Mehmet Kocak, Ph.D. - UTHSC · Last Updated: February 2019 Mehmet Kocak, Ph.D. 66 N. Pauline...

Last Updated: February 2019

Mehmet Kocak, Ph.D. 66 N. Pauline Street, Suite 633, Office 622

Division of Biostatistics

Department of Preventive Medicine

College of Medicine

University of Tennessee Health Science Center

Memphis, TN 38105

(901) 448-2937 (Work)

[email protected];

ACADEMIC DEGREES

January 2007-August 2011

Ph.D. in Applied Statistics

Dissertation Title: Bayesian and Meta- Analyses of Cell-Cycle Gene Expression Data

Advisor: Dr. Ebenezer O. George

University of Memphis, Memphis, TN, USA

Jan 1998-Dec-1999

M.Sc. in Applied Statistics

Michigan State University, East Lansing, MI, USA

Sep. 1991-March 1996

B.Sc. in Statistics

Hacettepe University, Ankara, Turkey

PROFESSIONAL APPOINTMENTS

07/2015-Present: Associate Professor of the Division of Biostatistics and Epidemiology) at the Department

of Preventive Medicine in the College of Medicine at University of Tennessee Health Sciences

Center (UTHSC) (http://www.uthsc.edu/prevmed/faculty.php )

My responsibilities include 70% collaborative/methodological research, 20% teaching, and 10%

university-wide service at various committees.

08/2011-06/2015: Assistant Professor of the Division of Biostatistics and Epidemiology) at the Department

of Preventive Medicine in the College of Medicine at University of Tennessee Health Sciences

Center (UTHSC) (http://www.uthsc.edu/prevmed/faculty.php )

My responsibilities include 70% collaborative/methodological research, 25% teaching, and 5%

university-wide service at various committees.

mailto:[email protected]

http://www.uthsc.edu/prevmed/faculty.php

http://www.uthsc.edu/prevmed/faculty.php

Kocak, Mehmet

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Collaborative Research within Pediatric Brain Tumor Consortium (PBTC)

Develop statistical designs for Phase-I and Phase-II clinical trials within Pediatric Brain Tumor

Consortium (PBTC). Responsibilities include but not limited to sample size and power

calculations, writing analysis plans for primary and secondary objectives, constructing stopping

rules and performing simulation studies to check the operating characteristics of various design

parameters.

For Phase-I trials, monitor and provide dose escalation/de-escalation decisions for various designs

including CRM (Continual Reassessment Method) and Traditional Dose Escalation design,

communicating dose-escalation decisions to study chairs; and performing simulation studies to

inform the decision-making process in trial design and operation.

For Phase-II trials, monitor trials for early stopping rules and interim analyses as well as analyzing

the data to address the primary objectives and correlative study objectives such as biology and

neuroimaging studies. .

Prepare Semiannual Meeting Book Reports for PBTC membership and for PBTC DSMB; this

includes but not limited to generating toxicity and adverse events tables, providing Biostatistician’s

and Executive Summaries, describing outstanding issues with the protocol, and addressing DSMB

comments and questions from the previous meeting.

Collaborative Research within UTHSC:

Provide statistical support for retrospective and prospective studies conducted by UTHSC

researchers to produce abstracts, manuscripts, and grant proposals.

Initiate and support grant proposals within UTHSC as well as within its affiliates and other local

research institutions.

Collaborate with UTHSC investigators and investigators from its affiliates such as St. Jude CHR,

Le Bonheur, the Region One, VA, and University of Memphis.

I have been the coordinating biostatistician since January 2012 for the CANDLE (Conditions

Affecting Neurocognitive Development and Learning in Early Childhood) study as well as its

ancillary study ‘Pregnancy folate status & early childhood respiratory & atopic disease outcomes.’

I am also the biostatistician for the FitBlue (Dissemination of the Look Ahead Weight

Management Treatment in the Military (FitBlue)) study.

Teaching/Mentoring:

I am currently teaching the following graduate courses

BIOE-847 titled “Advanced SAS Programming”

BIOE-862 titled ‘Advanced Categorical Data Analysis Techniques for Epidemiology’

I have served or I am serving on the following thesis/dissertation committees and postdoctoral visits:

Member of the Master’s thesis committee of Angela Zhang at UTHSC. Her thesis title was

‘Bone Properties of Recombinant Inbred Line – BXD Mouse’, which was successfully

defended in 2013.

Director of the post-doctoral visit program for Dr. Mehmet Mendes of Canakkale 18-Mart

University, Turkey, during June-September 2012.

Director of the post-doctoral visit program for Dr. Mehmet Mendes of Canakkale 18-Mart

University, Turkey. Dr. Mendes’s research topic was ‘Comparisons of Statistical Methods for

Time-course gene expression data’.

Member of the Ph.D. dissertation committee of Yazed Sulaiman Al-Ruthia at UTHSC. His

dissertation title was “The Value of Online Patients’ Evaluations of Medications and its

Kocak, Mehmet

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Association with Patient-Reported Outcomes among Elderly: A Cross-Sectional Study”,

which was successfully defended on January 2015.

Co-director of the Ph.D. dissertation committee of Dr. Cem Akkus at University of Memphis

with a research title of ‘The Use of Geographic Information Systems in a Comparative

Neighborhood Analysis of Childhood Lead Poisoning Looking for Distinct Patterns of Health

Disparities in Shelby County, Tennessee’, which was successfully defended in July 2016.

A Master’s thesis committee of Dr. Noam Vanderwalde titled ‘Phase 2 Randomized Study of

a Walking Intervention for Radiation-related Fatigue among Older Breast Cancer Patients

receiving Radiation’, which was successfully defended in March 2017.

I have also provided ad-hoc training on SAS Programming and selected statistical applications

to the statisticians and data analysts in the department of Preventive Medicine.

10/2002-08/2011: Lead senior Biostatistician at St. Jude Children's Research Hospital (SJCRH), Memphis,

TN (www.stjude.org )

(Started working for St. Jude as a Statistical Analyst-I in 2002; I was promoted to

Statistical Analyst-II, Biostatistician, Senior Biostatistician, and Lead Senior

Biostatistician levels during my 9 years at St. Jude.)

Responsible for developing statistical designs for Phase-I and Phase-II clinical trials within

Pediatric Brain Tumor Consortium (PBTC) and within St. Jude. Responsibilities include but not

limited to sample size and power calculations, writing analysis plans for primary and secondary

objectives, constructing stopping rules and performing simulation studies to check the operating

characteristics of various design parameters.

For Phase-I trials, responsible for monitoring and issuing dose escalation/de-escalation decisions

for various designs including CRM (Continual Reassessment Method) and Traditional Dose

Escalation design, communicating dose-escalation decisions to study chairs; and performing

simulation studies to inform the decision-making process in trial design and operation.

For Phase-II trials, responsible for closely monitoring trials for early stopping rules and interim

analyses as well as analyzing the data to address the primary objectives and correlative study

objectives such as biology and neuroimaging studies. .

Responsible for preparing Semiannual Meeting Book Reports for PBTC membership and for

PBTC DSMB; this includes but not limited to generating toxicity and adverse events tables,

providing Biostatistician’s and Executive Summaries, describing outstanding issues with the

protocol, and addressing DSMB comments and questions from the previous meeting.

Working on various brain tumor projects with the clinical investigators of SJCRH; my

responsibilities include but not limited to initial and continual discussions with investigators, study

design, database construction, data analysis at any level, reporting the study results and preparing

the study manuscript to be submitted to pear-reviewed journals preparation and submission.

Working on analyzing data from various COG studies and preparing for publication.

Attending Brain Tumor Team meetings. Representing the Department of Biostatistics in Brain

Tumor Meetings.

01/2009-05/2010: Adjunct Faculty at Department of Economics in Fogelman College of Business and

Economics at University of Memphis, Memphis, TN

(http://www.memphis.edu/economics/ )

Developed and taught two SAS courses, namely, Programming Concepts/Techniques (ECON-

4520) and Data to Information (ECON-4530)

http://www.stjude.org/

http://www.memphis.edu/economics/

Kocak, Mehmet

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12/2001-08/2002: Biostatistician at Data Coordinating Center, MSU, East Lansing, MI

(http://www.rad.msu.edu/DNN/notdnn/research/DCC/pages/staff.htm )

As primary statistical contact for the client, developed and selected appropriate statistical

techniques for the design and analysis of clinical research projects, reporting to the head of

Biostatistics Group;

Used SAS for data management and statistical data analysis;

Successfully completed simultaneous large projects.

05/1999-08/2002: Fixed-Term Faculty/Teaching Assistant at Michigan State University, East Lansing, MI

(http://stt.msu.edu/ )

Developed and taught introductory statistics and probability courses

Used MINITAB as a supplementary statistical package.

06/2000-09/2002: Adjunct Faculty at Community College, Lansing, MI (http://www.lcc.edu/ )

Developed and taught introductory statistics and probability courses for business and non-business

majors;

Taught both Microsoft Excel and SPSS as statistics software packages.

03/1999-08/2002: Scoring supervisor at National Computer Services (NCS Pearson),

Lansing, MI (http://www.ncspearson.com/ )

Supervised teams of 9-12 scorers to keep the quality and accuracy of scoring open-ended test items

and efficiency as high as possible, and trained new scorers on a particular test item.

Trained scorers on new open-ended test items.

01/1999-05/1999: Computer Service Assistant at Michigan State University, East Lansing, MI

Assisted computer users in Microcomputer Labs at MSU (www.msu.edu )

07/1993-07/1997: Manager at Knowledge Education and Social Research Foundation, Ankara, Turkey

Kept track of financial documents of the foundation and its publishing company, and played a key

role in the publishing activities of the foundation which included books, magazines, and brochures.

ASSOCIATION MEMBERSHIP

American Statistical Association (ASA), member since 1999

Western Tennessee Chapter of ASA (WTASA), Elected President 2012-2016, and member since 2002

International Biometric Society (IBS)-Eastern North American Region (ENAR), member since 2004

Memphis SAS Users Group, President 2012-2016, member since 2002

Pleasant View School, Board of Directors, Current Treasurer and elected board member since 2010

http://www.rad.msu.edu/DNN/notdnn/research/DCC/pages/staff.htm

http://stt.msu.edu/

http://www.lcc.edu/

http://www.ncspearson.com/

http://www.msu.edu/

Kocak, Mehmet

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PUBLICATIONS

Paladino A, Anderson JN, Graff C, Krukowski R, Blue R, Jones T, Buzaglo J, Kocak M, Vidal G, Graetz I. A qualitative exploration

of race-based differences in social support needs of diverse women with breast cancer on adjuvant therapy. Psycho-oncology. 2019

Jan 12.

Zunsong Hu, Frances A Tylavsky, Joan C Han, Mehmet Kocak, Jay H Fowke, Robert L Davis, Kaja Lewinn, Nicole R Bush, Qi

Zhao. Maternal metabolic factors during pregnancy predict early childhood growth trajectories and obesity risk: the CANDLE

Study. International Journal of Obesity. Jan 31 2019

Rowe AS, Hawkins B, Hamilton LA, Ferrell A, Henry J, Wiseman BF, Skovran SA, Mosadegh MS, Hare ME, Kocak M, Tolley

E. Contrast-Induced Nephropathy in Ischemic Stroke Patients Undergoing Computed Tomography Angiography: CINISter Study.

Journal of Stroke and Cerebrovascular Diseases. 2018 Dec 7.

Fahey MC, Klesges RC, Kocak M, Wayne Talcott G, Krukowski RA. Changes in the Perceptions of Self‐weighing Across Time

in a Behavioral Weight Loss Intervention. Obesity. 2018 Oct;26(10):1566-75.

Krukowski RA, Hare ME, Talcott GW, Gladney LA, Johnson KC, Richey PA, Kocak M, Keller PL, Hryshko‐Mullen A, Klesges

RC. Dissemination of the look AHEAD intensive lifestyle intervention in the United States military: a randomized controlled trial.

Obesity. 2018 Oct;26(10):1558-65.

Sanjaya Kumar Satapathy, Andrew Dyer, Wesley Angel, Humberto C Gonzalez, Anna V Jones, Satish Kedia, Yu Jiang, Nosratollah

Nezakatgoo, Ryan Helmick, Peter Horton, Jason M Vanatta, De La Borbolla, Luis Campos, Uchenna Agbim, Mehmet Kocak,

Simonne S Nouer, Benedict J Maliakkal, Satheesh Nair, James D Eason, Hollis Halford. Ex Vivo Magnetic Resonance Imaging

(MRI) Proton Density Fat Fraction (PDFF) of Human Donor Livers Accurately Quantifies Steatosis: A Proof of Concept Study.

HEPATOLOGY. Oct 1 2018

Ramirez KA, Choudhri AF, Patel A, Lenny NT, Thompson RE, Greenberg LB, Watson NC, Kocak M, DeVincenzo JP. Comparing

molecular quantification of herpes simplex virus (HSV) in cerebrospinal fluid (CSF) with quantitative structural and functional

disease severity in patients with HSV encephalitis (HSVE): Implications for improved therapeutic approaches. Journal of Clinical

Virology. 2018 Oct 1;107:29-37.

Fahey MC, Hare ME, Talcott GW, Kocak M, Hryshko-Mullen A, Klesges RC, Krukowski RA. Characteristics Associated With

Participation in a Behavioral Weight Loss Randomized Control Trial in the US Military. Military medicine. 2018 Aug 14.

Kocak M, Mozhui K. An Application of The Bayesian Periodicity Test to Identify Diurnal Rhythm Genes in the Brain. IEEE/ACM

transactions on computational biology and bioinformatics. 2018 Jul 25.

Satapathy SK, Das K, Kocak M, Helmick RA, Eason JD, Nair S, Vanatta JM. No Apparent Benefit of Preemptive Sorafenib

Therapy in Liver Transplant Recipients with advanced HCC on Explant. Clinical transplantation. 2018 Mar 26.

Kocak M, Krukowski R, Talcott GW. Processing and Cleaning Streaming Data in SAS. PhamaSUG May 2018

Fahey M, Klesges RC, Kocak M, Talcott G, Wang J, Krukowski R. Seasonal Patterns of Weight Gain in Weightloss Treatment

Seeking Adults. Annals of Behavioral Medicine. 2018 Apr 1 (Vol. 52, pp. S319-S319). JOURNALS DEPT, 2001 EVANS RD,

CARY, NC 27513 USA:

VanderWalde NA, Martin MY, Kocak M, Morningstar C, Deal AM, Nyrop KA, Farmer M, Ballo MT, Schwartz DL, Muss HB.

Phase 2 randomized study of a walking intervention for radiation-related fatigue among older breast cancer patients receiving

radiation.

Kocak, Mehmet

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PUBLICATIONS

Meduri GU, Bridges L, Siemieniuk RA, Kocak M. An Exploratory Reanalysis of the Randomized Trial on Efficacy of

Corticosteroids as Rescue Therapy for the Late Phase of Acute Respiratory Distress Syndrome. Critical care medicine. 2018 Feb

27.

Kilburn LB, Kocak M, Baxter P, Poussaint TY, Paulino AC, McIntyre C, Lemenuel‐Diot A, Lopez‐Diaz C, Kun L, Chintagumpala

M, Su JM. A pediatric brain tumor consortium phase II trial of capecitabine rapidly disintegrating tablets with concomitant radiation

therapy in children with newly diagnosed diffuse intrinsic pontine gliomas. Pediatric blood & cancer. 2018 Feb 1;65(2).

Nguyen AK, Murphy LE, Kocak M, Tylavsky FA, Pagani LS. Prospective Associations Between Infant Sleep at 12 Months and

Autism Spectrum Disorder Screening Scores at 24 Months in a Community-Based Birth Cohort. The Journal of clinical psychiatry.

2018 Jan;79(1).

Vereen S, Gebretsadik T, Johnson N, Hartman TJ, Veeranki SP, Piyathilake C, Mitchel EF, Kocak M, Cooper WO, Dupont WD,

Tylavsky F. Association Between Maternal 2nd Trimester Plasma Folate Levels and Infant Bronchiolitis. Maternal and Child Health

Journal. 2018 Jan 1.

Vereen S, Kocak M, Potukuchi PK, Hartman TJ, Tylavsky F, Carroll KN. The association of maternal prenatal vitamin D levels

and child current wheeze. Annals of Allergy, Asthma & Immunology. 2018 Jan 1;120(1):98-9.

Gururangan S, Reap E, Schmittling R, Kocak M, Reynolds R, Grant G, Onar-Thomas A, Baxter P, Pollack IF, Phillips P, Boyett

J. Regulatory T cell subsets in patients with medulloblastoma at diagnosis and during standard irradiation and chemotherapy (PBTC

N-11). Cancer Immunology, Immunotherapy. 2017 Dec 1;66(12):1589-95.

Roy A, Kocak M, Hartman TJ, Vereen S, Adgent M, Piyathilake C, Tylavsky FA, Carroll KN. Association of prenatal folate status

with early childhood wheeze and atopic dermatitis. Pediatric Allergy and Immunology. 2017 Nov 23.

Schaapveld-Davis CM, Negrete AL, Hudson JQ, Saikumar J, Finch CK, Kocak M, Hu P, Van Berkel MA. End-Stage Renal Disease

Increases Rates of Adverse Glucose Events When Treating Diabetic Ketoacidosis or Hyperosmolar Hyperglycemic State. Clinical

Diabetes. 2017 Oct 1;35(4):202-8.

Maclin-Akinyemi C, Krukowski RA, Kocak M, Talcott GW, Beauvais A, Klesges RC. Motivations for Weight Loss Among Active

Duty Military Personnel. Military medicine. 2017 Sep 1;182(9-10):e1816-23.

Zukotynski KA, Vajapeyam S, Fahey FH, Kocak M, Brown D, Ricci KI, Onar-Thomas A, Fouladi M, Poussaint TY. Correlation

of 18F-FDG PET and MRI Apparent Diffusion Coefficient Histogram Metrics with Survival in Diffuse Intrinsic Pontine Glioma:

A Report from the Pediatric Brain Tumor Consortium. Journal of Nuclear Medicine. 2017 Aug 1;58(8):1264-9.

Satapathy SK, Sheikh I, Ali B, Yahya F, Kocak M, Parsa L, Eason JD, Vanatta JM, Nair S. Long‐term outcomes of Early Compared

to Late Onset Choledocho‐choledochal Anastomotic Strictures after Orthotopic Liver Transplantation. Clinical transplantation.

2017 Jul 1.

Kocak M. Statistical Comparison of Growth Curve Models in First Years of Life in USA and Turkish Pediatric Populations. Ped

Health Res. 2017;2(2):2.

KOÇAK M. An Empirical Bayesian Approach in Estimating Odds Ratios for Rare or Zero Events. Turkiye Klinikleri Journal of

Biostatistics. 2017 Jan 1;9(1).

Masters, J., Kocak, M. and Waite, A., 2017. Risk for microbial keratitis: Comparative metaanalysis of contact lens wearers and

post-laser in situ keratomileusis patients. Journal of Cataract & Refractive Surgery, 43(1), pp.67-73.

Kocak, Mehmet

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PUBLICATIONS

Esbenshade, A.J., Kocak, M., Hershon, L., Rousseau, P., Decarie, J.C., Shaw, S., Burger, P., Friedman, H.S., Gajjar, A. and

Moghrabi, A., 2016. A Phase II feasibility study of oral etoposide given concurrently with radiotherapy followed by dose intensive

adjuvant chemotherapy for children with newly diagnosed high‐risk medulloblastoma (protocol POG 9631): A report from the

Children's Oncology Group. Pediatric Blood & Cancer.

Tongyoo, S., Permpikul, C., Mongkolpun, W., Vattanavanit, V., Udompanturak, S., Kocak, M. and Meduri, G.U., 2016.

Hydrocortisone treatment in early sepsis-associated acute respiratory distress syndrome: results of a randomized controlled

trial. Critical Care, 20(1), p.329.

TRAN, N.Q., KOÇAK, M. and MENDEŞ, M., 2017. Comparison of Commonly Used Methods for Testing Interaction Effect in

Time-Course Microarray Experiments. Turkiye Klinikleri Journal of Biostatistics, 9(1), pp.35-44.

Yigit, S., Kocak, M., Miragioglu, H., Mendes, M. A Simulation Study on Determining Appropriate Simulation Size Sylwan

160(8):1-15 · August 2016

Schlabritz‐Loutsevitch, N., Apostolakis‐Kyrus, K., Krutilina, R., Hubbard, G., Kocak, M., Janjetovic, Z., Sathanandam, S.,

Slominski, A.T., Mari, G. and Dick, E., 2016. Pregnancy‐driven cardiovascular maternal miR‐29 plasticity in obesity. Journal of

medical primatology, 45(6), pp.297-303.

Schlabritz-Loutsevitch NE, Comuzzie AG, Mahaney MM, Hubbard GB, Dick EJ, Kocak M, Gupta S, Carrillo M, Schenone M,

Postlethwaite A, Slominski A. Serum Vitamin D Concentrations in Baboons (Papio spp.) during Pregnancy and Obesity.

Comparative Medicine. 2016 Apr 1;66(2):137-42.

Nazemi KJ, Shen V, Finlay JL, Boyett J, Kocak M, Lafond D, Gardner SL, Packer RJ, Nicholson HS. High Incidence of Veno‐

Occlusive Disease With Myeloablative Chemotherapy Following Craniospinal Irradiation in Children With Newly Diagnosed

High‐Risk CNS Embryonal Tumors: A Report From the Children's Oncology Group (CCG‐99702). Pediatric blood & cancer. 2016

May 1.

Zukotynski K, Vajapeyam S, Fahey F, Kocak M, Brown D, Ricci K, Onar A, Fouladi M, Poussaint T. Correlation of FDG PET

and MR Apparent Diffusion Coefficient Histogram Metrics with Survival in Diffuse Intrinsic Pontine Glioma: A Report from the

Pediatric Brain Tumor Consortium. Journal of Nuclear Medicine. 2016 May 1;57(supplement 2):435-.

Al-Ruthia YS, Hong SH, Graff C, Kocak M, Solomon D, Nolly R. Examining the relationship between antihypertensive medication

satisfaction and adherence in older patients. Research in Social and Administrative Pharmacy. 2016 Jul 9.

Tylavsky FA, Kocak M, Murphy LE, Graff JC, Palmer FB, Völgyi E, Diaz-Thomas AM, Ferry RJ. Gestational Vitamin 25 (OH)

D Status as a Risk Factor for Receptive Language Development: A 24-Month, Longitudinal, Observational Study. Nutrients. 2015

Dec 2;7(12):9918-30.

Mehmet Kocak. Identifying Cyclic Genes in Time-Course Gene Expression Studies Using Proc Traj. Turkiye Klinikleri J Biostat

2015;7(2):47-54Epub 2013 Sep 19. doi: 10.5336/biostatic.2015-47362

AlRuthia YS, Hong SH, Graff C, Kocak M, Solomon D, Nolly R. Exploring the factors that influence medication rating Web sites

value to older adults: A cross-sectional study. Geriatr Nurs. 2015 Nov 9. pii: S0197-4572(15)00366-3. doi:

10.1016/j.gerinurse.2015.10.011. [Epub ahead of print] PMID: 26563919

Khan MA, Akbar A, Baron TH, Khan S, Kocak M, Alastal Y, Hammad T, Lee WM, Sofi A, Artifon EL, Nawras A, Ismail MK.

Endoscopic Ultrasound-Guided Biliary Drainage: A Systematic Review and Meta-Analysis. Dig Dis Sci. 2015 Oct 30. [Epub ahead

of print] PMID: 26518417

Kocak, Mehmet

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PUBLICATIONS

Satapathy SK, Eason JD, Nair S, Dryn O, Sylvestre PB, Kocak M, Vanatta JM. Recidivism in Liver Transplant Recipients With

Alcoholic Liver Disease: Analysis of Demographic, Psychosocial, and Histology Features. Exp Clin Transplant. 2015

Oct;13(5):430-40. PMID: 26450466

Meduri GU, Bridges L, Shih MC, Marik PE, Siemieniuk RA, Kocak M. Prolonged glucocorticoid treatment is associated with

improved ARDS outcomes: analysis of individual patients' data from four randomized trials and trial-level meta-analysis of the

updated literature. Intensive Care Med. 2015 Oct 27. [Epub ahead of print]

Poussaint TY, Vajapeyam S, Ricci KI, Panigrahy A, Kocak M, Kun LE, Boyett JM, Pollack IF, Fouladi M. Apparent diffusion

coefficient histogram metrics correlate with survival in diffuse intrinsic pontine glioma: a report from the Pediatric Brain Tumor

Consortium. Neuro Oncol. 2015 Oct 20. pii: nov256. [Epub ahead of print] PMID: 26487690

Hoffman LM, Fouladi M, Olson J, Daryani VM, Stewart CF, Wetmore C, Kocak M, Onar-Thomas A, Wagner L, Gururangan S,

Packer RJ. Phase I trial of weekly MK-0752 in children with refractory central nervous system malignancies: a pediatric brain

tumor consortium study. Child's Nervous System. 2015 Aug 1;31(8):1283-9.

Tuğran E, Kocak M, Mirtagioğlu H, Yiğit S, Mendes M. A Simulation Based Comparison of Correlation Coefficients with Regard

to Type I Error Rate and Power. Journal of Data Analysis and Information Processing. 2015 Jul 8;3(03):87.

Leary S, Kilburn L, Geyer JR, Olson JM, MacDonald T, Ellison D, Kocak M, Onar A, Ermoian R, Poussaint TY, Boyett JM. MB-

32FEASIBILITY OF VORINOSTAT COMBINED WITH ISOTRETINOIN AND CHEMOTHERAPY FOR YOUNG

CHILDREN WITH NEWLY DIAGNOSED EMBRYONAL BRAIN TUMORS: A PEDIATRIC BRAIN TUMOR

CONSORTIUM STUDY. Neuro-Oncology. 2015 Jun 1;17(suppl 3):iii27-.

Jakacki RI1, Burger PC, Kocak M, Boyett JM, Goldwein J, Mehta M, Packer RJ, Tarbell NJ, Pollack IF. Outcome and

prognostic factors for children with supratentorial primitive neuroectodermal tumors treated with carboplatin during radiotherapy:

A report from the Children's Oncology Group. Pediatr Blood Cancer. 2015 May;62(5):776-83. doi: 10.1002/pbc.25405. Epub

2015 Feb 19.

Zhang Y, Huang J, Jiao Y, David V, Kocak M, Roan E, Di'Angelo D, Lu L, Hasty KA, Gu W. Bone Morphology in 46 BXD

Recombinant Inbred Strains and Femur-Tibia Correlation. ScientificWorldJournal. 2015;2015:728278. doi:

10.1155/2015/728278. Epub 2015 Feb 25. PMID: 25811045

Lindsay B Kilburn, Mehmet Kocak, Rodney L Decker, Cynthia Wetmore, Murali Chintagumpala, Jack Su, Stewart Goldman,

Anuradha Banerjee, Richard Gilbertson, Maryam Fouladi, Larry Kun, James M Boyett, Susan M Blaney A phase 1 and

pharmacokinetic study of enzastaurin in pediatric patients with refractory primary central nervous system tumors: a pediatric

brain tumor consortium study.Neuro-Oncology 11/2014; DOI: 10.1093/neuonc/nou114. Impact Factor: 5.29

Uriyoán Colón-Ramos, Susan B Racette, Jody Ganiban, Thuy G Nguyen, Mehmet Kocak, Kecia N Carroll, Eszter Völgyi,

Frances A Tylavsky Association between Dietary Patterns during Pregnancy and Birth Size Measures in a Diverse Population in

Southern US. Nutrients 01/2015; 7(2):1318-32. DOI: 10.3390/nu7021318 Impact Factor: 3.15

Krukowski RA, Hare ME, Talcott GW, Johnson KC, Richey PA, Kocak M, Balderas J, Colvin L, Keller PL, Waters TM, &

Klesges RC. Dissemination of the Look AHEAD Lifestyle Intervention in the United States Air Force: Study Rationale, Design

and Methods. Contemporary Clinical Trials. (in press). Published online December 26, 2014, Impact Factor: 1.934

Mehmet Kocak. Meta-Analysis of Univariate P-values. Communications in Statistics - Simulation and Computation. Accepted

for publication on December 19, 2014. Impact Factor: 0.30

Mehmet Kocak. Meta-Analysis of Bivariate P values. World J Meta-Anal. 2014 November 26; 2(4): 179-185.Published online

2014 November 26.

Kocak, Mehmet

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PUBLICATIONS

Rabito FA, Kocak M, Werthmann DW, Tylavsky FA, Palmer CD, Parsons PJ. Changes in low levels of lead over the course of

pregnancy and the association with birth outcomes. Reprod Toxicol. 2014 Dec;50:138-44. doi: 10.1016/j.reprotox.2014.10.006.

Epub 2014 Oct 22. PMID: 25461912. Impact Factor: 2.77

Mulkern RV., Kelsey Ricci, Sridhar Vajapeyam, Thomas L. Chenevert, Dariya I. Malyarenko, Mehmet Kocak, Tina Young

Poussaint “Pediatric Brain Tumor Consortium Multi-site Assessment of Apparent Diffusion Coefficient z-Axis Variation

Assessed with an Ice Water Phantom” Accepted for publication in Academic Radiology Impact Factor: 2.125

Zukotynski K, Fahey F, Kocak M, Kun L, Boyett J, Fouladi M, Vajapeyam S, Treves T, Poussaint TY. "18F-FDG PET and MR

Imaging Associations Across a Spectrum of Pediatric Brain Tumors: A Report from the Pediatric Brain Tumor Consortium." J Nucl

Med. 2014 Sep;55(9):1473-80. doi: 10.2967/jnumed.114.139626. Epub 2014 Jul 28. Impact Factor: 5.774, Scopus Citations=0

Su JM, Thompson P, Adesina A, Li XN, Kilburn L, Onar-Thomas A, Kocak M, Chyla B, McKeegan E, Warren KE, Goldman S,

Pollack IF, Fouladi M, Chen A, Giranda V, Boyett J, Kun L, Blaney SM. “A phase I trial of veliparib (ABT-888) and temozolomide

in children with recurrent CNS tumors: a Pediatric Brain Tumor Consortium report”. Neuro Oncol. 2014 Jun 7. pii: nou103. [Epub

ahead of print]PubMed PMID: 24908656. Impact Factor: 6.18,

Smith AK, Varun Kilaru, Mehmet Kocak, Lynn M Almli, Kristina B Mercer, Kerry J Ressler, Frances A Tylavsky, Karen N

Conneely "Methylation quantitative trait loci (meQTLs) are consistently detected across ancestry, developmental stage, and tissue

type" BMC Genomics. 2014; 15: 145. Published online 2014 February 21. doi: 10.1186/1471-2164-15-145 Impact Factor: 4.4,

Scopus Citations=0

Qaddoumi I, Kocak M, Pai Panandiker AS, Armstrong GT, Wetmore C, Crawford JR, Lin T, Boyett JM, Kun LE, Boop FA,

Merchant TE, Ellison DW, Gajjar A, Broniscer A. “Phase II Trial of Erlotinib during and after Radiotherapy in Children with

Newly Diagnosed High-Grade Gliomas.” Front Oncol. 2014 Apr 1;4:67. doi: 10.3389/fonc.2014.00067. Scopus Citations=0

Strother DR, Lafay-Cousin L, Boyett JM, Burger P, Aronin P, Constine L, Duffner P, Kocak M, Kun LE, Horowitz ME, Gajjar A.

“Benefit from prolonged dose-intensive chemotherapy for infants with malignant brain tumors is restricted to patients with

ependymoma: a report of the Pediatric Oncology Group randomized controlled trial 9233/34.” Neuro Oncol. 2014 Mar;16(3):457-

65. doi: 10.1093/neuonc/not163. Epub 2013 Dec 12. Impact Factor: 6.18, Scopus Citations=0

Harris SM, Davis JC, Snyder SE, Butch ER, Vavere AL, Kocak M, Shulkin BL. Evaluation of the biodistribution of 11C-

methionine in children and young adults. J Nucl Med. 2013 Nov;54(11):1902-8. doi: 10.2967/jnumed.112.118125. Epub 2013 Sep

19. PubMed PMID: 24050936; PubMed Central PMCID: PMC3924715. Impact Factor: 5.774, Scopus Citations=0

Zukotynski KA, Fahey FH, Vajapeyam S, Ng SS, Kocak M, Gururangan S, Kun LE, Poussaint TY. "Exploratory Evaluation of

MR Permeability with 18F-FDG PET Mapping in Pediatric Brain Tumors: A Report from the Pediatric Brain Tumor Consortium."

J Nucl Med. 2013 Aug;54(8):1237-43. doi: 10.2967/jnumed.112.115782. Epub 2013 Jun 25. PMID: 23801675 Impact Factor:

5.774, Scopus Citations=2

Kilburn LB, Kocak M, Schaedeli Stark F, Meneses-Lorente G, Brownstein C, Hussain S, Chintagumpala M, Thompson PA,

Gururangan S, Banerjee A, Paulino AC, Kun L, Boyett JM, Blaney SM. “Phase I trial of capecitabine rapidly disintegrating tablets

and concomitant radiation therapy in children with newly diagnosed brainstem gliomas and high-grade gliomas.” Neuro Oncol.

2013 Jun;15(6):759-66. doi: 10.1093/neuonc/nos315. Epub 2013 Apr 16. Impact Factor: 5.286, Scopus Citations=0

Sedlacik J, Winchell A, Kocak M, Loeffler RB, Broniscer A, Hillenbrand CM. “MR Imaging Assessment of Tumor Perfusion and

3D Segmented Volume at Baseline, during Treatment, and at Tumor Progression in Children with Newly Diagnosed Diffuse

Intrinsic Pontine Glioma” AJNR Am J Neuroradiol. 2013 Feb 22. Impact Factor: 3.675, Scopus Citations=2

Kocak, Mehmet

Page 10 of 20

PUBLICATIONS

Kocak M, E Olusegun George, Saumyadipta Pyne, Stanley Pounds. “An Empirical Bayes Approach for Analysis of Diverse

Periodic Trends in Time Course Gene Expression Data.” Bioinformatics. 2013 Jan 15;29(2):182-8. doi:

10.1093/bioinformatics/bts672. Epub 2012 Nov 19. PMID: 23172863 Impact Factor: 4.621, Scopus Citations=0

Donahue B, Mary A. H. Marymont, Sandra Kessel, Matthew K. Iandoli, Thomas FitzGerald, Emiko Holmes, Mehmet Kocak,

James M. Boyett, Amar Gajjar, Roger J. Packer. “Radiation therapy quality in CCG/POG intergroup 9961: implications for

craniospinal irradiation and the posterior fossa boost in future medulloblastoma trials.” Front. Oncol., 11 December 2012 | doi:

10.3389/fonc.2012.00185

Kocak M & Arzu Onar-Thomas. “A Simulation Based Evaluation of the Asymptotic Power Formulae for Cox Models in Small

Sample Cases” The American Statistician 10/2012; 66(3):173-179. Impact Factor: 0.968, Scopus Citations=0

Blaney SM, Mehmet Kocak, Amar Gajjar, Murali Chintagumpala, Thomas Merchant, Mark Kieran, Ian F Pollack, Sri Gururangan,

Russ Geyer, Peter Phillips, Roger E McLendon, Roger Packer, Stewart Goldman, Anu Banerjee, Richard Heideman, James M

Boyett, Larry Kun. “Pilot study of systemic and intrathecal mafosfamide followed by conformal radiation for infants with

intracranial central nervous system tumors: a pediatric brain tumor consortium study (PBTC-001)” Accepted for publication in

Journal of NeuroOncology, 07/2012. Impact Factor: 2.787, Scopus Citations=2

Jakacki RI, Peter C Burger, Tianni Zhou, Emiko J Holmes, Mehmet Kocak, Arzu Onar, Joel Goldwein, Minesh Mehta, Roger J

Packer, Nancy Tarbell, Charles Fitz, Gilbert Vezina, Joanne Hilden, Ian F Pollack. “Outcome of Children With Metastatic

Medulloblastoma Treated With Carboplatin During Craniospinal Radiotherapy: A Children's Oncology Group Phase I/II Study“

Journal of Clinical Oncology (impact factor: 17.79). 06/2012; DOI:10.1200/JCO.2011.40.2792 Impact Factor: 18.038, Scopus

Citations=18

Qaddoumi I, Sane M, Li S, Kocak M, Pai-Panandiker A, Harreld J, Klimo P, Wright K, Broniscer A, Gajjar A. “Diagnostic utility

and correlation of tumor markers in the serum and cerebrospinal fluid of children with intracranial germ cell tumors” Child’s

Nervous System 05/2012; 28(7):1017-24 Impact Factor: 1.163, Scopus Citations=1

Pui CH, Pei D, Pappo AS, Howard SC, Cheng C, Sandlund JT, Furman WL, Ribeiro RC, Spunt SL, Rubnitz JE, Jeha S, Hudson

MM, Kun LE, Merchant TE, Kocak M, Broniscer A, Metzger ML, Downing JR, Leung W, Evans WE, Gajjar A. “Treatment

Outcomes in Black and White Children With Cancer: Results From the SEER Database and St Jude Children's Research Hospital,

1992 Through 2007” J Clin Oncol. 2012 Jun 1;30(16):2005-12. Epub 2012 Apr 30. Impact Factor: 18.038, Scopus Citations=18

Godfraind C, Kaczmarska JM, Kocak M, Dalton J, Wright KD, Sanford RA, Boop FA, Gajjar A, Merchant TE, Ellison DW.

“Distinct disease-risk groups in pediatric supratentorial and posterior fossa ependymomas” Acta Neuropathol. 2012 Apr 21. [Epub

ahead of print] Impact Factor: 9.777, Scopus Citations=13

Korff A, Brenda Pfeiffer, Michelle Smeyne, Mehmet Kocak, Ronald F. Pfeiffer, Richard Jay Smeyne. ‘Alterations in glutathione

S-transferase pi expression following exposure to MPP+-induced oxidative stress in the blood of Parkinson’s disease patients’

Parkinsonism & Related Disorders Volume 17, Issue 10, December 2011, Pages 765–768. Impact Factor: 3.27, Scopus

Citations=5

Fouladi M, Stewart CF, Olson J, Wagner LM, Onar-Thomas A, Kocak M, Packer RJ, Goldman S, Gururangan S, Gajjar A, Demuth

T, Kun LE, Boyett JM, Gilbertson RJ. “Phase I trial of MK-0752 in children with refractory CNS malignancies: a pediatric brain

tumor consortium study” J Clin Oncol. 2011 Sep 10; 29(26):3529-34. Epub 2011 Aug 8. Impact Factor: 18.038, Scopus

Citations=44

Ellison DW, Mehmet Kocak, Dominique Figarella-Branger, Felice Giangaspero, Catherine Godfraind, Torsten Pietsch, Didier

Frappaz, Maura Massimino, Jacques Grill, James M Boyett and Richard G Grundy, “Histopathological grading of pediatric

ependymoma: reproducibility and clinical relevance in European trial cohorts” Journal of Negative Results in BioMedicine

2011, 10:7 doi:10.1186/1477-5751-10-7. Impact Factor: 1.47, Scopus Citations=21

Kocak, Mehmet

Page 11 of 20

PUBLICATIONS

Zhao W, Boyett JM, Kocak M, Ellison DW, Wu Y. Maximum likelihood estimation of reviewers' acumen in central review

setting: categorical data. Theor Biol Med Model. 2011 Mar 25;8:3. doi: 10.1186/1742-4682-8-3. PubMed PMID: 21439071;

PubMed Central PMCID: PMC3077320. Impact Factor: 1.27, Scopus Citations=0

McLendon, RW. Adesina Adekunle, Veena Rajaram, Mehmet Kocak, Susan M. Blaney. “Embryonal Central Nervous System

Neoplasms Arising in Infants and Young Children: A Pediatric Brain Tumor Consortium Study” Arch Pathol Lab Med. 2011

Aug;135(8):984-93. Impact Factor: 1.78, Scopus Citations=2

Haas-Kogan DA, Anuradha Banerjee, Tina Young Poussaint, Mehmet Kocak, Michael D. Prados, J. Russell Geyer, Maryam

Fouladi, Alberto Broniscer, Jane E. Minturn, Ian F. Pollack, Roger J. Packer, James M. Boyett, and Larry E. Kun. “Phase II trial

of tipifarnib and radiation in children with newly diagnosed diffuse intrinsic pontine gliomas” Neuro Oncol. 2011

Mar;13(3):298-306. Impact Factor: 5,286, Scopus Citations=28

Ellison DW, Dalton J, Kocak M, Nicholson SL, Fraga C, Neale G, Kenney AM, Brat DJ, Perry A, Yong WH, Taylor RE, Bailey

S, Clifford SC, Gilbertson RJ. “Medulloblastoma: clinicopathological correlates of SHH, WNT, and non-SHH/WNT molecular

subgroups.” Acta Neuropathol. 2011 Mar;121(3):381-96. Epub 2011 Jan 26. Impact Factor: 9.777, Scopus Citations=89

Poussaint TY, Kocak M, Vajapeyam S, Packer RI, Robertson RL, Geyer R, Haas-Kogan D, Pollack IF, Vezina G, Zimmerman

R, Cha S, Patay Z, Boyett JM, Kun LE. “MRI as a central component of clinical trials analysis in brainstem glioma: a report

from the Pediatric Brain Tumor Consortium (PBTC).” Neuro Oncol. 2011 Feb 4. [Epub ahead of print] Impact Factor: 5,286,

Scopus Citations=11

Kocak M, Gaolin Zheng, Giri Narasimhan, E. Olusegun George, Saumyadipta Pyne, “Differential meta-analysis for testing the

relative importance of two competing null hypotheses over multiple experiments”, Special Issue on Statistical Genomics in Journal

of Indian Society of Agricultural Statistics. 2010; 64(1):1-10 NAAS Score: 5.50

Pollack IF, Clinton F. Stewart, Mehmet Kocak, Tina Young Poussaint, Alberto Broniscer, Anu Banerjee, James G. Douglas,

Larry E. Kun, James M. Boyett, J. Russell Geyer, “A Phase II Study of Gefitinib and Irradiation in Children with Newly Diagnosed

Brain Stem Gliomas: A Report from the Pediatric Brain Tumor Consortium” Neuro Oncol. 2011 Mar;13(3):290-7. Epub 2011 Feb

3. Impact Factor: 5,286, Scopus Citations=36

Zukotynski KA, Frederic H. Fahey, Mehmet Kocak, Abass Alavi, Terence Z. Wong, S. Ted Treves, Barry L. Shulkin, Daphne A.

Haas-Kogan, J. Russell Geyer, Sridhar Vajapeyam, James M. Boyett, Larry E. Kun, Tina Young Poussaint, “Evaluation of 18F-

FDG PET and MRI Associations in Pediatric Diffuse Intrinsic Brainstem Glioma: A Report from the Pediatric Brain Tumor

Consortium” J Nucl Med. 2011 Feb;52(2):188-95. Epub 2011 Jan 13. Impact Factor: 5,774, Scopus Citations=8

Löbel U, Sedlacik J, Reddick WE, Kocak M, Ji Q, Broniscer A, Hillenbrand CM, Patay Z. “Quantitative Diffusion-Weighted and

Dynamic Susceptibility-Weighted Contrast-Enhanced Perfusion MR Imaging Analysis of T2 Hypointense Lesion Components in

Pediatric Diffuse Intrinsic Pontine Glioma”, AJNR American Journal of Neuroradiolog., 2010 Nov 18. Impact Factor: 3.675,

Scopus Citations=9

Ellison DW, Kocak M, Dalton J, Megahed H, Lusher ME, Ryan SL, Zhao W, Nicholson SL, Taylor RE, Bailey S, Clifford SC.,

“Definition of Disease-Risk Stratification Groups in Childhood Medulloblastoma Using Combined Clinical, Pathologic, and

Molecular Variables”, Journal of Clinical Oncology. 2010 Oct 4. Impact Factor: 18.038, Scopus Citations=78

Broniscer A, Baker JN, Tagen M, Onar-Thomas A, Gilbertson RJ, Davidoff AM, Panandiker AP, Leung W, Chin TK, Stewart CF,

Kocak M, Rowland C, Merchant TE, Kaste SC, Gajjar A., “Phase I Study of Vandetanib During and After Radiotherapy in Children

With Diffuse Intrinsic Pontine Glioma”, Journal of Clinical Oncology. 2010 Oct 4. Impact Factor: 18.038, Scopus Citations=44

Kocak, Mehmet

Page 12 of 20

PUBLICATIONS

Löbel U, Sedlacik J, Sabin ND, Kocak M, Broniscer A, Hillenbrand CM, Patay Z., “Three-dimensional susceptibility-weighted

imaging and two-dimensional T2*-weighted gradient-echo imaging of intratumoral hemorrhages in pediatric diffuse intrinsic

pontine glioma”, Neuroradiology. 2010 Dec;52(12):1167-77. Epub 2010 Sep 28. Impact Factor: 5,286, Scopus Citations=13

Geyer JR, Stewart CF, Kocak M, Broniscer A, Phillips P, Douglas JG, Blaney SM, Packer RJ, Gururangan S, Banerjee A, Kieran

MW, Kun LE, Gilbertson RJ, Boyett JM., “A phase I and biology study of gefitinib and radiation in children with newly diagnosed

brain stem gliomas or supratentorial malignant gliomas”, European Journal of Cancer. 2010 Dec;46(18):3287-93. Impact Factor:

5,651, Scopus Citations=22

Fahey FH, Paul E. Kinahan, Robert K. Doot, Mehmet Kocak, Harold Thurston, Tina Young Poussaint. “Variability in PET

Quantitation within a Multicenter Consortium”, Medical Physics. 2010 Jul;37(7):3660-6. Impact Factor: 3.012, Scopus

Citations=26

Sedlacik J, Löbel U, Kocak M, Loeffler RB, Reichenbach JR, Broniscer A, Patay Z, Hillenbrand CM., “Attenuation of Cerebral

Venous Contrast in Susceptibility-Weighted Imaging of Spontaneously Breathing Pediatric Patients Sedated with Propofol”, AJNR

American Journal of Neuroradiology. 2010 May;31(5):901-6. Impact Factor: 3.675, Scopus Citations=9

Onar A, Kocak M, Boyett JM., “Continual reassessment method vs. traditional empirically based design: modifications motivated

by Phase I trials in pediatric oncology by the Pediatric Brain Tumor Consortium”, Journal of Biopharmaceutical Statistics.

2009;19(3):437-55. Impact Factor: 1.18, Scopus Citations=9

Miller NG, Reddick WE, Kocak M, Glass JO, Löbel U, Morris B, Gajjar A, Patay Z., “Cerebellocerebral diaschisis is the likely

mechanism of postsurgical posterior fossa syndrome in pediatric patients with midline cerebellar tumors” AJNR American Journal

of Neuroradiology. 2010 Feb;31(2):288-94. Impact Factor: 3.675, Scopus Citations=25

Broniscer A, Baker SJ, Stewart CF, Merchant TE, Laningham FH, Schaiquevich P, Kocak M, Morris EB, Endersby R, Ellison

DW, Gajjar A., “Phase I and pharmacokinetic studies of erlotinib administered concurrently with radiotherapy for children,

adolescents, and young adults with high-grade glioma”, Clinical Cancer Research. 2009 Jan 15;15(2):701-7. Impact Factor:

8.193, Scopus Citations=31

Joshi BH, Puri RA, Leland P, Varricchio F, Gupta G, Kocak M, Gilbertson RJ, Puri RK; US Pediatric Brain Tumor Consortium.,

“Identification of interleukin-13 receptor alpha2 chain overexpression in situ in high-grade diffusely infiltrative pediatric brainstem

glioma”, Neuro Oncology. 2008 Jun;10(3):265-74. Epub 2008 Apr 22. Impact Factor: 5,286, Scopus Citations=9

Williams G, Fahey FH, Treves ST, Kocak M, Pollack IF, Boyett JM, Kun LE, Poussaint TY. “Exploratory Evaluation of Two-

Dimensional and Three-Dimensional Methods of FDG PET Quantification in Pediatric Anaplastic Astrocytoma: A Report from

the Pediatric Brain Tumor Consortium (PBTC)”, European Journal of Nuclear Medicine and Molecular Imaging. 2008

Sep;35(9):1651-8 Impact Factor: 5.217, Scopus Citations=6

Haas-Kogan DA, Banerjee A, Kocak M, Prados MD, Geyer JR, Fouladi M, McKnight T, Poussaint TY, Broniscer A, Blaney SM,

Boyett JM, Kun LE., “Phase I trial of tipifarnib in children with newly diagnosed intrinsic diffuse brainstem glioma”, Neuro

Oncology. 2008 Jun;10(3):341-7 Impact Factor: 5,286, Scopus Citations=26

Loyer P, Trembley JH, Grenet JA, Busson A, Corlu A, Zhao W, Kocak M, Kidd VJ, Lahti JM. “Characterization of cyclin L1 and

L2 interactions with CDK11 and splicing factors: Influence of cyclin L isoforms on splice site selection”, The Journal of Biological

Chemistry., 2008 Mar 21;283(12):7721-32. Impact Factor: 4.651, Scopus Citations=31

MacDonald TJ, Stewart CF, Kocak M, Goldman S, Ellenbogen RG, Phillips P, Lafond D, Poussaint TY, Kieran MW, Boyett JM,

Kun LE., “Phase I clinical trial of cilengitide in children with refractory brain tumors: Pediatric Brain Tumor Consortium Study

PBTC-012”, Journal of Clinical Oncology. 2008 Feb 20;26(6):919-24. Impact Factor: 18.038, Scopus Citations=80

Kocak, Mehmet

Page 13 of 20

PUBLICATIONS

Gururangan S, Turner CD, Stewart CF, O'Shaughnessy M, Kocak M, Poussaint TY, Phillips PC, Goldman S, Packer R, Pollack

IF, Blaney SM, Karsten V, Gerson SL, Boyett JM, Friedman HS, Kun LE., “Phase I Trial of VNP40101M (Cloretazine) in Children

with Recurrent Brain Tumors: A Pediatric Brain Tumor Consortium Study”, Clinical Cancer Research. 2008 Feb 15;14(4):1124-

30. Impact Factor: 8.193, Scopus Citations=12

Sanders RP, Kocak M, Burger PC, Merchant TE, Gajjar A, Broniscer A. “High-grade astrocytoma in very young children”,

Pediatric Blood & Cancer. 2007 Dec;49(7):888-93. Impact Factor: 2.562, Scopus Citations=31

Broniscer A, Baker SJ, West AN, Fraser MM, Proko E, Kocak M, Dalton J, Zambetti GP, Ellison DW, Kun LE, Gajjar A,

Gilbertson RJ, Fuller CE., “Clinical and molecular characteristics of malignant transformation of low-grade glioma in children”,

Journal of Clinical Oncology. 2007 Feb 20;25(6):682-9. Impact Factor: 18.038, Scopus Citations=71

Calabrese C, Poppleton H, Kocak M, Hogg TL, Fuller C, Hamner B, Oh EY, Gaber MW, Finklestein D, Allen M, Frank A,

Bayazitov IT, Zakharenko SS, Gajjar A, Davidoff A, Gilbertson RJ., “A perivascular niche for brain tumor stem cells”, Cancer

Cell. 2007 Jan;11(1):69-82. Impact Factor: 27.238, Scopus Citations=907

Broniscer A, Laningham FH, Kocak M, Krasin MJ, Fouladi M, Merchant TE, Kun LE, Boyett JM, Gajjar A. “Intratumoral

hemorrhage among children with newly diagnosed, diffuse brainstem glioma”, Cancer. 2006 Mar 15; 106(6):1364-71. Impact

Factor: 4.901, Scopus Citations=17

Howard V, Greene JM, Pahwa S, Winkelstein JA, Boyle JM, Kocak M, Conley ME. “The health status and quality of life of adults

with X-linked agammaglobulinemia”, Clinical Immunology. 2006 Feb-Mar;118(2-3):201-8. Impact Factor: 3.891, Scopus

Citations=36

Broniscer A, Chintagumpala M, Fouladi M, Krasin MJ, Kocak M, Bowers DC, Iacono LC, Merchant TE, Stewart CF, Houghton

PJ, Kun LE, Ledet D, Gajjar A., “Temozolomide after radiotherapy for newly diagnosed high-grade glioma and unfavorable low-

grade glioma in children”, Journal of Neurooncology. 2006 Feb;76(3):313-9. Impact Factor: 2.787, Scopus Citations=34

Fouladi M, Gilger E, Kocak M, Wallace D, Buchanan G, Reeves C, Robbins N, Merchant T, Kun LE, Khan R, Gajjar A, Mulhern

R., “Intellectual and functional outcome of children 3 years old or younger who have CNS malignancies”, Journal of Clinical

Oncology. 2005 Oct 1;23(28):7152-60. Impact Factor: 18.038, Scopus Citations=58

Mulhern RK, Palmer SL, Merchant TE, Wallace D, Kocak M, Brouwers P, Krull K, Chintagumpala M, Stargatt R, Ashley DM,

Tyc VL, Kun L, Boyett J, Gajjar A., “Neurocognitive consequences of risk-adapted therapy for childhood medulloblastoma”,

Journal of Clinical Oncology. 2005 Aug 20; 23(24):5511-9. Impact Factor: 18.038, Scopus Citations=148

Fouladi M, Chintagumpala M, Laningham FH, Ashley D, Kellie SJ, Langston JW, McCluggage CW, Woo S, Kocak M, Krull K,

Kun LE, Mulhern RK, Gajjar A., “White matter lesions detected by magnetic resonance imaging after radiotherapy and high-dose

chemotherapy in children with medulloblastoma or primitive neuroectodermal tumor”, Journal of Clinical Oncology. 2004 Nov

15; 22(22):4551-60. Impact Factor: 18.038, Scopus Citations=49

Gajjar A, R. Hernan, M. Kocak, C. Fuller, Y. Lee, P. J. McKinnon, D. Wallace, C. Lau, M. Chintagumpala, D. M. Ashley, S. J.

Kellie, L. Kun, and R. J. Gilbertson., “Clinical, histopathologic, and molecular markers of prognosis: toward a new disease risk

stratification system for medulloblastoma” , Journal of Clinical Oncology. 2004 Mar 15; 22(6):984-93. Impact Factor: 18.038,

Scopus Citations=194

Gilbertson RJ, Hill DA, Hernan R, Kocak M, Geyer R, Olson J, Gajjar A, Rush L, Hamilton RL, Finkelstein SD, Pollack IF.,

“ERBB1 is amplified and overexpressed in high-grade diffusely infiltrative pediatric brain stem gliomas”, Clinical Cancer

Research. 2003 Sep 1;9(10 Pt 1):3620-4. Impact Factor: 8.193, Scopus Citations=84

Kocak, Mehmet

Page 14 of 20

METHODOLOGICAL MANUSCRIPTS UNDER REVIEW

Mehmet Kocak, Jiajing Wang, Rebecca Krukowski, Wayne G. Talcott, Robert C. Klesges. “A SAS Macro To Compute HUI

Summary and Utility Scores: An Application to the Fit Blue study” Submitted to the Cogent Mathematics and Statistics.

METHODOLOGICAL MANUSCRIPTS IN PREPARATION

Mehmet Kocak “Statistical Comparison of time-course gene profiles”

Mehmet Kocak “Impact of Zero-component in Zero-Inflated Binomial and Poisson Models on parameter estimates”

Mehmet Kocak “Impact of incomplete profiles in Random Coefficients Models on parameter estimates”

Mehmet Kocak “An Empirical Approach to Correct the Null Distribution of P-values”

Mehmet Kocak, Alemayehu Wolde, Francis Tylavsky “Race and Gender Specific Statistical Comparison of Growth Curve

Models in First Years of Life”

AD-HOC PAPER REVIEWING ACTIVITIES

Journal of Applied Statistics

Bioinformatics

Cell

Journal of Clinical Oncology

Communications in Statistics - Simulation and Computation

Journals of Turkiye Klinikleri

EDITORIAL BOARD MEMBERSHIP

International Journal of Clinical Biostatistics and Biometrics

Jacobs Journal of Epidemiology and Preventive Medicine

SM Journal of Public Health & Epidemiology

SM Journal of Pregnancy and Care

Scientific Pages of Gene and Genome Research

Journal of Pediatrics & Child Health Care

Annals of Pediatric Research

Scientific Literature Biometrics and Biostatistics Journal

PRESENTATIONS

DATE TOPIC PLACE

11/01/2018 Smart Simulations with SAS and R

International Conference of

Genomics and

Bioinformatics, Kusadasi

Turkiye

05/01/2018 Processing and Cleaning Streaming Data in SAS PharmaSUG 2018, Seattle,

WA

Kocak, Mehmet

Page 15 of 20

PRESENTATIONS

DATE TOPIC PLACE

04/22/2017 Circadian Rhythm genes in the Brain

Bioinformatics Summit

2017, Montgomery Bell

State Park, TN

11/28/2016 Null P-value distribution and Its Effect on Statistical Power

The University of TN Health

Science Center, Memphis

TN

07/19/2016 Biostatistics and Its Expanding Role in Collaborative Research Acibadem University,

Istanbul, Turkey

07/18/2016 Collaborative Research and Biostatistics

Medipol University,

International School of

Medicine, Istanbul Turkey

06/17/2016 Biostatistics in the Junction of Interdisciplinary Science Abdullah Gul University,

Kayseri, Turkey

04/10/2016 Searching for Mouse Circadian Genes in Hypothalamus and Amygdala Bioinformatics Summit

2016, Cadiz, KY

03/09/2016 A Bayesian Approach in Estimating Odds Ratios for Rare or Zero Events Enar 2016, Austin TX

4/1/2015 Confounding Effects in Statistical Modeling IHOP Seminar Series,

UTHSC

11/15/2014 SAS Graphics Lecture Series-2: SAS Annotation Facility St. Jude Children’s Research

Hospital

10/08/2014 Search for a significant (and hopefully scientifically relevant) threshold Un. Of Tennessee Health

Science Center

6/20/2014 SAS/GRAPH Workshop-1 Un. Of Tennessee Health

Science Center

05/14/2014 A Parade of SAS Macros Un. Of Tennessee Health

Science Center

01/25/2013 SAS MetaData Un. Of Tennessee Health

Science Center

11/14/2012 Simpson’s Paradox: Can a new Therapy be ‘better’ for both High Risk and Low

Risk patients but ‘worse’ for everyone?

Un. Of Tennessee Health

Science Center

05/09/2012 Non-inferiority trials for paired-binary response Un. Of Tennessee Health

Science Center

12/04/2011 Meta-Analysis of Univariate P-values Un. Of Tennessee Health

Science Center

11/18/2010 Introduction to Bayesian Thinking-2 and SAS MCMC Procedure St. Jude CRH M.S. Level

Statisticians Meeting

10/21/2010 Introduction to Bayesian Thinking-1 St. Jude CRH M.S. Level

Statisticians Meeting

03/22/2010 A Novel Approach in Testing for Periodicity in Cell-Cycle Gene Expression

Profiles ENAR-2010

10/16/2009,

10/21/2009 SAS/SQL Language: A short course with two three-hour sessions St. Jude CRH

5/11/2009 A simulation study: Number of events per covariate (EPC) in Cox Proportional

Hazards models

EMR-IBS Conference in

Istanbul, Turkey

4/20/2009,

4/27/2009 SAS/Macro Language: A two-day short course St. Jude CRH


Hazards models

IMST 2008 Conference at

University of Memphis

Kocak, Mehmet

Page 16 of 20

PRESENTATIONS

DATE TOPIC PLACE


Hazards models

IBS-ENAR 2008 Meeting in

Arlington, VA


Hazards models St. Jude CRH

02/13/2008 Phase II Trial of Irinotecan in Children With Refractory Solid Tumors: A

Children’s Oncology Group Study

St. Jude CRH

Biostatistics-Oncology

Journal Club

01/24/2008 Getting the help of SAS in Clinical Trial setting: Monitoring and Simulations Memphis Area SAS Users

Group Meeting

10/03/2006 Drug Development from a Statistician’s perspective Hacettepe University,

Ankara, Turkey

09/192006 Statistical Analysis for Clinical Researchers: A two-day short course Department of Genetics in

Istanbul University, Turkey

10/22-

23/2004 Statistical Analysis for Clinical Researchers: A two-day short course

Department of Genetics in


11/9/2005 Length of Stay and Mortality Associated With Febrile Neutropenia Among

Children With Cancer

St. Jude CRH

Biostat.-HemoOnc. Journal

Club

6/9/2005 What SAS/Access Offers To Us St. Jude CRH

10/22-

23/2004 Statistical Analysis for Clinical Researchers: A two-day short course

Department of Genetics in


12/7/2004 The role of a biostatistician in Medical Research: Expectations and Practical

Advices

Hacettepe University,

Ankara, Turkey

11/18/2004 The role of a biostatistician in Medical Research: Expectations and Practical

Advices

Middle Eastern Technical

University, Ankara, Turkey

10/20/2004,

10/24/2004 SAS/Macro Language: A two-day short course St. Jude CRH

8/12/2004 Designing Stopping Rules For Two Competing Events Concurrently in a Phase-

II Clinical Trial St. Jude CRH

4/25/2004 Introduction to CRM PBTC Spring 2004 Meeting

in Chicago

8/21/2003 Gene-Chip –Analysis: A short demonstration of DChip software St. Jude CRH

08/18-20-

22/ 2003

SAS/SQL Language:

A short course with three three-hour sessions St. Jude CRH

7/9/2003 Impact of Radiotherapy For High-Risk Neuroblastoma: A Children’s Cancer

Group Study

St. Jude CRH

Biostat.-HemoOnc. Journal

Club

2/13/2003 Ordinal Categorical Data Analysis St. Jude CRH

2/6/2003 Confounding, Simpson’s Paradox, and Cornfield’s Conditions St. Jude CRH

12/19/2002 Recurrent Events Data Analysis St. Jude CRH

Kocak, Mehmet

Page 17 of 20

ONGOING RESEARCH SUPPORT

5 U01CA081457-13 Kocak (PI) 09/15/2011-Present

NCI

The Pediatric Brain Tumor Consortium

To continue evaluating novel therapeutic approaches based upon research opportunities developed within the

member institutions, the NCI, other collaborating academic centers and the pharmaceutical/biotechnology

industry.

CANDLE STUDY Kocak (Coordinating Biostatistician) 01/01/2012-Present

Conditions Affecting Neurocognitive Development and Learning in Early Childhood (CANDLE)

Providing statistical support to investigators who utilize the CANDLE study data for publications and grant

proposals and supervising the data analysts in their statistical analysis support and data cleaning and

verification.

CANDLE STUDY Kocak (Investigator) 12/01/2016-Present

Vanderbilt University Medical Center Subcontract for


Providing statistical support to investigators who utilize the CANDLE study data for publications and grant

proposals and supervising the data analysts in their statistical analysis support and data cleaning and

verification.

1R01CA218155-02S2 Kocak (Biostatistician) 09/14/2017-08/31/2020

Communication App to Manage Symptoms and Improve Adjuvant Endocrine Therapy Adherence (THRIVE)

VUMC 62247 5R01HL132338-02 Kocak (Biostatistician) 02/01/2018-1/31/2019

Maternal Traumatic Stress, Oxidative Stress, Antioxidant Exposures, and Child Asthma and Lung Function

(Amend #1)

GB10472.156363 Kocak (PI of the subcontract with Un. of Virginia) 07/01/2017-Present

New, Emerging and Traditional Tobacco Use in the Military

COMPLETED RESEARCH SUPPORT

5 U01CA081457-18 Kocak (PI) 04/01/2017-03/31/2018

NCI, The Pediatric Brain Tumor Consortium



industry.

1R01DK097158 Kocak (Biostatistician) 09/27/2012-07/31/2018

Dissemination of the Look Ahead Weight Management Treatment in the Military (FitBlue)

R073237383 Kocak (PI, of the subcontract with Un. of Virginia) 01/2017-07/31/2018

Prevention of Alcohol Related Incidents in the US Air Force

U070132035 Kocak (Biostatistician) 01/01/2017-01/31/2018

17-0496 Pregnancy Folate Status & Early Childhood Respiratory & Atopic Disease

5 U01CA081457-18 Kocak (PI) 04/01/2016-03/31/2017



Kocak, Mehmet

Page 18 of 20


industry.

5 U01CA081457-17 Kocak (PI) 04/01/2015-03/31/2016




industry.

R073237002 Kocak (Coordinating Biostatistician) 01/01/2012-06/30/2016


To provide statistical support to investigators who utilize the CANDLE study data for publications and grant

proposals.

R01HL109977-04 (PI: Carroll) Kocak (Co-I) 06/2011-06/30/2016

NIH/NHLBI

Pregnancy folate status & early childhood respiratory & atopic disease outcomes

Goal: To determine the association of maternal folate levels and intake during pregnancy and the

development of childhood respiratory and atopic diseases.

5 U01CA081457-16 Kocak (PI) 04/01/2014-03/31/2015




industry.

5 U01CA081457-15 Kocak (PI) 04/01/2013-03/31/2014




industry.

5 U01CA081457-14 Kocak (PI) 04/01/2012-03/31/2013




industry.

5 U01CA081457-13 Kocak (PI) 09/15/2011-03/31/2012




industry.

5 U10CA98543-09 Kocak (PI) 11/01/2011-02/29/2012

Children’s Oncology Group

To provide statistical support for clinical trials conducted by COG investigators, analyze and report the data

from these clinical trials, assist with publication of such results.

Kocak, Mehmet

Page 19 of 20

OPEN PBTC PROTOCOLS

Title: PBTC-043 - A Phase I Trial of Pomalidomide for Children with Recurrent, Progressive or

Refractory CNS Tumors

Role: Biostatistician (Biostatistics)

Title: PBTC-048 - Feasibility Trial of Optune for Children with Recurrent or Progressive

Supratentorial High-Grade Glioma and Ependymoma


Title: PBTC-051 - Phase I Study to Evaluate the Safety and Tolerability of the CD40 Agonistic

Monoclonal Antibody APX005M in Pediatric Subjects with Recurrent/Refractory Brain Tumors and

Newly Diagnosed Brain Stem Glioma


Title: PBTC-N12 - [18F] FLT PET of Pediatric Brain Tumors


CLOSED PBTC PROTOCOLS:

Title: PBTC-026 - A Feasibility Study of SAHA combined with Isotretinoin and Chemotherapy in

Infants with Embryonal Tumors of the Central Nervous System


Title: PBTC-037 - A phase I study of intratumoral/peritumoral herpes simplex virus-1 mutant

HSV1716 in patients with refractory or recurrent high grade gliomas (HGG)


Title: PBTC-N11 - Immunologic Profile of Patients with Newly Diagnosed Medulloblastoma at Initial

Diagnosis and During Standard Radiation and Chemotherapy


Title: PBTC-027 - A Phase I Study of ABT-888, an Oral Inhibitor of Poly(ADP-ribose) Polymerase

and Temozolomide in Children with Recurrent/Refractory CNS Tumors


Title: PBTC-024 - A Phase I Clinical Trial of AZD2171 in Children with Recurrent or Progressive

Central Nervous System (CNS) Tumors


Title: PBTC-023 - Phase I and Pharmacokinetic Study of Enzastaurin (LY317615) in Children and

Adolescents with Rafractory Primary CNS Tumors


Title: PBTC-021 - A Phase I Trial of Capecitabine Rapidly Disintegrating Tablets and Concomitant

Kocak, Mehmet

Page 20 of 20

Radiation Therapy in Children with Newly Diagnosed Brainstem Gliomas and High Grade Gliomas


Title: PBTC-017 - Phase I Study of CLORETAZINE ™ (VNP4010M) in Children with Recurrent,

Progressive or Refractory Primary Brain Tumors


Title: PBTC-014 - Phase I/II Trial of Zarnestra and XRT in Pediatric Patients with Newly Diagnosed

Non-Disseminated Intrinsic Diffuse Brainstem Gliomas


Title: PBTC-012 - Phase I Study of Cilengitide (EMD 121974) in Children with Refractory Brain

Tumors


Title: PBTC-007 - A Phase I/II Trial of ZD1839 (IressaTM) and Radiation in Pediatric Patients Newly

Diagnosed with Brain Stem Tumors or Incompletely Resected Supratentorial Malignant Gliomas with

Phase II limited to Brain Stem Tumors


CLOSED ST. JUDE PROTOCOLS

Title: PETPET - METHIONINE PET/CT STUDIES IN PATIENTS WITH CANCER


Title: SJHG07 - Phase I Clinical Trial Of Zd6474 (Zactima) Administered Concurrently With Local

Radiation Therapy In The Treatment Of Pediatric Patients With Newly Diagnosed Diffuse Brainstem

Glioma


Title: SJBG07 - Phase I Clinical Trial Of Zd6474 (Zactima) Administered Concurrently With Local

Radiation Therapy In The Treatment Of Pediatric Patients With Newly Diagnosed Diffuse Brainstem

Glioma


Title: SJHG04 - A Phase I/II Trial of a New Tyrosine Kinase Inhibitor (Tarceva; Erlotinib

Hydrochloride; OSI-774) during and after Radiotherapy in the Treatment of Patients with Newly

Diagnosed High-Grade Glioma and Unfavorable Low-Grade Glioma


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