lam c. tsoi (alex), m.s., ph.d.lam c. tsoi (alex), m.s., ph.d. 3 role: co-investigator past...

Lam C. Tsoi (Alex), M.S., Ph.D. 1

Lam C. Tsoi (Alex), M.S., Ph.D.

Research Assistant Professor

University of Michigan

Department of Dermatology

Department of Computational Medicine & Bioinformatics

Department of Biostatistics

7421 Medical Sciences I, 1301 E. Catherine St.

Ann Arbor, Michigan, USA 48109-5609

Office: 734-764-7069

[email protected]

[email protected]

Education and Training Education

08/2001-06/2002 transferred (Major: Biology), Chinese University of Hong Kong, Hong

Kong

08/2002-12/2002 transferred (Major: Biology), Trident Technical College, Charleston,

SC, USA

01/2003-05/2005 B.S. magna cum laude (Major: Biology, Minor: Mathematics), College

of Charleston, Charleston, SC, USA

08/2005-10/2008 M.S. in Biomedical Science (Bioinformatics)

Thesis: Evaluation of genome-wide association study results through

development of Ontology Fingerprint, Medical University of South

Carolina, Charleston, SC, USA

11/2008-10/2010 Ph.D., with Distinction in Biomedical Science (Bioinformatics)

Dissertation: Using Ontology Fingerprint to Enhance Analysis of

High Throughput Experimental Results, Medical University of South

Carolina, Charleston, SC, USA

Post-doctoral training

11/2010-08/2015 Postdoctoral Fellow, Center for Statistical Genetics, Department of

Biostatistics, School of Public Health, University of Michigan, Ann

Arbor, MI, USA

Academic Appointments 08/2015-present Research Assistant Professor, Department of Dermatology, University of

Michigan Medical School, Ann Arbor, MI, USA

08/2015-present Research Assistant Professor, Department of Computational Medicine

and Bioinformatics, University of Michigan Medical School, Ann Arbor,

MI, USA

03/2016-present Research Assistant Professor, Department of Biostatistics, School of

Public Health, University of Michigan, Ann Arbor, MI, USA

mailto:[email protected]

mailto:[email protected]


Research Interests My primary research interest is to use genomic data to provide biological inferences for

cutaneous diseases. I am particularly interested in the development of analysis pipelines,

computational approaches, and bioinformatic tools to data-mine information from biological

experiments. I have strong interest in investigating the pathology and genetic architecture of

complex disorders, in particular autoimmune diseases such as psoriasis. I use systems biology

approach in designing and developing data integration and bioinformatic methods to analyze high

dimensional data to make novel discoveries regarding networks or interactions that play

significant roles in disease mechanism.

Research Support Current NIH/NIAMS K01AR072129 09/01/17-8/31/22 (PI: Tsoi)

Integrative biology approach to identify and characterize roles of lncRNAs associated with psoriasis

pathology

This project will utilize genomic data and develop an integrative biology framework to provide novel

biological insights and understand pathological roles of IncRNAs.

Role: PI

Amount: $97,199/yr

Arthritis National Research Foundation/National Psoriasis Foundation Research grant (competing

renewal) 7/1/2017-6/30/2018 (PI: Tsoi)

Personalized approach to enhance prediction of psoriatic arthritis

This proposal aims to develop a robust metric utilizing different molecular and clinical features to enhance

risk assessment for psoriatic arthritis (PsA).

Role: PI

Amount: $100,000

Michigan Genomics Initiative (MGI) Development Fund 9/2015-6/2050 (PI: Tsoi)

The goal of this project is to foster research efforts in advancing our knowledge in genomics and public

health.

Role: PI

Amount: $50,000

NIH/NIAID R01-AI130025 3/06/17-02/28/2022 (PI: Gudjonsson)

Role of the gender biased transcription factor VGLL3 in promoting autoimmune response in SLE

The major goal of this project is to understand the involvement of VGLL3 in promoting autoimmune

responses and disease activity in SLE.

Role: Co-Investigator

Amgen, Inc. 12/12/13-07/31/2017 (PI: Gudjonsson)

The immunological basis for treatment resistance to anti-TNF treatments

The major goal of this project is to reveal the immunological processes for anti-TNF treatments and to study

the resistance response.


NIH/NIAMS R01-AR042742-21 3/31/2016-3/31/2021 (PI: Elder)

Linkage Analysis of Familial Psoriasis

The major goal of this project is to identify the genetic determinant(s) of psoriasis.



Past

Dermatology Foundation Career Development Award 7/1/2016-6/30/2018 (PI: Tsoi)

Identification of psoriasis-associated IncRNAs through systems biology framework

This proposal will test the hypothesis that lncRNAs play important roles in psoriasis development using

systems biology approaches.

Role: PI

Amount: $55,000/yr

As of 8/31/17 due to the K01 award announcement, Dr. Tsoi withdrew from the 2nd year DF funding award contract

Arthritis National Research Foundation/National Psoriasis Foundation Research grant

7/1/2016-6/30/2017 (PI: Tsoi)

Personalized approach to enhance prediction of psoriatic arthritis

This proposal aims to develop a robust metric utilizing genetic profile to enhance clinical management for

psoriatic arthritis (PsA).

Role: PI

Amount: $100,000

Undergraduate Research Opportunity Program supplementary fund 10/2015-4/2016 (PI: Tsoi)

Transcriptomic analysis of human tissue/Development of efficient bioinformatics tools

To support undergraduate research for cutaneous bioinformatics

Role: PI

Amount: $1,500

Pfizer 1/2015-12/2016 (PI: Gudjonsson)

Impact of disease duration versus age-of-onset on the inflammatory network in psoriasis

The major goal of this project is to address two critical aspects of psoriasis: (1) to identify the biological

differences between early- and late-onset psoriasis; and (2) assess how the chronicity/duration of disease

affect inflammatory responses in chronic inflammatory states such as psoriasis.


Amount: $149,859

Novartis Pharmaceuticals Corporation 2/2015-9/2016 (PI: Gudjonsson)

IL-17 responses in various inflammatory skin diseases


Amount: $190,778

Kyowa Hakko Kirin California, Inc 12/2015-08/2016 NCTX (PI: Gudjonsson)

Activity of the IL-36 inflammatory axis in cutaneous lupus (DLE/SCLE)

To determine the activity state of the IL-36 family cytokine expression in primary skin biopsies from discoid

lupus (DLE) and subacute cutaneous lupus patients (SCLE).


Amount: $41,161

NIH R01-AR050511 07/2012-03/2014 (PI: Elder)

Identification of Psoriatic Arthritis Genes

The major goal of this project is to reveal genes that increase risk of psoriatic arthritis in order to facilitate


the identification of targets for more specific and effective therapy.

Role: Research Fellow

Funding amount: $406,952 annually

NIH R01-AR042742 07/2012-08/2014 (PI: Elder)

Linkage Analysis of Familial Psoriasis

The major goal of this project is to identify genes that increase risk of psoriasis.



NIH R01 AR065183-01 04/2014-08/2015 (PI: Elder)

Functional genomics of psoriasis

The major goal of this project is to find the functional basis of disease-associated genetic variations

identified in GWAS studies using keratinocyte and lymphocyte-based platforms.



NIH R01-AR054966 11/2010-06/2012 (PI: Elder)

Combined Analysis of Gene Expression and Genetic Variation in Psoriasis

The major goal of this project is to quantify the effect of each SNP on gene expression and probabilistically

infer the effects of ungenotyped SNPs on transcript levels.



Honors and Awards 2004 Fellowship for population dynamics by NOAA 2004 College of Charleston Academic Year Research Award (AYRA)

2004 Academic Achievement Merit Scholarship

2004 College of Charleston Research Presentation Grant (RPG) award

2005 College of Charleston School of Sciences and Mathematics (SSM) annual award

2007 Travel award from the 8th International Conference of System Biology

2008 Medical University of South Carolina Student Research Day 1st place in Bioinformatics presentation

2009 International Conference of Biomedical Ontology (ICBO) stipend award

2009 Hollings Cancer Center Symposium Outstanding Scientific Poster 2nd place

2009 Best performers in Dialogue for Reverse Engineering Assessment and Method (DREAM) 4 Challenge 3: Predictive Signaling Network Modeling

2011 Semifinalist for Trainee Research Award, American Society of Human Genetics for abstract submission to the 12th International Congress of Human Genetics

2016-2017 Dermatology Foundation Research Career Development Award

2016 Arthritis National Research Foundation/National Psoriasis Foundation

Scholar

2017 Microsoft Azure Research Award

2017 NVIDIA GPU Grant

Memberships in Professional Societies 2008-present American Society of Human Genetics


2015-present International Society of Computational Biology

2016-present Society of Investigative Dermatology

Editorial Positions, Boards, and Peer-Review Service Grant Reviewer

2014 Italian Telethon Foundation

2016 Medical Research Council, UK

2017 NIHR Newcastle Biomedical Research Center BRC project funding (Ageing and Long-

Term Conditions)

Editorial Board Member

International Journal of Genomics (special issue editor)

Scientific Reports

Journal/paper Reviewer

Acta Dermato-Venereologica

American Medical Informatics Association Annual Symposium (2014,2016)

Archives of Dermatological Research

BMC Dermatology

British Journal of Dermatology

Clinical Epidemiology

Dermatological Science

Gene

Human Molecular Genetics

IEEE International Conference on Bioinformatics and Biomedicine (2017)

International Conference on Intelligent Biology and Medicine (ICIBM 2016)

International Society for Computational Biology (ISCB)-Asia Conference on Computational

Genomics (2012)

Journal of Allergy and Clinical Immunology

Journal of Biomedical Informatics

Journal of Investigative Dermatology

Molecular Genetics and Genomics

Nucleic Acid Research

PLoS Computational Biology

PLoS ONE

Scientific Reports

Contest Judge

-American Society of Human Genetics 2016 DNA Day essay contest

-University of Michigan Undergraduate Research Opportunity Program 2016 spring consortium

-University of Michigan Undergraduate Research Opportunity Program 2016 summer consortium


Teaching 2006 Teaching Assistant, Introduction to Bioinformatics (graduate level), Medical

University of South Carolina

2007 Teaching Assistant, Introduction to Bioinformatics (graduate level), Medical

University of South Carolina

2012-2013 Research Mentor, Undergraduate Research Opportunity Program (UROP),

University of Michigan. Student: Michael Joseph Kirsch II

2016 Faculty Facilitator, Responsible Conduct of Research and Ethics course

(PIBS503), University of Michigan Medical School

2017 Lecturer, BIOINF545/BIOSTAT646 (High-throughput molecular genomic and

epigenomic data analysis), Department of Computational Medicine &

Binformatics, University of Michigan Medical School

2015-present Research Mentor, Undergraduate Research Opportunity Program (UROP),

University of Michigan:

Antonia Vrana (2015-2016)

Neelesh N. Peddireddy (2015-2016)

Yuyang Yang (2015-2017)

Richard Townsend (2016) (2016 UROP summer fellowship)

Yang Guo (2016 summer volunteer)

Nicholas Nunu (2017-2018)

Tommy Wong (2017 summer) (2017 UROP summer fellowship)

Desmond Madu (2016-present) (2016 UROP summer fellowship)

Yilin Gao (2015-present)

Noah Saleh (2017-present)

Invited seminars and presentations 5/2010 Using Ontology Fingerprint to enhance analysis of high throughput

experimental results. Center for Statistical Genetics, University of

Michigan (Ann Arbor, MI).

11/2012 Fifteen novel psoriasis susceptibility loci: Disease-specific signals

highlight the role of innate immunity. American Society of Human

Genetics annual meeting (San Francisco, CA).

2/2015 Systems Biology approaches to provide inferences and discoveries for

high-throughput experiments. Bioinformatics program, Department of

Biology, University of Memphis (Memphis, TN).

2/2015 Systems Biology approaches to provide inferences and discoveries for

high-throughput experiments. School of Biomedical Informatics,

University of Texas Health Science Center at Houston (Houston, TX).

10/2015 Fine mapping of psoriasis susceptibility loci: Enrichment of pro-

inflammatory genomic marks in lymphocytes and keratinocytes.

American Society of Human Genetics annual meeting (Baltimore, MD).


11/2015 Identification and interpretation of psoriasis susceptibility loci.

National Center for Integrative Biomedical Informatics (NCIBI) tools &

technology seminar series, University of Michigan (Ann Arbor, MI)

11/2015 Systems biology to study the functional basis of psoriasis associated

signals. Department of Biostatistics. School of Public Health, University of

Michigan (Ann Arbor, MI)

12/2015 Shedding light on the genomics of psoriasis. Institute of Dermatology,

Anhui Medical University (Hefei, Anhui, China)

5/2016 Large scale meta-analysis characterizes genetic architecture for

common psoriasis-associated variants. Society for Investigative

Dermatology annual meeting (Scottsdale, Arizona)

4/2017 Determinants of intra-individual transcriptional homogeneity in

inflammatory responses at anatomically separate sites. Society for

Investigative Dermatology annual meeting (Portland, Oregon)

9/2017 Cutaneous bioinformatics for psoriasis research. Department of

Dermatology, Peking University Health Science Center (Beijing, China)

11/2017 Translating genetic findings for psoriasis. Department of Population

Health Science and Policy Grand Rounds, Icahn School of Medicine at

Mount Sinai (New York)

Bibliography

Peer-Reviewed Journals and Publications

1. Tsoi LC, Zheng WJ. A method of microarray data storage using array data type.

Computational Biology and Chemistry 31(2):143-7, 2007.

2. Bradshaw S, Zheng WJ, Tsoi LC, Gilkeson GS, Zhang XK: A role for Fli-1 in B cell

proliferation: implications for SLE pathogenesis. Clinical Immunology 129(1):19-30,

2008.

3. Bryan TP, Tsoi LC, and de Buron I. Development of the philometrids Philometra

overstreeti and Philometroid paralichthydis in the experimentally infected copepod

Oithona colcarva. Folia Parasitologica 55:313-315, 2008.

4. Tsoi LC, Patel R, Zhao W, Zheng WJ. Text Mining Approach to Evaluate Terms for

Ontology Development. J. Biomedical Informatics 42(5): 824-830, 2009.

5. Tsoi LC, Boehnke M, Klein R, Zheng WJ. Evaluation of Genome-wide Association

Study Results through Development of Ontology Fingerprint. Bioinformatics 25(10):1314-

20, 2009.

6. de Buron I, France SC, Roumillat B, Connors V, Tsoi LC: Philometrids of the southern

flounder Paralichthys lethostigma: a multidimensional approach to determine their

diversity. Journal of Parasitology 97(3):466-75, 2011.

7. Tsoi LC, Qin T, Slate EH, Zheng WJ: Consistently differential expression pattern

(CDEP) on microarray data to identify genes related to metastatic behavior. BMC

Bioinformatics 12:438, 2011.


8. Ellinghaus E, Stuart PE, Ellinghaus D, Nair RP, Debrus S, Raelson JV, Belouchi M,

Tejasvi T, Li Y, Tsoi LC, Onken AT, Esko T, Metspalu A, Rahman P, Gladman DD,

Bowcock AM, Helms C, Krueger GG, Koks S, Kingo K, Gieger C, Wichmann HE,

Mrowietz U, Weidinger S, Schreiber S, Abecasis GR, Elder JT, Weichenthal M, Franke

A. Genome-Wide Meta-Analysis of Psoriatic Arthritis Identifies Susceptibility Locus at

REL. J Invest Dermatol. 132(4):1133-40, 2011.

9. Tsoi LC*, Spain SL*, Knight J*, Ellinghaus E*, et al: Fifteen novel psoriasis

susceptibility loci: disease-specific signals highlight the role of innate immunity. Nat

Genet. 44(12): 1341-8, 2012 (cited over 200 times as of May 2015).

10. Qin T, Tsoi LC, Sims KL, Lu X, Zheng WJ: Signaling network prediction by the

Ontology Fingerprint enhanced Bayesian network. BMC Systems Biology. 6 Suppl S:S3,

2012.

11. Gesty-Palmer D, Maudsley S, Yuan L, Martin B, Wood WH III, Lee MH, Janech MG,

Tsoi LC, Zheng WJ, and Luttrel LM, -Arrestin Selective G Protein-Coupled Receptor

Agonists Engender Unique Biological Efficacy In Vivo. Molecular Endocrinology;

27(2):296-314, 2013.

12. Ellinghaus D, Baurecht H, Esparza-Gordillo J, Rodríguez E, Matanovic A, Marenholz I,

Hübner N, Schaarschmidt H, Novak N, Michel S, Maintz L, Werfel T, Meyer-Hoffert U,

Hotze M, Prokisch H, Heim K, Herder C, Hirota T, Tamari M, Kubo M, Takahashi A,

Nakamura Y, Tsoi LC, Stuart P, Elder JT, et al: High-density genotyping study identifies

four new susceptibility loci for atopic dermatitis. Nature Genetics 45(7):808-12, 2013.

13. Li B*, Tsoi LC*, Nair RP, Ding J, Gudjonsson JE, Stuart PE, Tejasvi T, Voorhees JJ,

Kang HM, Abecasis GR, Elder JT: Large-scale transcriptome analysis using RNA-seq

reveals new insights into psoriasis biology. Journal of Investigative Dermatology 134(7):

1828-38, 2014. (highlighted in Commentary)

14. Qin T, Matmati N, Tsoi LC, Mohanty BK, Gao N, Tang J, Lawson AB, Hannun YA,

Zheng WJ. Finding pathway-modulating genes from a novel Ontology Fingerprint-

derived gene network. Nucleic Acid Research 42(18), 2014.

15. Okada Y, Han B, Tsoi LC, Start PE, Ellinghaus E, Tejasvi T, Chandran V, et al. Fine-

mapping major histocompatibility complex associations in psoriasis and its clinical

subtypes. American Journal of Human Genetics 95(2): 162-72, 2014.

16. Baurecht H, Hotze M, Brand S, Büning C, Cormican P, Corvin A, Ellinghaus D,

Ellinghaus E, Esparza-Gordillo J, Fölster-Holst R, Franke A, Gieger C, Hubner N, Illig T,

Irvine AD, Kabesch M, Lee YAE, Lieb W, Marenholz I, McLean WHI, Morris DW,

Mrowietz U, Nair R, Nöthen MM, Novak N, O’Regan GM, the PAGE consortium,

Schreiber S, Smith C, Strauch K, Stuart PE, Trembath R, Tsoi LC, Weichenthal M,

Barker J, Elder JT, Weidinger S, Cordell HJ, Brown SJ. Genome-wide comparative

analysis of atopic dermatitis and psoriasis gives insight into opposing genetic mechanisms.

American Journal of Human Genetics 96(1):104-20, 2015.

17. Tsoi LC, Iyer MK, Stuart PE, Tejasvi T, Li B, Ding J, Gudjonsson JE, Kang HM, Nair

RP, Chinnaiyan A, Abecasis GR, Elder JT. Analysis of long non-coding RNAs highlights

tissue-specific expression patterns and epigenetic profiles in normal and psoriatic skin.

Genome Biology 16:24, 2015. (designated as highly accessed paper)


18. Tsoi LC#, Elder JT, Abecasis GR

#. Graphical algorithm for integration of genetic and

biological data. Bioinformatics 31(8):1243-9, 2015.

19. Koch M, Baurecht H, Ried JS, Rodriguez E, Schlesinger S, Volks N, Gieger C, Rückert I,

Heinrich L, Willenborg C, Smith C, Peters A, Thorand B, Koenig W, Lamina C, Jansen

H, Kronenberg F, Seissler J, Thiery J, Rathmann W, Schunkert H, Erdmann J, Barker J,

Nair R, Tsoi LC, Elder JT, Mrowietz U, et al. Psoriasis and cardiometabolic traits:

modest association and distinct genetic architectures. Journal of Investigative

Dermatology 135(5):1283-93, 2015.

20. Tsoi LC, Spain, SL, Ellinghaus E, Stuart PE, et al. Enhanced meta-analysis and

replication studies identify five new psoriasis susceptibility loci. Nature Comm 6:7001,

2015.

21. Das S, Stuart PE, Ding J, Tejasvi T, Li Y, Tsoi LC, Chandran V, Fischer J, Helms C,

Duffin KC, Voorhees JJ, Bowcock AM, Krueger GG, Lathrop GM, Nair RP, Rahman P,

Abecasis GR, Gladman D, Elder JT. Fine-mapping of eight psoriasis susceptibility loci.

European Journal of Human Genetics. 23(6):844-53, 2015.

22. Ding J, Sidore C, Butler TJ, Wing MK, Qian Y, Meirelles O, Busonero F, Tsoi LC,

Maschio A, Angius A, Kang HM, Nagaraja R, Cucca F, Abecasis GR, Schlessinger D.

Assessing Mitochondrial DNA Variation and Copy Number in Lymphocytes of ~2,000

Sardinians using Tailored Sequencing Analysis Tools. PLoS Genet. 14;11(7), 2015.

23. Lenz TL, Deutsch AJ, Han B, Hu X, Okada Y, Eyre S, Knapp M, Zhernakova A, Huizinga

TW, Abecasis G, Becker J, Boeckxstaens GE, Chen WM, Franke A, Gladman DD, Gockel

I, Gutierrez-Achury J, Martin J, Nair RP, Nöthen MM, Onengut-Gumuscu S, Rahman P,

Rantapää-Dahlqvist S, Stuart PE, Tsoi LC, van Heel DA, Worthington J, Wouters MM, et

al. Widespread non-additive and interaction effects within HLA loci modulate the risk of

autoimmune diseases. Nature Genetics. 2015 Sep;48(9):1085-90.

24. Stuart PE*, Nair RP*, Tsoi LC*, Tejasvi T, Das S, et al. Genome-wide Association

Analysis of Psoriatic Arthritis and Cutaneous Psoriasis Reveals Differences in Their

Genetic Architecture. American Journal of Human Genetics. 2015 Dec 3;97(6):816-36.

25. Stoll SW, Stuart PE, Swindell WR, Tsoi LC, Li B, Gandarillas A, Lambert S, Johnston A,

Nair RP, Elder JT. The EGF receptor ligand amphiregulin controls cell division via

FoxM1. Oncogene. 2015 Aug 3.

26. Prins BP, Abbasi A, Wong A, Vaez A, Nolte L, Franceschini N, Stuart PE, Achury AG,

Mistry V, Bradfield JP, Valdes AM, Bras J, Shatunov A, Treat OA, Lu C, Han B,

Raychaudhuri S, Bevan S, Mayes MD, Tsoi LC, Evangelou E, Nair RP, et al.

Investigating the Causal Relationship of C-Reactive Protein with 32 Complex Somatic and

Psychiatric Outcomes: A Large-Scale Cross-Consortium Mendelian Randomization Study.

PLoS Med. 2016 June

27. Zhou F, Shen C, Xu J, Gao J, Zheng X, Ko R, Dou J, Cheng Y, Zhu C, Xu S, Tang X, Zuo

X, Yin X, Cui Y, Sun L, Tsoi LC, Hsu YH, Yang S, Zhang X. Epigenome-wide

association data implicates DNA methylation-medicated genetic risk in psoriasis. Clinical

Epigenetics. 2016 Dec 8:131.

28. Liang Y, Tsoi LC, Xing X, Sarkar MK, Berthier CC, Stuart PE, et al. VGLL3-regulated

gene network as a promoter of gender biased autoimmune diseases. Nat Imm. 2017


Feb;18(2):152-160.

29. Sarkar MK, Kaplan N, Tsoi LC, Xing X, Liang Y, Swindell WR, Hoover P, Aravind M,

Baida G, Clark M, Voorhees JJ, Nair RP, Elder JT, Budinova I, Getsios S, Gudjonsson JE.

Endogenous glucocorticoid deficiency in psoriasis promotes inflammation and abnormal

differentiation. J Invest Dermatol. 2017 Mar 1.

30. Lambert S, Swindell WR, Tsoi LC, Stoll SW, Elder JT. Dual role of Act1 in keratinocyte

differentiation and host defense: TRAF3IP2 silencing alters keratinocyte differentiation

while inhibiting IL-17 responses. Journal of Investigative Dermatology. 2017 Mar 5.

31. Swindell WR, Michaels KA, Sutter AJ, Diaconu D, Fritz Y, Xing X, Sarkar MK, Liang Y,

Tsoi A, Gudjonsson JE, Ward NL. Imiquimod has strain-dependent effects in mice and

dose not uniquely model human psoriasis. Genome Med. 207 Mar 9;9(1):24.

32. Merkel PA, Xie G, Monach PA, Ji X, Ciavatta DJ, Byun J, Pinder BD, Zhao A, Zhang J,

Tadesse Y, Qian D, Weirauch M, Nair R, Tsoi A, et al. Identification of Functional and

Expression Polymorphism Associated with Risk for Antineutrophil Cytoplasmic

Autoantibody-Associated Vasculitis. Arthritis Rheumatol. 2017 May;69(5):1054-1066.

33. Klein RH, Lin Z, Hopkin AS, Gordon W, Tsoi LC, Liang Y, Gudjonsson JE, Andersen B.

GRHL3 binding and enhancers rearrange as epidermal keratinocytes transition between

functional states. PLoS Genet. 2017 Apr 26;13(4).

34. Tsoi LC*, Stuart PE*, Tian C, et al. Large scale meta-analysis characterizes genetic

architecture for common psoriasis associated variants. Nat Comm. 2017 May 24;8:15382.

35. Hermann H, Runnel T, Aab A, Baurecht H, Rodriguez E, Magilnick N, Urgard E,

Šahmatova L, Prans E, Maslovskaja J, Abram K, Karelson M, Kaldvee B, Reemann P,

Haljasorg U, Rückert B, Wawrzyniak P, Weichenthal M, Mrowietz U, Franke A, Gieger C,

Barker J, Trembath R, Tsoi LC, et al. miR-146b probably assists miRNA-146a in the

suppression of keratinocyte proliferation and inflammatory responses in psoriasis. J Invest

Dermatol. 2017 Jun 6.

36. Raja K, Patrick M, Elder JT, Tsoi LC#. Machine learning workflow to enhance predictions

of Adverse Drug Reactions (ADRs) through drug-gene interactions: application to drugs

for cutaneous diseases. Sci Rep. 2017 Jun 16;7(1):3690.

37. Niehues H*, Tsoi LC*, van der Krieken DA, Jansen PAM et al. Psoriasis-associated Late

Cornified Envelope (LCE) Proteins Have Antibacterial Activity. J Invest Dermatol. 2017.

Jun 17.

38. Budu-Aggrey A, Bowes J, Stuart PE, Zawistowski M, Tsoi LC, et al. A rare coding allele

in IFIH1 is protective for psoriatic arthritis. Ann Rheum Dis. 2017 Jul; 76(7): 1321-1324.

39. Tsoi LC, Yang J, Liang Y, Sarkar MK, Xing X, Beamer MA, Aphale A, Raja K, Kozlow

JH, Getsios S, Voorhees JJ, Kahlenberg M, Elder JT, Gudjonsson JE. Transcriptional

determinants of individualized inflammatory responses at anatomically separate sites.

Journal of Allergic and Clinical Immunology. In press

40. Dand N*, Mucha S*, Tsoi LC*, Mahil SK, Stuart PE, Arnold A, et al. Exome-wide

association study reveals novel psoriasis susceptibility locus and rare protective alleles in

genes contributing to type I IFN signaling. Human Mol Genet. 2017 Nov 26(21): 4301-

4313


Review/Book chapter 1. Raja K, Patrick M, Gao Y, Madu D, Yang Y, Tsoi LC#. A Review of Recent Advancement

in Integrating Omics Data with Literature Mining towards Biomedical Discoveries. Int J

Genomics. 2017;2017:6213474.

2. Johnston A, Sarkar MK, Vrana A, Tsoi LC, Gudjonsson JE. Molecular Revolution

Milestone: Era of global transcriptional analysis. Journal of Investigative Dermatology.

2017 May;137(5):e87-r91.

3. Liang Y, Sarkar MK, Tsoi LC, Gudjonsson JE. Psoriasis: a mixed autoimmune and

autoinflammatory disease. Curr Opin Immunol. 2017 Jul 21:49:1-8.

4. Stuart PE, Tsoi LC, Hambro CA, Elder JT. Genetics of Psoriais. Textbook of Psoriatic

Arthritis. Chapter 5. Oxford

5. Guo Y, Townsend R, Tsoi LC#. Simple analysis of deposited gene expression datasets for

the non-bioinformatician: how to use GEO for fibrosis research. 2017. Fibrosis. Methods

Mol Biol. Vol 1627. Humana Press, New York, NY

*Equal contributions

#Corresponding author

Conference Abstracts

1. Tsoi, LC, Sancho G (2004) Behavioral analyses of Thermarces cerberus in hydrothermal

vents. South Carolina Academy of Sciences, Charleston, SC

2. Tsoi, LC, de Buron I (2004) Survivorship and the possible intermediate host of

philometrid nematode Margolisianum bulbosum. Undergraduate Research Symposium,

College of Charleston, Charleston, SC.

3. Tsoi, LC, de Buron I (2004) Survivorship and development of philometrid nematode

Margolisianum bulbosum. College of Charleston Convocation for SUR awardees,

College of Charleston, Charleston, SC.

4. Tsoi, LC, Connors V, de Buron I (2005) Lifespan and infectivity of the philometrid

nematode Maragolisianum bulbosum larvae. Southeastern Society of Parasitologists,

Charleston, SC.

5. Tsoi LC, Zheng WJ (2006) Using array data type to store microarray data in an object-

relational database--PostgreSQL. Medical University of South Carolina Student Research

Day, Charleston, SC.

6. Tsoi LC, Zheng WJ (2007) Using array data type to store microarray data in object-

relational database--PostgreSQL. 3rd SC-INBRE Bioinformatics Research Symposium at

Clemson University, SC.

7. Tsoi LC, Zheng WJ (2007) A method of microarray data storage using array data type.

National Library of Medicine Informatics Training conference. Stanford University,

Stanford, CA.


8. de buron I, Bryan TP, Tsoi, LC (2007) Development and Pathogenicity of Philometra

overstreeti and Philometroides paralichthydis in the cyclopoid copepod Oithona

colcarva. 7th International Symposium on fish parasites, Viterbo, Italy.

9. Tsoi LC, Watson, D, Zheng WJ (2007) Identification of genes with common differential

expression pattern across different metastatic microarray data. 8th International

Conference of Systems Biology, Long Beach, CA.


expression pattern across different metastatic microarray data. 7th Medical University of

South Carolina Hollings Cancer center Annual Scientific Research Retreat, Charleston,

SC.


expression pattern across different metastatic microarray data. National Library of

Medicine Informatics Training Conference. NIH Campus, Bethesda, MD.

12. Tsoi LC, Boehnke M, Klein, RL, Zheng WJ (2008) Ontology fingerprints to

quantitatively characterize genes and diseases for genome wide association study. 56th

American Society of Human Genetics Annual Meeting, Philadelphia, PA.

13. Tsoi LC, Alberg AJ, Boehnke M, Zheng WJ (2009) Assessment of genome-wide

association study results of Lung Cancer by combining ontological data with biomedical

literature. Medical University of South Carolina Hollings Cancer Center Spring

Symposium, Charleston, SC.

14. Tsoi LC, Boehnke M, Klein, RL, Zheng WJ (2009) Ontology finger prints to

quantitatively characterize genes and diseases for genome wide association study.

National Library of Medicine Informatics Training conference. Oregon Health & Science

University, Portland, OR.

15. Zheng WJ, Tsoi LC, Boehnke M, Klein, RL (2009) Using Ontology Fingerprints to

evaluate genome-wide association study results. International Conference of Biomedical

Ontology, University at Buffalo, Buffalo, NY.

16. Qin T, Tsoi LC, Lawson, A, Zheng WJ (2009) A bayesian hierarchical model to derive

novel gene networks from gene ontology fingerprints. International Conference of

Biomedical Ontology, University at Buffalo, Buffalo, NY.

17. Spain SL, Li Y, Knight J, Tsoi LC, Stuart PH, Ellinghaus E, Kang HM, Chen W, Tejasvi

T, Barker J, Abecasis GR, Nair RP, Elder JT, Franke A, and Trembath R (2011) A meta-

analysis of Genome-Wide Association studies in psoriasis identifies additional

susceptibility loci. The Genomics of Common Diseases Meeting 2011 in HInxton,

Cambridge, UK.

18. Tsoi LC, Nair R, Li B, Ding J, Gudjonsson J, Stuart PE, Tejasvi T, Kang HM Abecasis

G, Elder JT (2011) Large-scale transcriptome analysis using RNA-seq reveals new

insights into psoriasis biology. 61st Annual Meeting of the American Society of Human

Genetics in Montreal, Canada.

19. Nair RP, Ellinghaus E, Tsoi LC, Esko, T, Stuart PH, Tejasvi T, Li B, Chandran V, Pellett

F, Peddle L, Weichenthal M, Weidinger S, Mrowietz U, Balschun T, Voorhees J,

Abecasis GR, Rahman P, Gladman DD, Franke A, Elder J (2011) Replication of eighteen

psoriasis genetic associations in Caucasians. Psoriasis: from Gene to Clinic 2011,


London, UK.

20. Tsoi LC, West S, Knight J, Ellinghaus E, et al (2012) Fifteen novel psoriasis

susceptibility loci: Disease-specific signals highlight the role of innate immunity. 62nd

Annual Meeting of the American Society of Human Genetics, San Francisco, CA.

21. Lambert S, Swindell WR, Tsoi LC, Drumright BL, Stoll SW, Nair RP, Elder JT (2013)

Gene expression signature of TRAF3IP2-silenced keratinocytes reveals unexpected

effects on KC differentiation and cytokine responses. 2013 Annual Meeting of

International Investigative Dermatology, Edinburgh, Scotland.

22. Tejasvi T, Tsoi LC, Stuart PE, Nair RP, Voorhees JJ, Elder JT (2013) Transcriptome

analysis reveals that severity of psoriasis is correlated with expression of genes involved

in epidermal differentiation and proliferation. 2013 Annual Meeting of International

Investigative Dermatology, Edinburgh, Scotland.

23. Nair RP, Tsoi LC, Stuart PE, Chandran V, Tejasvi T, Ellinghaus E, Voorhees JJ,

Weichenthal M, Franke A, Abecasis GR, Rahman P, Gladman D, Elder JT (2013) Meta-

analysis of psoriasis and psoriatic arthitis identifies three new susceptibility loci. 2013

Annual Meeting of International Investigative Dermatology, Edinburgh, Scotland.

24. Tsoi LC, Iyer MK, Stuart PE, Tejasvi T, Li B, Ding J, Gudjonsson JE, Kang HM, Nair

RP, Chinnaiyan A, Abecasis GR, Elder JT (2013) Transcriptional profiling of lncRNAs

reveals important biological roles in psoriasis. 63rd Annual Meeting of the American

Society of Human Genetics, Boston, MA.

25. Nair RP, Tsoi LC, Ghosh M, Kaba M, Tejasvi T, Stuart PE, Voorhees JJ, Abecasis GR,

Sharma VK, Elder JT (2014) Genome wide association study of psoriasis in India.

Annual meeting of the Society of Investigative Dermatology, Albuquerque, NM.

26. Rittie L, Tejasvi T, Tsoi LC, Swindell WR, Nair RP, Elder JT (2014) Microanatomy of

psoriasis: Sebaceous gland atrophy contributes to downregulation of lipid metabolism

genes. Annual meeting of the Society of Investigative Dermatology in Albuquerque, NM.

27. Tsoi LC, Elder JT, Abecasis GR. (2014) Graphical algorithm for integration of genetic

and biological data: Proof of principle using psoriasis as a mode. 64th Annual Meeting

of the American Society of Human Genetics in San Diego, CA.

28. Elder JT, Tsoi LC, Iyer MK, Start PE, et al (2015) Analysis of long non-coding RNAs

highlights tissue-specific expression patterns and epigenetic profiles in normal and

psoriatic skin. Society for Investigative Dermatology annual meeting in Atlanta, GA.

29. Niehues H, Tsoi LC, Rodijk-Olthuis D, van Vlijmen-Willems IMJJ, van den Bogaard

EH, Zeeuwen PLJM Elder JT, Schalkwijk J (2015) LCE3B/C deletion – more than just a

loss of two proteins. Gordon Research Conference: Barrier Function of Mammalian Skin

in Waterville Valley, NH.

30. Tsoi LC, Spain SL, Ellinghaus E, Stuart PE, Esko T, Pers T, et al. (2015) Fine mapping

of psoriasis susceptibility loci: Enrichment of pro-inflammatory genomic marks in

lymphocytes and keratinocytes. American Society of Human Genetics annual meeting

Baltimore, MD.

31. Tsoi LC, Stuart P, Tian C, Gudjonsson JE, Hinds D, Nair R, Abecasis G, Elder J. (2016)

Large scale meta-analysis characterizes genetic architecture for common psoriasis-

associated variants. Society for Investigative Dermatology, Scottsdale, AZ.


32. Sarkar MK, Tsoi LC, Kaplan N, Xing X, Liang Y, Hoover P, Voorhees JJ, Nair R, Elder

JT, Johnston A, Getsios S, Gudjonsson JE. (2016) Localized steroid deficiency in

psoriatic skin maintains inflammatory state and prevents restoration of epidermal

differentiation. Society for Investigative Dermatology, Scottsdale, AZ.

33. Sarkar MK, Tsoi LC, Xing X, Liang Y, Voorhees JJ, Harms PW, Stannard J, Stoll SW,

Elder J, Johnston A, Getsios S, Kahlenberg JM, Gudjonsson JE. (2016) Autocrine IFN-κ

maintains baseline type I interferon responses in keratinocytes in a Tyk2 dependent

manner. Society for Investigative Dermatology, Scottsdale, AZ.

34. Liang Y, Tsoi LC, Xing X, Sarkar MK, Voorhees JJ, Harms PW, Kahlenberg JM,

Gudjonsson JE. (2016) VGLL3 is a key regulator of gender biased transcriptome changes

and may explain female bias in lupus and other autoimmune diseases. Society for

Investigative Dermatology, Scottsdale, AZ.

35. Enerbäck C, Sandin C, Lambert S, Zawistowski M, Tsoi LC, Nair R, Johnston A, Elder

J. (2016) The protective TYK2 I684S variant impairs IL-12 stimulated p-STAT4

response in skin-homing CD4+ and CD8+ memory T-cells. Society for Investigative

Dermatology, Scottsdale, AZ.

36. Tsoi LC, Nair RP, Ghosh M, Kabra M, Tejasvi T, Stuart PE, Voorhees JJ, Wen X, Kang

HM, Abecasis GR, Elder JT. (2016) Trans-ethnic genetic association studies facilitate the

mapping of novel psoriasis susceptibility loci with higher resolution. American Society of

Human Genetics annual meeting, Vancouver, Canada.

37. Ahn RS, Vukcevic D, Motyer A, Ellinghaus D, Tsoi LC, Nair RP, Oksenberg J, Palmer

C, Foerster J, Elder JT, Franke A, Leslie S, Liao W. (2016) Large-scale imputation of

KIR genes in psoriasis case-control cohorts. American Society of Human Genetics annual

meeting, Vancouver, Canada.

38. Raja K, Patrick M, Elder JT, Tsoi LC. (2016) Machine learning workflow to enhance

predictions of adverse drug reactions through drug-gene interactions for cutaneous

diseases. International Conference on Intelligent Biology and Medicine, Houston, TX.

39. Tsoi LC, Yang J, Liang Y, Sarkar MK, Xing X, Beamer MA, Aphale A, Raja K, Kozlow

J, Getsois S, Voorhees JJ, Kahlenberg JM, Elder JT, Gudjonsson JE: (2017)

Determinants of intra-individual transcriptional homogeneity in inflammatory responses

at anatomically separate sites. J Invest Dermatol, 137, 5S Suppl 1, S90. Society for

Investigative Dermatology, Portland, OR.

40. Patrick MT, Stuart PE, Raja K, Gudjonsson JE, Tejasvi T, Voorhees JJ, Gladman DD,

Nair RP, Elder JT, Tsoi LC: (2017) Genetic signature to assess risk of psoriasis subtypes

through machine learning approach. J Invest Dermatol, 137, 5S Suppl 1, S83. Society for

Investigative Dermatology, Portland, OR.

41. Beamer MA, Swindell WR, Tsoi LC, Tsou P, Li Y, Sarkar MK, Xing X, Liang Y, Fisher

GJ, Gudjonsson JE: (2017) High resolution transcriptome profiling identifies gene

expression signatures unique to normal human keratinocytes, dermal fibroblasts, and

endothelial cells. J Invest Dermatol, 137, 5S Suppl 1, S89. Society for Investigative

Dermatology, Portland, OR.

42. Swindell WR, Michaels K, Sutter A, Diaconu D, Fritz Y, Xing X, Sarkar MK, Liang Y,

Tsoi LC, Gudjonsson JE, Ward NL: (2017) Imiquimod has strain-dependent effects in


mice and does not uniquely model human psoriasis. J Invest Dermatol, 137, 5S Suppl 1,

S111. Society for Investigative Dermatology, Portland, OR.

43. Liang Y, Tsoi LC, Xing X, Beamer MA, Sarkar MK, Voorhees JJ, Harms PW,

Kahlenberg JM, Gudjonsson JE: (2017) VGLL3 is a key regulator of transcriptome

changes in gender biased autoimmune conditions. J Invest Dermatol, 137, 5S Suppl, S2.

Society for Investigative Dermatology, Portland, OR.

44. Zhou Xu-Jie*, Tsoi LC*, He K, Wang Y, Zhang Y, Ju W, Berthier CC, Zhang H: (2017)

Association analysis for glomerulonephritis to identify shared and unique genetic

signatures. University of Michigan Health System-Peking university Health Science

Center Joint Institute for Translational and Clinical Research 7th annual symposium,

Beijing, China.

45. Patrick MT, Stuart PE, Raja K, Gudjonsson JE, Tejasvi T, Voorhees JJ, Gladman DD,

Nair RP, Elder JT, Tsoi LC: (2017) Integrating health records and genetic signatures to

enhance Psoriatic Arthritis risk assessment. The 47th annual European Society of

Dermatological Research meeting, Salzburg, Austria.

lam c. tsoi (alex), m.s., ph.d.lam c. tsoi (alex), m.s., ph.d. 3 role: co-investigator past...

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