Curriculum Vitae (Bon-Kyoung Koo)

Curriculum Vitae
(Last updated: 2017-Jan-31)

i. Personal details
Name Bon-Kyoung Koo, PhD
Address Wellcome Trust - Medical Research Council Stem Cell Institute, University of
Cambridge, Tennis Court Road, Cambridge, CB2 1QR
Homepage http://www.stemcells.cam.ac.uk/research/pis/koo
http://scholar.google.co.uk/citations?user=U505I2EAAAAJ
Nationality Korean (South Korea)

ii. Education and employment

Oct 2017 – Appointed Group Leader, IMBA, Vienna, Austria
Apr 2013 – Sep 2017 Group Leader, Cambridge Stem Cell Institute, Univ. of Cambridge
Mar 2009 – Apr 2013 Postdoctoral fellow, Hubrecht Institute, KNAW, the Netherlands
(Mentor: Prof. Hans Clevers)
Mar 2006 – Feb 2009 Postdoctoral fellow, Pohang University of Science and Technology
(POSTECH) and Seoul National University
(Mentor: Prof. Young-Yun Kong)
Mar 2002 – Feb 2006 Ph.D., Div. of Mol. and Lif. Sci., POSTECH, Republic of Korea
(Advisor: Prof. Young-Yun Kong)
Mar 2000 – Feb 2002 M.S. Div. of Mol. and Lif. Sci., POSTECH, Republic of Korea
Mar 1996 – Feb 2000 B.S. Dept. of Lif. Sci., POSTECH, Republic of Korea

iii. Professional activities

2016 A member of the organising committee – EMBO Wnt meeting 2016
2016 – Present Adj. Professor at Pohang Univ. of Science & Tech (POSTECH), South Korea
2016 Main editor for DB Special Issue on Organoids (Developmental Biology)
2015 – Present A member of the steering committee – BiKiE (Bio Korea in Europe)
2015 – Present Affiliate PI at Cambridge Cancer Centre
2015 – Present Main Instructor at the Sanger Institute’s Advanced Course
– Genetic Engineering of Mammalian Stem Cells
2015 – Present Main Instructor at the Cambioscience Workshop
– Mouse Intestinal Organoids – Establishment, Culture & Manipulation
2015 – Present Part II Lectures in Dept. of Genetics, Univ. of Cambridge
2015 – Present ERC investigator – European Research Council
2014 – Present Affiliate PI at Centre for Trophoblast Research
2013 – Present Faculty member at the Dept. of Genetics, Univ. of Cambridge
2013 – Present Partner PI – WntsApp – Marie Curie ITN programme
2013 – Present Sir Henry Dale Fellow – Wellcome Trust & Royal Society

iv. Fellowships and grants

2016 CRUK - Multidisciplinary Project Award
Tracing the cellular basis of cancer development (£499,898)
2015 ERC starting grant – Troy Stem Cells, European Research Council (€1,570,399)
2013 Marie Curie Initial Training Network – WntsApp, WNT-mediated signalling relay in stem
cells and oncogenesis - from basic biology to applications. (£486,113)
2013 Sir Henry Dale Fellowship, the Wellcome Trust & the Royal Society (£1,075,543)
2012 Wellcome Trust Recruitment Enhancement, the Wellcome Trust (£500,000)
(Returned after the award of Sir Henry Dale Fellowship)
2011 Fostering next-generation researchers program, The National Research Foundation of
Korea Fellowship: NRF-2011-357-C00093 (KRW 32,000,000 = £18,285)

v. Awards
2012 Travel Award, EMBL Conference Stem Cells in Cancer and Regenerative Medicine
2007 Poster Award, 64th KSBMB Annual Meeting in 2007 and 19th FAOBMB Seoul Conference
(International Conference)

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 Curriculum Vitae (Bon-Kyoung Koo)

vi. Patents
2016 Patent application No. 1613839.8, Conditional Gene Targeting Method
2009 Patent number: 8076532, Transgenic mouse defective in WW45 function and use in
screening compounds for anti-tunour activity

vii. Manuscripts waiting for publication

(00 (*), first-author; 00 (†), corresponding author)
1 Turco MY, Gardner L, Hughes J, Cindrova-Davies T, Gomez MJ, Farrell L, Marsh SGE, Brosens
JJ, Critchley HO, Simons BD, Hemberger M, Koo BK, Moffett A and Burton GJ. Hormone-
responsive organoid cultures of human endometrium. Nat Cell Biol 2016 (accepted) – an
advisory role for non-organoid experts on setting up novel organoid culture from the human
endometrium
2 Spit M, Koo BK, Maurice MM. Tales from the crypt: signaling pathways in intestinal renewal,
regeneration and carcinogenesis Science Signaling 2016 (under revision)
3 Kraiczy J, Nayak K, Howell K, Forbester J, Ross A, Vallier L, Andersson-Rolf A, Leenen E,
Rosenstiel P, Stegle O, Dougan G, Heuschkel R, Koo BK†, Zilbauer M†. Stable DNA
methylation signatures define the regional identity of human intestinal epithelial organoid
cultures. (submitted)
4 Andersson-Rolf A, Zilbauer M, Koo BK†, Clevers H†. Stem Cells in Repair of Gastrointestinal
Epithelia. (under revision)
5 Broutier L, Mastrogiovanni G, Verstegen M, Francies HE, Allen GE, Sidorova O, Olpe C, Arnes
R, Gaspersz MP, Georgakopoulos N, Koo BK, Davies SE, Praseedom R, de Jonge J,
Ijzermans JNM, Wigmore SJ, Saeb-Parsy K, Garnett MJ, van der Laan L, Huch M. Patient-
derived organoid cultures model: Primary Liver Cancer in vitro. (under revision)
6 Andersson-Rolf A†, Mustata RC, Merenda A, Kim J, Skarnes WC†, Koo BK†. Generation of
FLIP and FLIP-FlpE targeting vectors for conditional and reversible gene knockouts (invited)

viii. Publications
(00 (*), first-author; 00 (†), corresponding author; 00, 5 key publications)
43 Andersson-Rolf A, Mustata RC, Merenda A, Perera S, Grego T, Kim J, Andrews K, Fink J,
Skarnes WC†, Koo BK†. One-step generation of conditional and reversible gene knockouts.
Nat Methods 2017 Jan 30. 2
42 Bartfeld S†, Koo BK†. Adult gastric stem cells and their niches WIREs Dev Biol 2017 Jan 3.
41 Koo BK†, Huch M†. Organoids: A new in vitro model system for biomedical science and
disease modelling and promising source for cell-based transplantation. Dev Biol 2016 Oct 27.
pii: S0012-1606(16)30690-X.
40 Andersson-Rolf A, Merenda A, Mustata RC, Li T, Dietmann S, Koo BK†. Simultaneous
paralogue knockout using a CRISPR-concatemer in mouse small intestinal organoids. Dev Biol
2016 Oct 27. pii: S0012-1606(16)30479-1.
39 Fink J, Koo BK†. Clonal Evolution of Stem Cells in the Gastrointestinal Tract. Adv Exp Med
Biol. 2016;908:11-25. [Book Chapter]
38 Broutier L, Andersson-Rolf A, Hindley CJ, Boj SF, Clevers H, Koo BK†, Huch M†. Culture and
establishment of self-renewing human and mouse adult liver and pancreas 3D organoids and
their genetic manipulation. Nat Protoc. 2016 Sep;11(9):1724-43.
37 Andersson-Rolf A, Mustata RC, Merenda A, Perera S, Grego T, Kim J, Andrews K, Fink J,
Skarnes WC, Koo BK†. Rapid, one-step generation of biallelic conditional gene knockouts
BioRxiv 2016
36 Andersson-Rolf A, Koo BK†. Stem cell-derived organoid cultures and genome editing tools.
Cell Gene Therapy Insights. 2015; 1(2), 243-251.
35 Fink J, Andersson-Rolf A, Koo BK†. Adult stem cell lineage tracing and deep tissue imaging.
BMB Rep. 2015 Dec;48(12):655-67.
34 Huch M†, Koo BK†. Modeling mouse and human development using organoid cultures.
Development. 2015 Sep 15;142(18):3113-25. – This is a review that summarises all different
types of organoids derived from pluripotent and adult tissue resident stem cells.
33 Koo BK*†, van Es JH*, van den Born M, Clevers H† Porcupine inhibitor suppresses paracrine
Wnt-driven growth of Rnf43;Znrf3-mutant tumors PNAS. 2015 May 28. – I identified that Rnf43-
mutant tumours are dependent on Wnt signals provided by the adjacent niche (the Paneth cell)

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and proposed porcupine inhibitor that blocks the secretion of Wnt ligand as a candidate drug to
treat RNF43-mutated cancers.
32 Schuijers J, Junker JP, Mokry M, Hatzis P, Koo BK, Sasselli V, van der Flier LG, Cuppen E,
van Oudenaarden A, Clevers H. Ascl2 Acts as an R-spondin/Wnt-Responsive Switch to Control
Stemness in Intestinal Crypts. Cell Stem Cell. 2015 Jan 17.
31 Andersson-Rolf A, Fink J, Mustata RC, Koo BK†. A Video protocol of retroviral infection in
primary intestinal organoid culture. JoVE. 2014 Aug 11;(90):e51765. doi: 10.3791/51765.
30 Koo BK, Clevers H. Stem Cells Marked by the R-Spondin Receptor Lgr5. Gastroenterology.
2014 May 21.
29 Schwank G*, Koo BK*, Sasselli V, Dekkers JF, Heo I, Demircan T, Sasaki N, Boymans S,
Cuppen E, van der Ent CK, Nieuwenhuis EES, Beekman JM, Clevers H. Functional repair of
CFTR by CRISPR/Cas9 in intestinal stem cell organoids of cystic fibrosis patients. Cell Stem
Cell. 2013 Dec 5;13(6):653-8. doi: 10.1016/j.stem.2013.11.002. f1000 – I demonstrated that
CRISPR-mediated gene correction can be applied to adult stem cell-derived colonic organoids.
This is the first example of gene correction in adult epithelial stem cells.
28 Koo BK, Sasselli V, Clevers H. Retroviral Gene Expression Control in Primary Organoid
Cultures. Curr Prot in SC Biology. 2013 Nov 13; doi: 10.1002/9780470151808.sc05a06s27
27 Schwank G, Andersson-Rolf A, Koo BK, Sasaki N, Clevers H. Generation of BAC Transgenic
Epithelial Organoids. PLoS ONE. 8(10): e76871. doi:10.1371/journal.pone.0076871
26 Stange DE*, Koo BK*, Huch M, Sibbel G, Basak O, Lyubimova A, Kujala P, Bartfeld S, Koster
J, Geahlen JH, Peters PJ, van Es JH, van de Wetering M, Mills JC, Clevers H. Differentiated
Troy+ Chief Cells Act as Reserve Stem Cells to Generate All Lineages of the Stomach
Epithelium. Cell. 2013 Oct 10; 155(2):357-368. f1000 – I identified a dormant reserve stem cell
population in the stomach corpus epithelium using Troy as their specific marker. Based on this
finding I received the ERC starting grant to further characterise the molecular regulatory
mechanism that governs the quiescence and active proliferation of this novel gastric stem cell
population.
25 Heijmans J, van Lidth de Jeude JF, Koo BK, Rosekrans SL, Wielenga MC, van de Wetering M,
Ferrante M, Lee AS, Onderwater JJ, Paton JC, Paton AW, Mommaas AM, Kodach LL, Hardwick
JC, Hommes DW, Clevers H, Muncan V, van den Brink GR. ER Stress Causes Rapid Loss of
Intestinal Epithelial Stemness through Activation of the Unfolded Protein Response. Cell Rep.
2013 Mar 26. doi:pii: S2211-1247(13)00107-1. 10.1016/j.celrep.2013.02.031.
24 Kim HA*, Koo BK*, Cho JH, Kim YY, Seong JW, Chang HJ, Oh YM, Stange DE, Park JG,
Hwang DH, Kong YY. Notch counteracts Wnt-beta-catenin signaling through chromatin
modification in mouse and human colorectal cancer. J Clin Invest. 2012 Sep 4;122(9):3248-59.
23 Koo BK, Spit M, Jordens I, Low TY, Stange DE, van de Wetering M, van Es JH, Mohammed S,
Heck AJR, Maurice MM, Clevers H. Tumour suppressor RNF43 is a stem cell E3 ligase that
induces endocytosis of Wnt receptors. Nature 2012 Aug 30;488(7413):665-9. f1000 – This is
the first proof that RNF43 and ZNRF3, two paralogous E3 ubiquitin ligases, have a tumour
suppressor role in mouse small intestine. Since then RNF43 has been found to be mutated in
several different types of human cancers originating from the pancreas, liver, stomach, ovary
and colon. This work has made a significant impact on the scheme of cancer diagnosis and
classification by providing an additional negative Wnt regulator that functions as an important
tumour suppressor next to APC.
22 Muñoz J, Stange DE, Schepers AG, van de Wetering M, Koo BK, Itzkovitz S, Volckmann R,
Kung KS, Koster J, Radulescu S, Myant K, Versteeg R, Sansom OJ, van Es JH, Barker N, van
Oudenaarden A, Mohammed S, Heck AJ, Clevers H. The Lgr5 ISC signature: robust expression
of proposed quiescent '+4' cell markers. EMBO J. 2012 Jun 12;31(14):3079-91.
21 van Es JH, Haegebarth A, Kujala P, Itzkovitz S, Koo BK, Boj SF, Korving J, van den Born M,
van Oudenaarden A, Robine S, Clevers H. A critical role for the Wnt effector Tcf4 in adult
intestinal homeostatic self-renewal. Mol Cell Biol. 2012 May;32 (10):1918-27.
20 Koo BK*, Stange DE*, Sato T, Karthaus W, Farin H, Huch M, van Es JH, Clevers H Controlled
gene expression in primary Lgr5 organoid cultures Nature Methods 2011 Dec 4;9(1):81-3.
19 Kim NS, Kim HT, Kwon MC, Choi SW, Kim YY, Yoon KJ, Koo BK, Kong MP, Shin J, Cho Y,
Kong YY. Survival and differentiation of MECs in mammary gland development require nuclear
retention of Id2 due to RANK signaling. Mol Cell Biol. 2011 Dec;31(23):4775-88.
18 de Lau W, Barker N, Low TY, Koo BK, Li VS, Teunissen H, Kujala P, Haegebarth A, Peters PJ,
van de Wetering M, Stange DE, van Es JE, Guardavaccaro D, Schasfoort RB, Mohri Y,
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Nishimori K, Mohammed S, Heck AJ, Clevers H. Lgr5 homologues associate with Wnt receptors
and mediate Rspondin signalling. Nature. 2011 Jul 4;476(7360):293-7. f1000
17 Min JK, Park H, Choi HJ, Kim Y, Pyun BJ, Agrawal V, Song BW, Jeon J, Maeng YS, Rho SS,
Shim S, Chai JH, Koo BK, Hong HJ, Yun CO, Choi C, Kim YM, Hwang KC, Kwon YG. The
WNT antagonist Dickkopf2 promotes angiogenesis in rodent and human endothelial cells. J
Clin Invest. 2011 May 2;121(5):1882-93.
16 Stange DE, Engel F, Longerich T, Koo BK, Koch M, Delhomme N, Aigner M, Toedt G,
Schirmacher P, Lichter P, Weitz J, Radlwimmer B. Expression of an ASCL2 related stem cell
signature and IGF2 in colorectal cancer liver metastases with 11p15.5 gain. Gut. 2010
Sep;59(9):1236-44.
15 Jeong HW, Jeon US, Koo BK, Kim WY, Im SK, Shin J, Cho Y, Kim J, Kong YY. Inactivation of
Notch signaling in the renal collecting duct causes nephrogenic diabetes insipidus in mice. J
Clin Invest. 2009 Nov;119(11):3290-300.
14 Kwon MC, Koo BK, Kim YY, Lee SH, Kim JH, Kong YY. Essential role of Crif1 in ELF3-
mediated intestinal development. J Biol Chem. 2009 Nov 27;284(48):33634-41.
13 Koo BK*, Lim HS*, Chang HJ, Yoon MJ, Kong MP, Kim CH, Kim JM, Park JG, Kong YY. Notch
signaling promotes the generation of EphrinB1-positive intestinal epithelial cells.
Gastroenterology. 2009 Jul;137(1):145-55.
12 Song R, Kim YW, Koo BK, Jeong HW, Yoon MJ, Yoon KJ, Jun DJ, Im SK, Shin J, Kong MP,
Kim KT, Yoon K, Kong YY. Mind bomb-1 functions in the lymphopoietic niches to regulate
lymphopoiesis. J Exp Med. 2008 Sep 29.
11 Kim YW, Koo BK, Jeong HW, Yoon MJ, Song R, Shin J, Jeong DC, Kim SH, Kong YY.
Defective Notch activation in microenvironment leads to myeloproliferative disease. Blood.
2008 Sep 25.
10 Yoon MJ, Koo BK, Song R, Jeong HW, Shin J, Kim YW, Kong YY, Suh PG. Mind bomb-1 is
essential for intra-embryonic hematopoiesis in the aortic endothelium and the SAPs. Mol Cell
Biol. 2008 May 27.
9 Yoon KJ, Koo BK, Im SK, Jeong HW, Ghim J, Kwon MC, Moon JS, Miyata T, Kong YY. Mind
bomb 1-expressing intermediate progenitors generate notch signaling to maintain radial glial
cells. Neuron. 2008 May 22;58(4):519-31.
8 Lee JH, Kim TS, Yang TH, Koo BK, Oh SP, Lee KP, Oh HJ, Lee SH, Kong YY, Kim JM, Lim
DS. A crucial role of WW45 in developing epithelial tissues in the mouse. EMBO J. 2008 Apr
23;27(8):1231-42.
7 Kwon MC, Koo BK, Moon JS, Kim YY, Park KC, Kim NS, Kwon MY, Kong MP, Yoon KJ, Im SK,
Ghim J, Han YM, Jang SK, Shong M, Kong YY. Crif1 is a novel transcriptional coactivator of
STAT3. EMBO J. 2008 Feb 20;27(4):642-53.
6 Koo BK*, Yoon MJ*, Yoon KJ*, Im SK, Kim YY, Kim CH, Suh PG, Jan YN, Kong YY. An
obligatory role of mind bomb-1 in notch signaling of mammalian development. PLoS ONE. 2007
Nov 28;2(11):e1221.
5 Song R*, Koo BK*, Yoon KJ, Yoon MJ, Yoo KW, Kim HT, Oh HJ, Kim YY, Han JK, Kim CH,
Kong YY. Neuralized-2 regulates a Notch ligand in cooperation with Mind bomb-1. J Biol
Chem. 2006 Nov 24;281(47):36391-400.
4 Yoo KW, Kim EH, Jung SH, Rhee M, Koo BK, Yoon KJ, Kong YY, Kim CH. Snx5, as a Mind
bomb-binding protein, is expressed in hematopoietic and endothelial precursor cells in
zebrafish. FEBS Lett. 2006 Aug 7;580(18):4409-16.
3 Kim NS, Kim HJ, Koo BK, Kwon MC, Kim YW, Cho Y, Yokota Y, Penninger JM, Kong YY.
Receptor activator of NF-kappaB ligand regulates the proliferation of mammary epithelial cells
via Id2. Mol Cell Biol. 2006 Feb;26(3):1002-13.
2 Koo BK*, Lim HS*, Song R, Yoon MJ, Yoon KJ, Moon JS, Kim YW, Kwon MC, Yoo KW, Kong
MP, Lee J, Chitnis AB, Kim CH, Kong YY. Mind bomb 1 is essential for generating functional
Notch ligands to activate Notch. Development. 2005 Aug;132(15):3459-70.
1 Koo BK, Yoon KJ, Yoo KW, Lim HS, Song R, So JH, Kim CH, Kong YY. Mind bomb-2 is an E3
ligase for Notch ligand. J Biol Chem. 2005 Jun 10;280(23):22335-42.

ix. Invited Oral Presentations (2014-2016)

2014 Invited Seminar at the Institute of Food Research, Norwich
2014 Invited Seminar at the Busan National University, S. Korea
2014 Oxford Genome Engineering Symposium, University of Oxford

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2014 RNA meeting, RNA society, Quebec, Canada

2014 European Cancer Stem Cell Research Institute, Cardiff University
2014 Invited Seminar at University of Birmingham
2014 Wellcome Trust Fellow Meeting (Stem Cells and Regenerative Medicine)
2014 Invited Seminar at University of Nottingham
2015 Genetic Engineering of Mammalian Stem Cells, Sanger Course, Sanger Institute
2015 Stem Cell Club: London Research Institute
2015 Crick Workshop on CRISPR/Cas Technology
2015 Oxford CRISPR/Cas Meeting
2015 Invited Seminar at the University of Seoul, S. Korea
2015 Invited Seminar at Sejong University, S. Korea
2015 Invited Seminar at Korea University, S. Korea
2015 Invited Seminar at Yonsei University, S. Korea
2015 Invited Seminar at Korea Basic Science Institute
2015 Invited Seminar at Chung-buk National University, S. Korea
2015 Invited Seminar at POSTECH, S. Korea
2015 Invited Seminar at DGIST, S. Korea
2015 Invited Seminar at KRIBB, S. Korea
2015 Invited Speaker at KSBMB 2015, S. Korea
2015 Invited Speaker at KoNSCRT Stem Cell Workshop in Korea
2015 Invited Seminar at TUD (Dresden)
2015 Abcam Webinar (Organoids)
2015 Organoid Workshop (Cambioscience)
2016 Jan Stem Cells and Society Workshop: Planning for the Future of Gene Editing
2016 Feb Cambridge New Therapeutics Forum
2016 Feb SCI retreat
2016 Mar Invited Seminar at University Campus Bohunice, Brno, Czech Republic
2016 Apr Genetic Engineering of Mammalian Stem Cells
2016 Apr Stem Cell Club at Cambridge
2016 Apr First Intestinal Epithelial Research Symposium
2016 May BiKiE symposium at Saarbrücken, Germany
2016 May CRISPR meeting at LMB, Cambridge
2016 May BSCDB network meeting at Brussels, Belgium
2016 Jul Invited Seminar at Seoul National University, S.Korea
2016 Aug Invited Seminar at Busan National University, S.Korea
2016 Aug Invited Seminar at Pohang Univ of Science and Technology, S.Korea
2016 Aug Invited Seminar at LG Life Science, S.Korea
2016 Aug Invited Seminar at DGIST, S.Korea
2016 Aug Invited Seminar at KAIST, S.Korea
2016 Aug Korean Society for Stem Cell Research, Seoul, S.Korea
2016 Aug Organoid Workshop – CamBioScience, Cambridge
2016 Sep WNT Conference, Brno, Czech Republic (Organiser/Chair/Presenter)
2016 Sep The 4th Sapporo Summer Seminar for One Health (SaSSOH), Sapporo, Japan
2016 Sep Invited Seminar at Keio University Medical School, Tokyo, Japan
2016 Sep Genetics PI retreat, Cambridge
2016 Nov Invited Seminar at Imperial College, UK
2016 Dec Invited Seminar at IRIBHM Thursday Seminar, Brussels, Belgium
2016 Dec Invited Seminar at IMBA, Vienna, Austria