7. Myungwhan Lee, went to medical school (Yonsei Univ.)
**8. Moonhee Lee, went to graduate school (University of Amsterdam, Netherlands)
**9. Jinhyun Ju, went to graduate school (Cornell Medical School, Computational Systems Biology); Currently Principal Computational Biologist, Cancer Genomics at [https://bridgebio.com/ BridgeBio Pharma], Seattle, USA (미 바이오기업 선임연구원)
**10. Haeyoung Shin, went to graduate school (Brown University, Computational Neuroscience); Currently Professor, Seoul National University (서울대학교 생명과학부 교수)
**11. Joonghee Soh, went to graduate school (KAIST, Culture Technology)
**12. Hee Jung Cho, went to graduate school (UC Berkeley)
**13. TaeHwan Kim, went to medical school
**14. Joohyung Kim, went to medical school (Kyungpook National Univ.)
**15. Donghyun Shin, went to medical school (Yonsei Univ.)
**16. Byunghee Kang (2015 spring - 2016 summer), went to graduate school (PosTech)
**17. Sunphil Kim (2016 winter)
**18. Jaeho Shim (2016 winter)
**19. Seunghyun Shin (2016 spring)
**20. Aejoo Hong (2016 spring)
**21. Changbae Bang (2016 summer), went to medical school (Yonsei Univ.)
**22. Seoyoung Choi (2016 summer)
**23. Dabin Jung (2016 summer)
**24. Boreum Nam (2016 summer)
**25. Seungun Lee (2016 summer)
**26. Yeaji Kim (2016 summer and fall)
**27. Sangyoung Lee (2017 winter)
**28. Heejun Jang (2017 winter & spring), went to KIST as Research Assistant
**29. Jungha Lee (2017 summer), went to graduate school (Seoul National Univ.)
**30. Seunghyun Wang (2017 summer), went to graduate school (KAIST)
**31. Dong-Min Yang (2017 fall)
**32. Doo-Hee Lee (2017 fall)
**33. Suk-Jae Han (2018 winter)
**34. Ji-Eun Han (2018 winter)
**35. Yuri Ko (2018 spring)
**36. Sung-Woo Kim (2018 spring)
**37. Woosung Kwon (2018 summer)
**38. Soyun Kong (2018 summer)
**39. Hojeong Keum (2018 summer and fall)
**40. Sungjun Lim (2018 summer and fall)
**41. Jiyoon Lee (2018 summer and fall)
**42. Ilseok Choi(2019 winter, spring, summer and fall, 2020 winter, spring)
**43. Junik Park (2019 winter)
**44. Lee Yoo (2019 winter & spring)
**45. Yeonwha Kim (2019 winter & spring)
**46. Sohee Kim (2019 spring)
**47. Juseong Lee (2019 spring)
**48. Junyoung Yang (2019 spring & summer)
**49. Junyeong Ma (2019 summer, 2020 winter, summer, fall, 2021 winter)
**50. Dayeon Jung (2019 summer)
**51. Hanjoon Kim (2019 summer, 2021 winter)
**52. Hyungjin Kim (2020 winter, spring)
**53. Sujin Hyun (2020 winter)
**54. Hyuki Lee (2020 winter)
**55. Donghwan Lee (2020 winter)
**56. Jun Hyung Cha (2020 spring, summer)
**57. Jiwon Yu (2020 summer, 2021 Spring, summer)
**58. Dong Seok Kim (2020 summer)
**59. Donggeun Lee (2020 summer)
**60. Sehun Ahn (2020 summer, 2021 winter, spring, summer, 2022 winter)
**61. Jiho Kim (2020 summer)
**62. Euijung Seong (2020 fall, 2021 spring, summer)
**63. Junhan Kim (2021 winter & spring)
**64. Suyong Choi (2021 winter)
**65. Sujin Pyeon (2021 Spring)
**66. Hyeon Hee Ji (2021 Spring)
**67. Semin Kim (2021 Summer)
**68. Su Hwan Kim (2021 Summer)
**69. Yongbin Kim (2021 Summer)
**70. Nan Park (2021 Summer)
**71. Hoyong Jung (2021 Summer)
**72. Ingyeong Koh (2021 Summer)
**73. Jongbin Jeong (2022 Winter)
**74. Sungchul Yang (2022 Winter, Spring, Summer)
**75. Hyojung Lee (2022 Winter, Spring)
**76. Jun Hyeong Kim (2022 Winter, Spring)
**77. Young Ji Roh (2022 Spring, Summer)
**78. Geon Koh (2022 Spring, Summer)
**79. Hayoung Kang (2022 Summer, 2023 Spring)
**80. Won Jong Kim (2022 Summer, Fall, 2023 Winter)
**81. Christian Lee (2022 Summer)
**82. Je Yun Kang (2022 Summer)
**83. Sumin Lee (2022 Fall)
**84. Jungyeon Kim (2022 Fall, 2023 Winter)
**85. Seol Song (2023 Winter)
**86. Soyeon Kim (2023 Summer)
**87. Sieun Park (2023 Summer)
**88. Gunhyeong Lee (2023 Summer)
**89. Yunseo Han (2023 Summer)
**90. Jae Hyun Kim (2023 Summer)
**91. Jeong-min Seo (2023 Summer)
**92. Yerin Kim (2023 Fall, 2024 Winter)
**93. Sang Min Park (2024 Winter)
**94. Minsun Seo (2024 Winter)
**95. Jaeryun Sim (2024 Winter)
**96. Sun Min Lim (2024 Winter)
**97. Yurim Jung (2024 Spring, Summer)
**98. Hae Been Lee (2024 Spring, Summer)
**99. Zunu An (2024 Summer, Fall, 2025 Winter, Spring, Summer, Fall, 2026 Winter)
**100. Se Bin Lim (2024 Summer, Fall, 2025 Winter)
**101. Sang Min Yoon (2024 Summer)
**102. Yena Kim (2024 Summer)
**103. Kang Eon Lee (2024 Fall)
**104. Soyoon Park (2025 Winter)
**105. Sojung Lee (2025 Winter)
**106. Leanne Ma (2025 Winter)
**107. Seung Wan Jeon (2025 Summer, Fall, 2026 Winter)
**108. Joongun Lee (2025 Summer)
**109. Minseo Kim (2025 Summer)
**110. Hong Kyu Park (2025 Summer)
**111. Yunyeong Jang (2025 Fall, 2026 Winter)
**112. Jong Hyun Hwang (2025 Fall, 2026 Winter)
**113. Gyuweon Park (2025 Fall)
**114. Sung Min Kim (2026 Winter)
**115. Zixuan Guo (2026 Winter)
**116. Hyeonjin Kim (2026 Winter)
**117. Eunjeong Kim (2026 Winter)

People

2026-04-02T08:18:55Z

Administrator:

__NOTOC__
=='''Scientists & Research Staff'''==
{|border="0" width="1080"
|align="center"|[[File:prof_Insuk_fixed.png|100px|link=people:IS_Lee]]
|align="center"|[[File:SM_fixed.png|100px|link=people:SM_Yang]]
|align="center"|[[File:JunHyeong_fixed.png|100px|link=People:Jun_Hyung_Cha]]
|align="center"|[[File:Ilseok_fixed.png|100px|link=People:IS_Choi]]
|align="center"|[[File:JunYeong_fixed.png|100px|link=People:Junyeong_Ma]]
|align="center"|[[File:Hanjune_fixed.png|100px|link=People:Han-June_KIM]]
|align="center"|[[File:EuiJeong_fixed.png|100px|link=People:EuiJeong_Sung]]
|align="center"|[[File:Sehun_fixed.png|100px|link=People:Sehun_Ahn]]
|-

|width=160px; align="center"|[[people:IS_Lee|<big>'''Insuk Lee'''</big>]]
|width=160px; align="center"|[[people:SM_Yang|<big>'''Sunmo Yang'''</big>]]
|width=160px; align="center"|[[People:Jun_Hyung_Cha|<big>'''Jun Hyung Cha'''</big>]]
|width=160px; align="center"|[[People:IS_Choi|<big>'''Ilseok Choi'''</big>]]
|width=160px; align="center"|[[People:Junyeong_Ma|<big>'''Junyeong Ma'''</big>]]
|width=160px; align="center"|[[People:Hanjune_Kim|<big>'''Hanjune Kim'''</big>]]
|width=160px; align="center"|[[People:Euijeong_Sung|<big>'''Euijeong Sung'''</big>]]
|width=160px; align="center"|[[People:Sehun_Ahn|<big>'''Sehun Ahn'''</big>]]
|-

|align="center"|[[people:IS_Lee|Principal Investigator Professor]]
|align="center"|[[people:SM_Yang|Bioinformatics Programmer & Sys. Admin]]
|align="center"|[[People:Jun_Hyung_Cha|Postdoc Fellow (Microbiome) ]]
|align="center"|[[People:IS_Choi|Ph.D candidate (Single-cell Biology) (2020.9 - )]]

|align="center"|[[People:Junyeong_Ma|Ph.D candidate (Microbiome) (2021.3 - )]]
|align="center"|[[People:Hanjune_Kim|Ph.D candidate (Microbiome) (2021.3 - )]]
|align="center"|[[People:Euijeong_Sung|Ph.D candidate (Single-cell Biology) (2021.9 - )]]
|align="center"|[[People:Sehun_Ahn|Ph.D candidate (Microbiome) (2022.3 - )]]

|}
{|border="0" width="1080"
|align="center"|[[File:Jungyeon_fixed.png|100px|link=People:Jungyeon_Kim]]
|align="center"|[[File:Yerin_fixed.png|100px|link=People:Yerin_Kim]]
|align="center"|[[File:Yurim_fixed_(2).jpg|100px|link=People:Yurim_Jung]]
|align="center"|[[File:HaeBeen_fixed.jpg|100px|link=People:Hae_Been_lee]]
|align="center"|[[File:Sebin_fixed.jpg|100px|link=People:Sebin_Lim]]
|align="center"|[[File:Yunyeong_fixed.jpg|100px|link=People:Yunyeong_Jang]]
|align="center"|[[File:File:Jonghyun fixed.png|100px|link=People:Jonghyun_Hwang]]
|-
|width=160px; align="center"|[[People:Jungyeon_Kim|<big>'''Jungyeon Kim'''</big>]]
|width=160px; align="center"|[[People:Yerin_Kim|<big>'''Yerin Kim'''</big>]]
|width=160px; align="center"|[[People:Yurim_Jung|<big>'''Yurim Jung'''</big>]]
|width=160px; align="center"|[[People:Hae_Been_lee|<big>'''Hae Been Lee'''</big>]]
|width=160px; align="center"|[[People:Sebin_Lim|<big>'''Sebin Lim'''</big>]]
|width=160px; align="center"|[[People:Yunyeong_Jang|<big>'''Yunyeong Jang'''</big>]]
|width=160px; align="center"|[[People:Jonghyun_Hwang|<big>'''Jonghyun Hwang'''</big>]]

|-
|align="center"|[[People:Jungyeon_Kim|Ph.D candidate (Microbiome) (2023.3 - )]]
|align="center"|[[People:Yerin_Kim|Integrated Ph.D course (Microbiome) (2024.3 - )]]
|align="center"|[[People:Yurim_Jung|Integrated Ph.D course (Single-cell Biology) (2024.9 - )]]
|align="center"|[[People:Hae_Been_lee|Integrated Ph.D course (Microbiome) (2024.9 - )]]
|align="center"|[[People:Sebin_Lim|Integrated Ph.D course (Microbiome) (2025.3 - )]]
|align="center"|[[People:Yunyeong_Jang|Master course (Microbiome) (2026.3 - )]]
|align="center"|[[People:Jonghyun_Hwang|Master course (Microbiome) (2026.3 - )]]
|}

=='''Administrative Assistant'''==

=='''Undergraduate Students'''==
*Zunu An
*Seung Wan Jeon
*Sung Min Kim
*Zixuan Guo
*Hyeonjin Kim
*Eunjeong Kim

=='''Alumni'''==
*'''Former Post-docs and Staff Scientists'''
**1. Taeyun Oh (2009.5-2011.12), currently Senior Researcher at Cowellbiogim, Korea
**2. Sohyun Hwang (2010.3-2015.8), currently Professor at [https://grad.cha.ac.kr/%ed%99%a9%ec%86%8c%ed%98%84/ Department of Biomedical Science, CHA University], Korea [https://scholar.google.com/citations?user=z5yC9cwAAAAJ&hl=en Google Scholar] (차의과대학 의과학과 교수)
**3. Samuel Beck (2011.2-2011.12), currently Associate Professor at Boston University, USA, [https://beck310.wixsite.com/becklab Lab Homepage] (미 보스턴 대학교 부교수)
**4. Jawon Song (2011.1-2012.5), currently Research Associate at [https://www.tacc.utexas.edu/about/directory/jawon-song Texas Advanced Computing Center], Austin, TX, USA [https://scholar.google.com/citations?user=wv61wGoAAAAJ&hl=en Google Scholar] (미국 텍사스슈퍼컴퓨팅센터 선임연구원)
**5. Yoonhee Ko (2012.8-2014.2), currently Associate Professor at [https://hufsbiomed.weebly.com/ Department of Biomedical Engineering, Hankuk University of Foreign Studies], Korea [https://scholar.google.com/citations?user=GBxCYX8AAAAJ&hl=en Google Scholar] (한국외국어대 바이오공학과 교수)
**6. Jonghoon Lee (2013.10-2014.2), currently Professor at [https://www.gachon.ac.kr/foodbiotech/6142/subview.do Department of Food Biotechnology, Gachon University], Korea (가천대학교 식품생명공학과 교수)
**7. Jung Eun Shim (2009.8-2017.11), currently Staff Scientist at Yonsei Genomics Center Bioinformatics Data Analysis Core (연세의료원 유전체센터 생명정보분석코어 책임연구원)

*'''Former Graduate Students (Ph.D)'''
**1. Junha Shin (2008.9-2014.2), PhD; currently Scientist at [https://wid.wisc.edu/people/junha-shin/ Wisconsin Institute for Discovery], USA (미국 위스콘신 대학연구소 연구원)
**2. Hanhae Kim (2009.9-2015.2), PhD; currently Research Fellow at [http://www.kistep.re.kr Korea Institute of S&T Evaluation and Planning (KISTEP)] (한국과학기술기획평가원 연구위원)
**3. Ara Cho (2009.9-2015.2), PhD; currently Research Fellow at [http://www.kistep.re.kr Korea Institute of S&T Evaluation and Planning (KISTEP)] (한국과학기술기획평가원 연구위원)
**4. Eiru Kim (2010.9-2016.8), PhD; currently Senior Expert in Data Science, [https://www.gnf.org/ The Genomics Institute of the Novartis Research Foundation], San Diego, USA (노바티스 선임데이터분석연구원)
**5. Tak Lee (2011.3-2017.2), PhD; currently Senior Bioinformatician, [https://www.mpipz.mpg.de/en Max Planck Institute for Plant Breeding Research] (독일 막스플랭크 연구소 선임생명정보학자)
**6. Heonjong Han (2013.3~2019.8), PhD; currently Bioinformatics engineer at [https://3billion.io/ 3billion] (바이오기업 데이터사이언티스트)
**7. Kyungsoo Kim (2013.3~2020.2), PhD; currently Research Professor at Severance Hospital (강남세브란스의료원 유방암센터 연구교수)
**8. Jae-Won Cho (2016.9~2021.2), PhD; currently Assistant Professor at [https://ibb.hanyang.ac.kr/ Hanyang Institute of Bioscience and Biotechnology] (한양대학교 한양생명과학기술원 조교수)
**9. Chan Yeong Kim (2015.3~2021.2), PhD; currently Postdoc Fellow at European Molecular Biology Laboratory in Heidelberg [http://www.bork.embl.de/j/ Bork Group] (유럽연합분자생물학연구소 박사후 연구원)
**10. Sungho Lee (2017.3-2024.2), PhD; currently Data Scientist at [http://www.mogam.re.kr/kor/ MOGAM Institute for Biomedical Research] (목암생명과학연구소, (주)녹십자 출연 연구소, 선임연구원)
**11. Junha Cha (2019.9-2025.2), PhD; currently Postdoc Fellow at Stanford University, [https://dna-discovery.stanford.edu/ Prof. Hanlee P. Ji Lab](미국 스탠퍼드대학교 박사후연구원)
**12. Seungbyn Baek (2019.9-2025.2), PhD; currently Postdoc Fellow at Stanford University, [https://kundajelab.github.io/ Prof. Anshul Kundaje Lab](미국 스탠퍼드대학교 박사후연구원)
**13. Nayeon Kim (2019.9-2025.2), PhD; currently Postdoc Fellow at KAIST InnoCORE Research Group (과학기술원 InnoCORE 초거대언어모델 혁신 연구단, 박사후연구원)
**14. Jun Hyung Cha (2020.9-2026.2), PhD;

*'''Former Graduate Students (Master's degree)'''
**1. Sun-Gou Ji (2009.9-2011.8), M.Eng.; PhD from University of Cambridge (Sanger Genome center); currently Vice President, Computational Genetics at [https://bridgebio.com/ BridgeBio Pharma], Boston, USA (미 바이오기업 부대표)
**2. Hyojin Kim (2013.3-2015.2), M.Eng.; PhD from University of Aachen; currently Scientist at Bayer, Germany [https://www.linkedin.com/in/hyojin-kim-b3bb711ab Linkedin] (독일 바이엘 제약회사 선임 연구원)
**3. Hongseok Shim (2013.9-2015.8), M.Eng.; currently PhD student, Arizona State University, Biomedical Informatics program (애리조나주립대 생물정보학 박사과정)
**4. Sunmo Yang (2014.9-2017.2), M.Eng. currently Bioinformatics programmer, Yonsei University (연세대 네트워크생명공학 연구실 책임데이터연구원)
**5. Muyoung Lee (2016.3-2018.2), M.Eng. currently PhD student, University of Texas at Austin, Cellular and Molecular Biology Program (텍사스주립대 생물정보학 박사과정)
**6. Jiwon Yu (2021.9-2023.8), M.Eng. currently Data Scientist at [https://www.samsungbioepis.com/kr/index.do SAMSUNG BIOEPIS] (삼성바이오에피스 데이터사이언티스트)
**7. Geon_Koh (2022.9-2025.2), M.Eng. currently Researcher at Gachon University, College of Medicine (가천의대 시스템생물학 연구실 연구원)
**8. Wonjong Kim (2023.3-2025.8), M.Eng. currently Researcher at [https://samsungbiologics.com/ SAMSUNG Biologics] (삼성바이오로직스 연구원)

*'''Former Visiting Scientists/Students'''
**1. Minkyung Shin (2012.3-2012.7), went to University of Southern California graduate school
**2. Paul Chung (2012 summer), currently work at [https://about.meta.com/ Meta], USA
**3. Hyunjin Cho (2014 summer), currently Bioinformatics research assistant at [http://www.libd.org/ The Lieber Institute for Brain Development | LIBD], USA
**4. Michael Chung (2016.8-2016.12), currently work at [https://about.meta.com/ Meta], USA

*'''Former Undergraduate Students'''
**1. Ila Shin, went to medical school (Yonsei Univ.) Currently Professor, Kyunghee University School of Medicine (경희대학교 의과대학 교수)
**2. Yoonkyung Ko
**3. Sangyo Park, went to law school (Kyounghee Univ.)
**4. Jayoon Shin, went to medical school (Pusan National Univ.)
**5. Dongjoo Sun, went to dental school (Wongwang Univ.)
**6. Eulsoo Kim
**7. Myungwhan Lee, went to medical school (Yonsei Univ.)
**8. Moonhee Lee, went to graduate school (University of Amsterdam, Netherlands)
**9. Jinhyun Ju, went to graduate school (Cornell Medical School, Computational Systems Biology); Currently Principal Computational Biologist, Cancer Genomics at [https://bridgebio.com/ BridgeBio Pharma], Seattle, USA (미 바이오기업 선임연구원)
**10. Haeyoung Shin, went to graduate school (Brown University, Computational Neuroscience); Currently Professor, Seoul National University (서울대학교 생명과학부 교수)
**11. Joonghee Soh, went to graduate school (KAIST, Culture Technology)
**12. Hee Jung Cho, went to graduate school (UC Berkeley)
**13. TaeHwan Kim, went to medical school
**14. Joohyung Kim, went to medical school (Kyungpook National Univ.)
**15. Donghyun Shin, went to medical school (Yonsei Univ.)
**16. Byunghee Kang (2015 spring - 2016 summer), went to graduate school (PosTech)
**17. Sunphil Kim (2016 winter)
**18. Jaeho Shim (2016 winter)
**19. Seunghyun Shin (2016 spring)
**20. Aejoo Hong (2016 spring)
**21. Changbae Bang (2016 summer), went to medical school (Yonsei Univ.)
**22. Seoyoung Choi (2016 summer)
**23. Dabin Jung (2016 summer)
**24. Boreum Nam (2016 summer)
**25. Seungun Lee (2016 summer)
**26. Yeaji Kim (2016 summer and fall)
**27. Sangyoung Lee (2017 winter)
**28. Heejun Jang (2017 winter & spring), went to KIST as Research Assistant
**29. Jungha Lee (2017 summer), went to graduate school (Seoul National Univ.)
**30. Seunghyun Wang (2017 summer), went to graduate school (KAIST)
**31. Dong-Min Yang (2017 fall)
**32. Doo-Hee Lee (2017 fall)
**33. Suk-Jae Han (2018 winter)
**34. Ji-Eun Han (2018 winter)
**35. Yuri Ko (2018 spring)
**36. Sung-Woo Kim (2018 spring)
**37. Woosung Kwon (2018 summer)
**38. Soyun Kong (2018 summer)
**39. Hojeong Keum (2018 summer and fall)
**40. Sungjun Lim (2018 summer and fall)
**41. Jiyoon Lee (2018 summer and fall)
**42. Ilseok Choi(2019 winter, spring, summer and fall, 2020 winter, spring)
**43. Junik Park (2019 winter)
**44. Lee Yoo (2019 winter & spring)
**45. Yeonwha Kim (2019 winter & spring)
**46. Sohee Kim (2019 spring)
**47. Juseong Lee (2019 spring)
**48. Junyoung Yang (2019 spring & summer)
**49. Junyeong Ma (2019 summer, 2020 winter, summer, fall, 2021 winter)
**50. Dayeon Jung (2019 summer)
**51. Hanjoon Kim (2019 summer, 2021 winter)
**52. Hyungjin Kim (2020 winter, spring)
**53. Sujin Hyun (2020 winter)
**54. Hyuki Lee (2020 winter)
**55. Donghwan Lee (2020 winter)
**56. Jun Hyung Cha (2020 spring, summer)
**57. Jiwon Yu (2020 summer, 2021 Spring, summer)
**58. Dong Seok Kim (2020 summer)
**59. Donggeun Lee (2020 summer)
**60. Sehun Ahn (2020 summer, 2021 winter, spring, summer, 2022 winter)
**61. Jiho Kim (2020 summer)
**62. Euijung Seong (2020 fall, 2021 spring, summer)
**63. Junhan Kim (2021 winter & spring)
**64. Suyong Choi (2021 winter)
**65. Sujin Pyeon (2021 Spring)
**66. Hyeon Hee Ji (2021 Spring)
**67. Semin Kim (2021 Summer)
**68. Su Hwan Kim (2021 Summer)
**69. Yongbin Kim (2021 Summer)
**70. Nan Park (2021 Summer)
**71. Hoyong Jung (2021 Summer)
**72. Ingyeong Koh (2021 Summer)
**73. Jongbin Jeong (2022 Winter)
**74. Sungchul Yang (2022 Winter, Spring, Summer)
**75. Hyojung Lee (2022 Winter, Spring)
**76. Jun Hyeong Kim (2022 Winter, Spring)
**77. Young Ji Roh (2022 Spring, Summer)
**78. Geon Koh (2022 Spring, Summer)
**79. Hayoung Kang (2022 Summer, 2023 Spring)
**80. Won Jong Kim (2022 Summer, Fall, 2023 Winter)
**81. Christian Lee (2022 Summer)
**82. Je Yun Kang (2022 Summer)
**83. Sumin Lee (2022 Fall)
**84. Jungyeon Kim (2022 Fall, 2023 Winter)
**85. Seol Song (2023 Winter)
**86. Soyeon Kim (2023 Summer)
**87. Sieun Park (2023 Summer)
**88. Gunhyeong Lee (2023 Summer)
**89. Yunseo Han (2023 Summer)
**90. Jae Hyun Kim (2023 Summer)
**91. Jeong-min Seo (2023 Summer)
**92. Yerin Kim (2023 Fall, 2024 Winter)
**93. Sang Min Park (2024 Winter)
**94. Minsun Seo (2024 Winter)
**95. Jaeryun Sim (2024 Winter)
**96. Sun Min Lim (2024 Winter)
**97. Yurim Jung (2024 Spring, Summer)
**98. Hae Been Lee (2024 Spring, Summer)
**99. Zunu An (2024 Summer, Fall, 2025 Winter, Spring, Summer, Fall, 2026 Winter)
**100. Se Bin Lim (2024 Summer, Fall, 2025 Winter)
**101. Sang Min Yoon (2024 Summer)
**102. Yena Kim (2024 Summer)
**103. Kang Eon Lee (2024 Fall)
**104. Soyoon Park (2025 Winter)
**105. Sojung Lee (2025 Winter)
**106. Leanne Ma (2025 Winter)
**107. Seung Wan Jeon (2025 Summer, Fall, 2026 Winter)
**108. Joongun Lee (2025 Summer)
**109. Minseo Kim (2025 Summer)
**110. Hong Kyu Park (2025 Summer)
**111. Yunyeong Jang (2025 Fall, 2026 Winter)
**112. Jong Hyun Hwang (2025 Fall, 2026 Winter)
**113. Gyuweon Park (2025 Fall)
**114. Sung Min Kim (2026 Winter)
**115. Zixuan Guo (2026 Winter)
**116. Hyeonjin Kim (2026 Winter)
**117. Eunjeong Kim (2026 Winter)

2026-04-02T05:39:10Z

Administrator: /* Junyeong Ma */

===Junyeong Ma===
{|
|[[File:Junyeong Ma.jpg|400px]]
|
*'''Master's program student''' (2021~), Department of Biotechnology, Yonsei University
*'''B.S.''' (2017-2021), Department of Biotechnology, Yonsei University
*'''B.S.''' (2019-2021), Department of Computer Science, Yonsei University
E-mail: majunyeong1064@yonsei.ac.kr

* '''Current research topic(s)'''
** Human microbiome

* '''Favorite'''
** Music: Sing, Dance, Guitar
** Game: Escape room, Board game

|}

==Publications==
*Chan Yeong Kim*, '''Junyeong Ma*''', and Insuk Lee** HiFi Metagenomic Sequencing Enables Assembly of Accurate and Complete Genomes from Human Gut Microbiota '''''Nature Communications''''' 2022 Oct 26;13(1):6367
*Nayeon Kim*, '''Junyeong Ma''', Wonjong Kim, Jungyeon Kim, Peter Belenky** and Insuk Lee**, Genome-Resolved Metagenomics: A Game Changer for Microbiome Medicine, '''Experimental & Molecular Medicine'''
*Nayeon Kim*, Chan Yeong Kim, '''Junyeong Ma''', Summo Yang, Dongjin Park, Sang-Jun Ha, and Peter Belenky**, Insuk Lee**, MRGM: An enhanced catalog of mouse gut microbial genomes substantially broadening taxonomic and functional landscapes '''Gut Microbes'''
*Jun Hyung Cha*, Nayeon Kim, '''Junyeong Ma''', Sungho Lee, Geon Koh, Sunmo Yang, Samuel Beck, Iksu Byeon, Byunguk Lee, Insuk Lee**, A high-quality genomic catalog of the human oral microbiome broadens its phylogeny and clinical insights, '''Cell Host & Microbes''' 2025 Nov 12:S1931-3128
*'''Junyeong Ma*''', Nayeon Kim*, Jun Hyung Cha, Wonjong Kim, Chan Yeong Kim, Yong-ho Lee, Han Sang Kim, Yoon Dae Han, Dongeun Yong, Eugene Han, Sunmo Yang, Samuel Beck, Insuk Lee**, A human gut metagenome-assembled genome catalogue spanning 41 countries supports genome-scale metabolic models '''Nature Microbiology''' 2026 Jan 6; 11(1):317-334

People:Junyeong Ma

2026-04-02T05:38:31Z

Administrator: /* Junyeong Ma */

===Junyeong Ma===
{|
|[[File:File:Junyeong Ma.jpg|400px]]
|
*'''Master's program student''' (2021~), Department of Biotechnology, Yonsei University
*'''B.S.''' (2017-2021), Department of Biotechnology, Yonsei University
*'''B.S.''' (2019-2021), Department of Computer Science, Yonsei University
E-mail: majunyeong1064@yonsei.ac.kr

* '''Current research topic(s)'''
** Human microbiome

* '''Favorite'''
** Music: Sing, Dance, Guitar
** Game: Escape room, Board game

|}

==Publications==
*Chan Yeong Kim*, '''Junyeong Ma*''', and Insuk Lee** HiFi Metagenomic Sequencing Enables Assembly of Accurate and Complete Genomes from Human Gut Microbiota '''''Nature Communications''''' 2022 Oct 26;13(1):6367
*Nayeon Kim*, '''Junyeong Ma''', Wonjong Kim, Jungyeon Kim, Peter Belenky** and Insuk Lee**, Genome-Resolved Metagenomics: A Game Changer for Microbiome Medicine, '''Experimental & Molecular Medicine'''
*Nayeon Kim*, Chan Yeong Kim, '''Junyeong Ma''', Summo Yang, Dongjin Park, Sang-Jun Ha, and Peter Belenky**, Insuk Lee**, MRGM: An enhanced catalog of mouse gut microbial genomes substantially broadening taxonomic and functional landscapes '''Gut Microbes'''
*Jun Hyung Cha*, Nayeon Kim, '''Junyeong Ma''', Sungho Lee, Geon Koh, Sunmo Yang, Samuel Beck, Iksu Byeon, Byunguk Lee, Insuk Lee**, A high-quality genomic catalog of the human oral microbiome broadens its phylogeny and clinical insights, '''Cell Host & Microbes''' 2025 Nov 12:S1931-3128
*'''Junyeong Ma*''', Nayeon Kim*, Jun Hyung Cha, Wonjong Kim, Chan Yeong Kim, Yong-ho Lee, Han Sang Kim, Yoon Dae Han, Dongeun Yong, Eugene Han, Sunmo Yang, Samuel Beck, Insuk Lee**, A human gut metagenome-assembled genome catalogue spanning 41 countries supports genome-scale metabolic models '''Nature Microbiology''' 2026 Jan 6; 11(1):317-334

File:Junyeong Ma.jpg

2026-04-02T05:38:08Z

Administrator:

People:IS Choi

2026-04-02T05:37:04Z

Administrator: /* Ilseok Choi */

===Ilseok Choi===
{|
|[[File:Ilseok_Choi.jpg|300px]]
|
*'''Ph.D's program student''' (2020~), Department of Biotechnology, Yonsei University
*'''B.S.''' (2016-2020), Department of Biotechnology, Yonsei University
E-mail: choiismath@yonsei.ac.kr

* '''Current research topic(s)'''
** Single Cell Genomics
** Analysis of clinical cancer
** scRNA-seq data

* '''Favorite'''
** Draft Beer
|}

File:Ilseok Choi.jpg

2026-04-02T05:36:37Z

Administrator:

2020-11-13T06:20:26Z

Administrator:

Publications

2020-09-18T13:13:43Z

Administrator:

*[http://scholar.google.com/citations?user=3uHQIOkAAAAJ Google Scholar citation report]
*[https://www.ibric.org/hanbitsa/treatise_index_for_author.php?Page=1&idauthorid=760 BRIC 한빛사논문]
*[https://yonsei.pure.elsevier.com/en/persons/in-suk-lee Yonsei University Researcher Portal]
* '*' First authors; '**' Corresponding authors;
==2021==

==2020 (10)==
*92. '''Tak Lee*''', '''Insuk Lee**''' Genome-wide Association Studies in Arabidopsis thaliana: Statistical Analysis and Network-Based Augmentation of Signals '''''Arabidopsis Protocols 4th Ed.''''' [https://netbiolab.org/wiki/glucose_germrate.txt Supplementary File 1] [https://netbiolab.org/wiki/glucose_sig_accessions.txt Supplementary File 2] In press
 
*91. '''Junha Cha*''', '''Insuk Lee**''' Single-cell Network Biology for Resolving Cellular Heterogeneity in Human Diseases '''''Experimental & Molecular Medicine''''' accepted
 
*90. Jimin Son*, '''Jae-Won Cho*''', Hyo Jin Park, Jihyun Moon, Seyeon Park, Hoyoung Lee, Jeewon Lee, Ga min Kim, Su-Myeong Park, Sergio A. Lira, Andrew N. Mckenzie, Hye Young Kim, Cheol Yong Choi, Yong Taik Lim, Seong Yong Park, Hye Ryun Kim, Su-Hyung Park, Eui-Cheol Shin, '''Insuk Lee'''** & Sang-Jun Ha**, Tumor-Infiltrating Regulatory T Cell Accumulation in the Tumor Microenvironment is Mediated by IL33/ST2 Signaling '''''Cancer Immunology Research''''' [https://pubmed.ncbi.nlm.nih.gov/32878747 pubmed]
 
*89. '''Jae-Won Cho*''', Min Hee Hong, Sang-Jun Ha, Young-Joon Kim, Byoung Chul Cho, '''Insuk Lee**''', and Hye Ryun Kim** Genome-wide identification of differentially methylated promoters and enhancers associated with response to anti-PD-1 therapy in non-small cell lung cancer [https://netbiolab.org/wiki/Supplementary_Table_S1-6.zip Supplementary File] '''''Experimental & Molecular Medicine''''' [https://pubmed.ncbi.nlm.nih.gov/32879421 pubmed]
 
*88. '''Seungbyn Baek*''', '''Insuk Lee**''' Single-cell ATAC sequencing analysis: from data preprocessing to hypothesis generation '''''Computational and Structural Biotechnology Journal''''' 2020 June 28;18:1429-1439 [https://pubmed.ncbi.nlm.nih.gov/32637041 pubmed]
 
*87. '''Eiru Kim*, Dasom Bae*, Sunmo Yang*''', Gunhwan Ko, Sungho Lee, Byungwook Lee**, '''Insuk Lee**'''. BiomeNet: A database for construction and analysis of functional interaction networks for any species with a sequenced genome '''''Bioinformatics''''' 2020 Mar 1:36(5):1584-1589 [https://www.ncbi.nlm.nih.gov/pubmed/31599923 pubmed]
 
*86. '''Kyungsoo Kim*''', Seyeon Park*, Seong Yong Park, Gamin Kim, Su Myeong Park, Jae-Won Cho, Da Hee Kim, Young Min Park, Yoon Woo Koh, Hye Ryun Kim, Sang-Jun Ha** and '''Insuk Lee**''', Single-cell transcriptome analysis reveals TOX as a promoting factor for T cell exhaustion and a predictor for anti-PD-1 responses in human cancer '''''Genome Medicine''''' 2020 Feb 28;12:22 [https://pubmed.ncbi.nlm.nih.gov/32111241 pubmed]
 
*85. '''Sungho Lee*, Tak Lee*''', Sunmo Yang and '''Insuk Lee**''', BarleyNet: a network-based functional omics analysis server for cultivated barley, Hordeum vulgare L. '''''Frontiers in Plant Science''''' 2020 Feb 18;11:98 [https://pubmed.ncbi.nlm.nih.gov/32133024/ pubmed]
 
*84. '''Kyungsoo Kim*''', Sunmo Yang, Sang-Jun Ha, '''Insuk Lee**''', VirtualCytometry: a webserver for evaluating immune cell differentiation using single-cell RNA sequencing data '''''Bioinformatics''''' 2020 Jan 15;36(2):546-551 [https://www.ncbi.nlm.nih.gov/pubmed/31373613 pubmed]
 
*83. '''Jung Eun Shim*, Insuk Lee**''', Construction of functional protein networks using domain profile associations, '''''Methods in Molecular Biology''''' 2020 Jan;2074:35-44 [https://www.ncbi.nlm.nih.gov/pubmed/31583628 pubmed]
 

==2019 (6)==
*82. '''Han H*''', Lee S, '''Lee I**''', NGSEA: network-based gene set enrichment analysis for interpreting gene expression phenotypes with functional gene sets '''''Mol Cells''''' 2019 Aug 31;42(8):579-588. [https://www.ncbi.nlm.nih.gov/pubmed/31307154 pubmed]
 
*81. '''Lee T*, Lee S*''', Yang S, '''Lee I**'''. MaizeNet: A co-functional network for network-assisted systems genetics in Zea mays '''''The Plant Journal''''' 2019 Aug 99(3):571-582 [https://www.ncbi.nlm.nih.gov/pubmed/31006149 pubmed]
 
*80. '''Lee M*''', Pinto NA*, Kim CY, Yang S, D'Souza R, Yong D**, Lee I**. Network integrative genomic and transcriptomic analysis of carbapenem-resistant Klebsiella pneumoniae strains identifies genes for antibiotic-resistance and virulence '''''mSystems''''' 2019 Aug;4(4):e00202-19. [https://www.ncbi.nlm.nih.gov/pubmed/31117026 pubmed]
 
*79. '''Shim JE*''', Kim JH, Shin J, Lee JE, '''Lee I**''' Pathway-specific protein domains are predictive for human diseases '''''PLOS Computational Biology''''' 2019 May 10;15(5):e1007052 [https://www.ncbi.nlm.nih.gov/pubmed/31075101 pubmed]
 
*78. '''Kim H*''', Joe A*, Lee M, Yang S, Ma X, Ronald PC**, '''Lee I**'''. A Genome-Scale Co-Functional Network of Xanthomonas Genes Can Accurately Reconstruct Regulatory Circuits Controlled by Two-Component Signaling Systems '''''Mol Cells''''' 2019 Feb 28;42(2):166-174 [https://www.ncbi.nlm.nih.gov/pubmed/30759970 pubmed]
 
*77. '''Hwang S*, Kim CY*''', Yang S, Kim E, Hart T, Marcotte EM, '''Lee I**'''. HumanNet v2: human gene networks for disease research '''''Nucleic Acids Research''''' 2019 Jan 8;47(D1):D573–D580.[https://www.ncbi.nlm.nih.gov/pubmed/30418591 pubmed]
 

==2018 (5)==
*76. '''Han H*''', Lehner B, '''Lee I**''', Cancer gene discovery by network analysis of somatic mutations using the MUFFINN server, '''''Methods in Molecular Biology''''' 2018 Dec 13; 1907:37-50.[https://www.ncbi.nlm.nih.gov/pubmed/30542989 pubmed]
 
*75. '''Kim CY*''', Lee M, Lee K, Yoon SS, '''Lee I**''', Network-based genetic investigation of virulence-associated phenotypes in methicillin-resistant Staphylococcus aureus, '''''Scientific Reports''''' 2018 July 17; 8:10796. [https://www.ncbi.nlm.nih.gov/pubmed/30018396 pubmed]
 
*74. Lim KT, Kim J, Hwang SI, Zhang L, Han H, Bae D, Kim KP, Hu YP, Schöler HR, '''Lee I''', Hui L, Han DW, Direct Conversion of Mouse Fibroblasts into Cholangiocyte Progenitor Cells. '''''Stem Cell Reports''''' 2018 Mar 27. 10:1-15.[https://www.ncbi.nlm.nih.gov/pubmed/29606616 pubmed]
 
*73. '''Lee T*, Lee I**''', araGWAB: A web application for network-based boosting of genome-wide association signals in Arabidopsis '''''Scientific Reports''''' 2018 Feb 13;8(1):2925.[https://www.ncbi.nlm.nih.gov/pubmed/29440686 pubmed]
 
*72. '''Han H*''', Cho JW, Lee S, Yun A, Kim H, Bae D, Yang S, Kim CY, Lee M, Kim E, Lee S, Kang B, Jeong D, Kim Y, Jeon HN, Jung H, Nam S, Chung M, Kim JH, '''Lee I**''', TRRUST v2: An expanded reference database of human and mouse transcriptional regulatory interactions '''''Nucleic Acids Research''''' 2018 Jan 4;46(D1):D380–D386.[https://www.ncbi.nlm.nih.gov/pubmed/29087512 pubmed]
 

==2017 (10)==
*71. '''Kim CY*, Lee I**''', Functional gene networks based on the gene neighborhood in metagenomes, '''''Animal Cells and Systems''''' 2017 Sept 29; 21:301-306;
 
*70. '''Lee T*, Hwang S*''', Kim CY, Shim H, Kim H, Ronald P**, Marcotte E**, '''Lee I**''', WheatNet: A genome-scale functional network for hexaploid bread wheat, Triticum aestivum, '''''Molecular Plant.''''' 2017 Aug 7;10(8):1133-1136; [https://www.ncbi.nlm.nih.gov/pubmed/28450181 pubmed]
 
*69. '''Lee T*, Lee I**''', AraNet: A Network Biology Server for Arabidopsis thaliana and Other Non-Model Plant Species, '''''Methods in Molecular Biology''''' 2017 June 17; 1629:225-238; [https://www.ncbi.nlm.nih.gov/pubmed/28623589 pubmed]
 
*68. '''Shim JE*''', Bang C, Yang S, Lee T, Hwang S, Kim CY, Singh-Blom M, Marcotte E, '''Lee I**''', GWAB: a web server for the network-based boosting of human genome-wide association data, '''''Nucleic Acids Research''''' 2017 July 3; 45 (W1):W154-W161; [https://www.ncbi.nlm.nih.gov/pubmed/28449091 pubmed]
 
*67. '''Kim E*, Lee I**''', Network-Based Gene Function Prediction in Mouse and Other Model Vertebrates Using MouseNet Server, '''''Methods in Molecular Biology''''' 2017 April 28; 1611:183-198; [https://www.ncbi.nlm.nih.gov/pubmed/28451980 pubmed] [http://f1000.com/prime/727562216?bd=1 {{#widget:AddHtml|content=<img src="http://cdn.f1000.com.s3.amazonaws.com/images/badges/badgef1000.gif" alt="Access the recommendation on F1000Prime" id="bg" width=70 />}}]
 
*66. '''Shim JE*, Lee T*, Lee I**''', From sequencing data to gene functions: co-functional network approaches, '''''Animal Cells and Systems''''' 2017 April 15; 20:77-83; [https://www.ncbi.nlm.nih.gov/pubmed/30460054 pubmed]
 
*65. '''Kim H*''', Kim BS*, Shim JE, Hwang S, Yang S, Kim E, Iyer-Pascuzzi AS**, '''Lee I**''', TomatoNet: A genome-wide co-functional network for unveiling complex traits of tomato, a model crop for fleshy fruits, '''''Molecular Plant.''''' 2017 April 3; 10:652–655; [https://www.ncbi.nlm.nih.gov/pubmed/27913317 pubmed]
 
*64. Jang K*, Kim K, Cho A, '''Lee I''', Choi JK**, Network perturbation by recurrent regulatory variants in cancer, '''''PLoS Compt. Biol.''''' 2017 Mar 23;13(3):e1005449; [https://www.ncbi.nlm.nih.gov/pubmed/28333928 pubmed]
 
*63. Yang S*, Kim CY, Hwang S, Kim E, Kim H, Shim H, '''Lee I**''', COEXPEDIA: exploring biomedical hypotheses via co-expressions associated with medical subject headings (MeSH), '''''Nucleic Acids Research''''' 2017 Jan 4; 45(D1):D389-D396 [https://www.ncbi.nlm.nih.gov/pubmed/27679477 pubmed]
 
*62. Kim E*, Hwang S, '''Lee I**''', SoyNet: a database of co-functional networks for soybean Glycine max, '''''Nucleic Acids Research''''' 2017 Jan 4; 45(D1):D1082-D1089. [http://www.ncbi.nlm.nih.gov/pubmed/27492285 pubmed]
 

==2016 (10)==
*61. '''Shin J**, Lee I**''', Construction of Functional Gene Networks Using Phylogenetic Profiles. '''''Methods in Molecular Biology''''' 2016 Nov 29; 1526:87-98 [http://www.ncbi.nlm.nih.gov/pubmed/27896737 pubmed]
 
*60. '''Shim H*''', Kim JH*, Kim CY*, Hwang S, Kim H, Yang S, Lee JE**, '''Lee I**''', Function-driven discovery of disease genes in zebraﬁsh using an integrated genomics big data resource,'''''Nucleic Acids Research''''' 2016 Nov 16;44(20):9611-9623 [http://www.ncbi.nlm.nih.gov/pubmed/27903883 pubmed]
 
*59. '''Shim JE*, Lee I**''' Weighted mutual information analysis substantially improves domain-based functional network models. '''''Bioinformatics''''' 2016 Sep 15;32(18):2824-30 [http://www.ncbi.nlm.nih.gov/pubmed/27207946 pubmed]
 
*58. Lee JY*, '''Kim E*''', Choi SM, Kim DW, Kim KP, '''Lee I**''', Kim HS** Microvesicles from brain-extract—treated mesenchymal stem cells improve neurological functions in a rat model of ischemic stroke. '''''Scientific Reports''''' 2016 Sep 9; 6:33038 [http://www.ncbi.nlm.nih.gov/pubmed/27609711 pubmed]
 
*57. Kim SM*, Kim JW, Kwak TH, Park SW, Kim KP, Park H, Lim KT, Kang K, Kim J, Yang JH, Han H, '''Lee I''', Hyun JK, Bae YM, Schöler HR, Lee HT, Han DW** Generation of Integration-free Induced Neural Stem Cells from Mouse Fibroblasts. '''''J Biol Chem'''''. 2016 Jul 1. 291(27):14199-212. [http://www.ncbi.nlm.nih.gov/pubmed/27189941 pubmed]
 
*56. '''Cho A*''', Shim JE, Kim E, Supek F, Lehner B**, '''Lee I**'''. MUFFINN: cancer gene discovery via network analysis of somatic mutation data. '''''Genome Biology''''' 2016 June 23;17(1):129 [http://www.ncbi.nlm.nih.gov/pubmed/27333808 pubmed]
 
*55. '''Hwang S*, Kim CY*''', Ji SG, Go J, Kim H, Yang S, Kim HJ, Cho A, Yoon SS**, '''Lee I**'''. Network-assisted investigation of virulence and antibiotic-resistance systems in Pseudomonas aeruginosa.'''''Scientific Reports''''' 2016 May 19; 6:26223. [http://www.ncbi.nlm.nih.gov/pubmed/27194047 pubmed]
 
*54. Yoon MY*, Min KB, Lee KM, Yoon Y, Kim Y, Oh YT, Lee K, Chun J, Kim BY, Yoon SH, '''Lee I''', Kim CY, Yoon SS**,. A single gene of a commensal microbe affects host susceptibility to enteric infection.'''''Nature Communications''''' 2016 May 13; 7:11606. [http://www.ncbi.nlm.nih.gov/pubmed/27173141 pubmed]
 
*53. Jo J*, Hwang S*, Kim HJ*, Hong S, Lee JE, Lee SG, Baek A, Han H, Lee JI, '''Lee I**''', Lee DR**. An integrated systems biology approach identifies positive cofactor 4 as a factor that increases reprogramming efficiency.'''''Nucleic Acids Research''''' 2016 Feb 18; 44(3):1203-15.[http://www.ncbi.nlm.nih.gov/pubmed/26740582 pubmed]
 
*52. Kim E*, Hwang S, Kim H, Shim H, Kang B, Yang S, Shim JH, Shin SY, Marcotte EM, '''Lee I**'''. MouseNet v2: A database of gene networks for studying the laboratory mouse and eight other model vertebrates,'''''Nucleic Acids Research''''' 2016 Jan 4;44(D1):D848-54.[http://www.ncbi.nlm.nih.gov/pubmed/26527726 pubmed]
 

==2015 (14)==
*51. '''Hwang S*, Kim E*, Lee I**''', Marcotte EM**, Systematic comparison of variant calling pipelines using gold standard personal exome variants, '''''Scientific Reports''''' 2015 Dec 5:17875 [http://www.ncbi.nlm.nih.gov/pubmed/?term=26639839 pubmed]
 
*50. '''Shin J*, Lee I**''', Co-Inheritance Analysis within the Domains of Life Substantially Improves Network Inference by Phylogenetic Profiling, '''''Plos One''''' 2015 Sep 22;10(9):e0139006 [http://www.ncbi.nlm.nih.gov/pubmed/26394049 pubmed]
 
*49. '''Shim JE*, Lee I**''', Network-assisted approaches for human disease research, '''''Animal Cells and Systems''''' 2015 Aug 19(4):231-235 [http://www.tandfonline.com/doi/abs/10.1080/19768354.2015.1074108 Link] [[media:19768354.2015.1074108.pdf|pdf]]
 
*48. '''Lee T*''', Oh T, Yang S, Shin J, Hwang S, Kim CY, Kim H, Shim H, Shim JE, Ronald PC**, '''Lee I**''', RiceNet v2: an improved network prioritization server for rice genes, '''''Nucleic Acids Research''''' 2015 Jul 1;43(W1):W122-7 [http://www.ncbi.nlm.nih.gov/pubmed/25813048 pubmed]
 
*47. '''Shin J*''', Yang S, Kim E, Kim CY, Shim H, Cho A, Kim H, Hwang S, Shim JE, '''Lee I**''', FlyNet: a versatile network prioritization server for the Drosophila community, '''''Nucleic Acids Research''''' 2015 Jul 1;43(W1):W91-7 [http://www.ncbi.nlm.nih.gov/pubmed/25943544 pubmed]
 
*46. '''Shim JE*''', Hwang S, '''Lee I**''', Pathway-Dependent Effectiveness of Network Algorithms for Gene Prioritization, '''''PLoS One''''' 2015 Jun 19;10(6):e0130589. [http://www.ncbi.nlm.nih.gov/pubmed/26091506 pubmed]
 
*45. '''Han H*''', Shim H, Shin D, Shim JE, Ko Y, Shin J, Kim H, Cho A, Kim E, Lee T, Kim H, Kim K, Yang S, Bae D, Yun A, Kim S, Kim CY, Cho HJ, Kang B, Shin S, '''Lee I**''', TRRUST: a reference database of human transcriptional regulatory interactions, '''''Scientific Reports''''' 2015 Jun 12;5:11432 [http://www.ncbi.nlm.nih.gov/pubmed/26066708 pubmed]
 
*44. '''Lee I**''', Mockler TC**, Editorial overview: Genome studies and molecular genetics: data-driven approaches to genotype-to-phenotype studies in crops, '''''Current Opinion in Plant Biology''''' 2015 Apr;24:iv-vi [http://www.ncbi.nlm.nih.gov/pubmed/25817324 pubmed]
 
*43. '''Lee I**''', Kim E, Marcotte EM**, Modes of Interaction between Individuals Dominate the Topologies of Real World Networks, '''''Plos One''''' 2015 Mar 20;10(3):e0121248 [http://www.ncbi.nlm.nih.gov/pubmed/25793969 Pubmed]
 
*42. '''Kim H*''', Jung KW*, Maeng S, Chen YL, Shin J, Shim JE, Hwang S, Janbon G, Kim T, Heitman J, Bahn YS**, '''Lee I**''', Network-assisted genetic dissection of pathogenicity and drug resistance in the opportunistic human pathogenic fungus Cryptococcus neoformans, '''''Scientific Reports''''' 2015 Mar 5;5:8767 [http://www.ncbi.nlm.nih.gov/pubmed/25739925 Pubmed] [http://f1000.com/prime/725377816?bd=1 {{#widget:AddHtml|content=<img src="http://cdn.f1000.com.s3.amazonaws.com/images/badges/badgef1000.gif" alt="Access the recommendation on F1000Prime" id="bg" width=70 />}}]
 
*41. '''Lee T*''', Kim H, '''Lee I**''', Network-assisted crop systems genetics: network inference and integrative analysis, '''''Current Opinion in Plant Biology''''' 2015 Mar 5;5:8767. [http://www.ncbi.nlm.nih.gov/pubmed/25698380 Pubmed]
 
*40. '''Kim T*''', Dreher K, Nilo-Poyanco R, '''Lee I''', Fiehn O, Lange BM, Nikolau BJ, Sumner L, Welti R, Wurtele ES, Rhee SY**, Patterns of metabolite changes identified from large-scale gene perturbations in Arabidopsis thaliana using a genome-scale metabolic network, '''''Plant Physiology''''' 2015 Apr;167(4):1685-98 [http://www.ncbi.nlm.nih.gov/pubmed/25670818 Pubmed]
 
*39. '''Kim H*''', Shim JE, Shin J, '''Lee I**''', EcoliNet: a database of cofunctional gene network for Escherichia coli, '''''Database''''' 2015 Feb 2;2015:bav001 [http://www.ncbi.nlm.nih.gov/pubmed/25650278 Pubmed]
 
*38. '''Lee T*''', Yang S, Kim E, Ko Y, Hwang S, Shin J, Shim JE, Shim H, Kim H, Kim C, '''Lee I**''', AraNet v2: an improved database of co-functional gene networks for the study of Arabidopsis thaliana and 27 other nonmodel plant species, '''''Nucleic Acids Research''''' 2015 Jan;43(Database issue):D996-1002 [http://www.ncbi.nlm.nih.gov/pubmed/25355510 Pubmed]
 

==2014 (5)-Sabbatical leave==
*37. '''Hwang S*''', Kim E, Yang S, Marcotte EM*, '''Lee I**''', MORPHIN: a web tool for human disease research by projecting model organism biology onto a human integrated gene network, '''''Nucleic Acids Res''''' 2014 Jul;42(Web server issue):W147-53. [http://www.ncbi.nlm.nih.gov/pubmed/24861622 Pubmed]
 
*36. '''Lee I**''', A showcase of future plant biology: moving towards next-generation plant genetics assisted by genome sequencing and systems biology, '''''Genome Biology''''', 2014 May 23;15(5):305. [http://www.ncbi.nlm.nih.gov/pubmed/25001400 Pubmed]
 
*35. '''Cho A*''', Shin J, Hwang S, Kim C, Shim H, Kim H, Kim H, '''Lee I**''' WormNet v3: a network-assisted hypothesis-generating server for Caenorhabditis elegans, '''''Nucleic Acids Res'''''. 2014 Jul;42(Web Server issue):W76-82 [http://www.ncbi.nlm.nih.gov/pubmed/24813450 Pubmed]
 
*34. '''Shin J*''', Lee T, Kim H, '''Lee I**''', Complementarity between distance- and probability-based methods of gene neighbourhood identification for pathway reconstruction. '''''Mol. BioSyst.''''', 2014 Jan;10(1):24-9 [http://www.ncbi.nlm.nih.gov/pubmed/24194096 Pubmed]
 
*33. '''Kim H*''', Shin J, Kim E, Kim H, Hwang S, Shim JE, '''Lee I**''', YeastNet v3: a public database of data-specific and integrated functional gene networks for Saccharomyces cerevisiae. '''''Nucleic Acids Research''''' 2014 Jan;42(Database issue):D731-6 [http://www.ncbi.nlm.nih.gov/pubmed/24165882 Pubmed]
 

==2013 (2)==
*32. '''Kim E*''', Kim H, '''Lee I**''', JiffyNet: a web-based instant protein network modeler for newly sequenced species. '''''Nucleic Acids Research''''' 2013 Jul;41(Web Server issue):W192-7 [http://www.ncbi.nlm.nih.gov/pubmed/23685435 Pubmed][http://nar.oxfordjournals.org/content/early/2013/05/17/nar.gkt419.full.pdf+html pdf]
 
*31. '''Lee I**''' , Network approaches to the genetic dissection of phenotypes in animals and humans. '''''Animal Cells and Systems''''' 2013 17(2)75-79 [http://www.tandfonline.com/doi/abs/10.1080/19768354.2013.789076 Link]
 

==2012 (3)==
*30. Wang PI*, '''Hwang S*''', Kincaid RP, Sullivan CS, '''Lee I**''', Marcotte EM**. RIDDLE: Reflective diffusion and local extension reveal functional associations for unannotated gene sets via proximity in a gene network. '''''Genome Biology''''' 2012 Dec 26;13(12):R125 [http://www.ncbi.nlm.nih.gov/pubmed/23268829 pubmed]
 
*29. Chae L**, '''Lee I**''', Shin J, Rhee SY**. Towards understanding how molecular networks evolve in plant. '''''Current Opinion in Plant Biology''''' 2012 Apr;15(2):177-84 [http://www.ncbi.nlm.nih.gov/pubmed/22280840 pubmed] [[media:CurrOpinPlantBiol 15-177.pdf|pdf]]
 
*28. Quanbeck SM1*, Brachova L, Campbell AA, Guan X, Perera A, He K, Rhee SY, Bais P, Dickerson JA, Dixon P, Wohlgemuth G, Fiehn O, Barkan L, Lange I, Lange BM, '''Lee I''', Cortes D, Salazar C, Shuman J, Shulaev V, Huhman DV, Sumner LW, Roth MR, Welti R, Ilarslan H, Wurtele ES, Nikolau BJ**. Metabolomics as a hypothesis-generating functional genomics tool for the annotation of Arabidopsis thaliana genes of “unknown function”. '''''Frontiers in Plant Science''''' 2012 Feb 10;3:15 [http://www.ncbi.nlm.nih.gov/pubmed/22645570/ pubmed][[media:Fpls-03-00015.pdf|pdf]]
 

==2011 (5)==
*27.'''Lee I**''', Seo YS, Coltrane D, Hwang S, Oh T, Marcotte EM**, Ronald PC**. Genetic dissection of the biotic stress response using a genome-scale gene network for rice. '''''PNAS''''' 2011 Nov 8;108(45):18548-53 [http://www.ncbi.nlm.nih.gov/pubmed/22042862 pubmed] [[media:PNAS-2011-Lee-18548-53.pdf|pdf]]
 
*26. '''Hwang S*''', Rhee SY**, Marcotte EM**, '''Lee I**'''. Systematic prediction of candidate gene function associated to phenotype traits using the probabilistic functional gene network of Arabidopsis thaliana. '''''Nature Protocols''''' 2011 Aug 25;6(9):1429-42 [http://www.ncbi.nlm.nih.gov/pubmed/21886106 pubmed][[media:2011.08.25.online.nprot.2011.372.pdf|pdf]]
 
*25. '''Lee I**''' , Probabilistic functional gene societies. '''''Progress in Biophysics and Molecular Biology''''' 2011 Aug;106(2):435-42 [http://www.ncbi.nlm.nih.gov/pubmed/21281658 pubmed] [[media:Publications_023_n.pdf|pdf]]
 
*24. '''Lee I**''', Blom UM*, Wang PI, Shim JE, Marcotte EM**. Prioritizing candidate disease genes by network-based boosting of genome-wide association data. '''''Genome Research''''' 2011 Jul;21(7):1109-21 [http://www.ncbi.nlm.nih.gov/pubmed/21536720 pubmed] [[media:Publications_025_n.pdf|pdf]]
 
*23. Seo YS*, Chern M, Bartley LE, Han M, Jung KH, '''Lee I''', Walia H, Richter T, Xu X, Cao P, Bai W, Ramanan R, Amonpant F, Arul L, Canlas PE, Ruan R, Park CJ, Chen X, Hwang S, Jeon JS, Ronald PC**. Towards establishment of a rice stress response interactome. '''''PLoS Genetics''''' 2011 Apr;7(4):e1002020 [http://www.ncbi.nlm.nih.gov/pubmed/21533176 pubmed] [[media:Publications_024.pdf|pdf]]
 

==2010 (4)==
*22. Huang N*, '''Lee I''', Marcotte EM, Hurles ME**. Characterising and predicting haploinsufficiency in the human genome, '''''PLoS Genet.''''' 2010 Oct 14;6(10):e1001154 [http://www.ncbi.nlm.nih.gov/pubmed/20976243 pubmed] [[media:Publications_022.pdf|pdf]]
 
*21. '''Kim E*''', Shin J, '''Lee I**'''. Assessment of effectiveness of the network-guided genetic screen, '''''Mol Biosyst.''''' 2010 Oct;6(10):1803-6 [http://www.ncbi.nlm.nih.gov/pubmed/20697632 pubmed] [[media:Publications_021.pdf|pdf]]
 
*20. '''Lee I**''', Lehner B**, Vavouri T, Shin J, Fraser AG**, Marcotte EM**. Andrew G. Fraser, and Edward M. Marcotte, Predicting genetic modifier loci using functional gene networks, '''''Genome Research''''' 2010 Aug;20(8):1143-53 ''co-corresponding author'' [http://www.ncbi.nlm.nih.gov/pubmed/20538624 pubmed] [[media:Publications_020.pdf|pdf]]
 
*19. '''Lee I**''', Ambaru B, Thakkar P, Marcotte EM**, Rhee SY**. Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana '''''Nature Biotechnology''''', 2010 Feb;28(2):149-56 ''co-corresponding author'' [http://www.ncbi.nlm.nih.gov/pubmed/20118918 pubmed] [[media:Publications_019.pdf|pdf]]
 

==2009 (3)==
*18. '''Lee I*''', Marcotte EM**. Effects of functional bias on supervised learning of a gene network model. '''In Methods in Molecular Biology''' Vol. 541, Computational Systems Biology (ed. R. Ireton, K. Montgomery, J. McDermott, R. Samudrala, R. Bumgarner). Totowa, THE HUMANA. 2009;541:463-75 [http://www.ncbi.nlm.nih.gov/pubmed/19381535 pubmed] [[media:Publications_018.pdf|pdf]]
 
*17. Li Z*, '''Lee I''', Moradi E, Hung NJ, Johnson AW, Marcotte EM**. Rational Extension of the Ribosome Biogenesis Pathway Using Network-Guided Genetics, '''''PLoS Biology''''', 2009 Oct;7(10):e1000213 [http://www.ncbi.nlm.nih.gov/pubmed/19806183 pubmed] [[media:Publications_017.pdf|pdf]]
 
*16. Gray RS*, Abitua PB, Wlodarczyk BJ, Szabo-Rogers HL, Blanchard O, '''Lee I''', Weiss GS, Liu KJ, Marcotte EM**, Wallingford JB**, Finnell RH**. The planar cell polarity effector protein Fuz is essential for targeted membrane trafficking, ciliogenesis, and mouse embryonic development, '''''Nature Cell Biology''''' 2009 Oct;11(10):1225-32 '''''*Cover story''''' [http://www.ncbi.nlm.nih.gov/pubmed/19767740 pubmed] [[media:Publications_016.pdf|pdf]]
 
==2008 (3)==
*15. Lehner B**, '''Lee I**''' . Network-guided genetic screening: building, testing, and using gene networks to predict gene function. '''''Brief. Funct. Genomic'''''. 2008 May;7(3):217-27 '''''co-corresponding author''''' [http://www.ncbi.nlm.nih.gov/pubmed/18445637 pubmed] [[media:Publications_015.pdf|pdf]]
 
*14. '''Lee I*''', Marcotte EM**. Integrating Functional Genomics Data. '''In Methods in Molecular Biology''' Vol. 453, Bioinformatics Vol. II (ed. Jonathan Keith). Totowa, THE HUMANA. 2008;453:267-78 [http://www.ncbi.nlm.nih.gov/pubmed/18712309 pubmed] [[media:Publications_014.pdf|pdf]]
 
*13. '''Lee I*''', Lehner B*, Crombie C, Wong W, Fraser AG**, Marcotte EM**. A single gene network accurately predicts phenotypic effects of gene perturbation in ''Caenorhabditis elegans''. '''''Nature Genetics''''' 2008 Feb;40(2):181-8 '''''*Cover story''''' [http://www.ncbi.nlm.nih.gov/pubmed/18223650 pubmed] [[media:Publications_013.pdf|pdf]] This paper was the subject of the following commentary (Natalie de Souza, Networking on organism. Nature Methods 5:217), and minireviews (Von Stetina S. E. and Mango S. E. Wormnet: a crystal ball for Caenorhabditis elegans. Genome Biology 9:226. Borgwardt K. Predicting phenotypic effects of gene perturbations in C. elegans using an integrated network model. BioEssays 30:707)
 
==Before 2007 (12)==
*12. '''Insuk Lee*''', Rammohan Narayanaswamy, Edward Marcotte**. Bioinformatic prediction of yeast gene function. '''In METHOD IN MICROBIOLOGY''' Vol. 36, Yeast Gene Analysis (ed. Ian Stansfield and Mike Stark), Elsevier. p597-628, (2007) [[media:Publications_012.pdf|pdf]]
 
*11. Kris McGary*, '''Insuk Lee''', Edward M. Marcotte**. Broad network-based predictability of S. cerevisiae gene loss-of-function phenotypes. '''''Genome Biology''''' 8:R258 (2007) [http://www.ncbi.nlm.nih.gov/pubmed/18053250 pubmed] [[media:Publications_011.pdf|pdf]]
 
*10. '''Insuk Lee*''', Zhihua Li, and Edward M. Marcotte**. An improved bias-reduced probabilistic functional gene network of baker’s yeast ''Saccharomyces cerevisiae''. '''''PLOS One''''' 2:e988 (2007) [http://www.ncbi.nlm.nih.gov/pubmed/17912365 pubmed] [[media:Publications_010.pdf|pdf]]
 
*9. Hart G. Traver*, '''Insuk Lee''', Edward Marcotte**. A high-accuracy consensus map of yeast protein complexes reveals modular nature of gene essentiality. '''''BMC Bioinformatic''''' 8:236 (2007) [http://www.ncbi.nlm.nih.gov/pubmed/17605818 pubmed] [[media:Publications_009.pdf|pdf]]
 
*8. Insuk Lee*, Shailesh V. Date, Alex T. Adai, Edward Marcotte**. A Probabilistic functional network of yeast genes. '''''Science''''' 306:1555-1558, (2004) [http://www.ncbi.nlm.nih.gov/pubmed/15567862 pubmed] [[media:Publications_008.pdf|pdf]]
 
*7. Bork, P.**, Jensen, L.J., Von Mering, C., Ramani, A.K., '''Lee I''', Marcotte, E.M.** Protein interaction networks from yeast to human. '''''Curr. Opin. Struct. Biol.''''' 14:292-9, (2004) [http://www.ncbi.nlm.nih.gov/pubmed/15193308 pubmed] [[media:Publications_007.pdf|pdf]]
 
*6. '''Insuk Lee*''' and Rasika Harshey**. Patterns of Sequence conservation at termini of LTR retrotransposons and DNA transposons in the human genome: Lessons from phage Mu. '''''Nucleic Acids Res.''''' 31:4531-4540, (2003)
 
*5. '''Insuk Lee*''' and Rasika Harshey**. The conserved CA/TG motif at Mu termini: T specifies stable transpososome assembly. '''''J. Mol. Biol.''''' 330:261-275, (2003)
 
*4. '''Insuk Lee*''' and Rasika Harshey**. Importance of the conserved CA dinucleotide at Mu termini. '''''J. Mol. Biol.''''' 314:433-444, (2001)
 
*3. Xue, Y*., Bai, X., '''Lee, I.''', Kallstrom, G., Ho, J., Brown, J., Stevens, A., and Johnson, A. W.** Saccharomyces cerevisiae RAI1 (YGL246c) is homologous to human DOM3Z and encodes a protein that binds the nuclear exoribonuclease Rat1p. '''''Mol. Cell. Biol.''''' 20:4006-4015, (2000)
 
*2. Liu, J*., Gong, Y., Prakash, O., Wen, L., '''Lee, I'''., Huang J.,-K., and Krishnamoorthi, R.** NMR studies of internal dynamics of serine proteinase protein inhibitors: Binding region mobilities of intact and reactive-site hydrolyzed CMTI-III of the squash family and comparison with those of counterparts of CMTI-V of the potato I family. '''''Protein Science''''' 7:132-141, (1998)
 
*1. Wen, L.**, '''Lee, I.''', Chen, G., Huang, J.,-K., Gong, Y., and Krishnamoorthi, R. Changing the inhibitory specificity and function of CMTI-V by site-directed mutagenesis. '''''Biochem. Biophys. Res. Commun.''''' 207:897-902, (1995)