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Guy Brock, PhD

 

g0broc01 Bioinformatics and Biostatistics

Role: Faculty
Title: Associate Professor
Office No: Rm 137
Address: 485 E. Gray St
Phone: (502) 852-3444
Fax: (502) 852-3294
E-mail: guy.brock@louisville.edu

 

Background

Ph.D. (2003), Statistics, University of New Mexico
M.S. (2000), Statistics, University of New Mexico
B.S. (1996), Biochemistry, University of Colorado

Post-doc in Statistical Genetics, 2003-2005, University of Pittsburgh.

I joined the Department of Bioinformatics and Biostatistics in July 2005 as an Assistant Professor.  Currently, I also serve as the Director of the Statistical Consulting Center (since 01/31/2007).


Research Interests

My primary research interests are in the areas of statistical genetics, bioinformatics, and genomics. Recent projects include integrated analysis of miRNA-mRNA data, competing risks and multi-state models, and missing value estimation in microarray data. I also have collaborative efforts with Epidemiology and Population Health, Pharmacology and Toxicology, Infectious Disease, Surgery / Transplantation, and Molecular, Cellular, and Craniofacial Biology.

Software

I have authored / co-authored the following R packages:

clValid: Validation of Clustering Results
msSurv: Nonparametric Estimation for Multistate Models
MmPalateMiRNA: Murine Palate miRNA Expression Analysis

All three packages have published manuscripts to document their usage (see list of publications below).


Teaching Activities

Fall 2012: PHST 710 - Advanced Statistical Computing I
Summer 2012: PHST 711 - Advanced Statistical Computing II
Previously Taught: PHST 683 - Survival Analysis, PHST 684 - Categorical Data Analysis

Current Projects

Birth Defects Center: Analysis of molecular origins of birth defects. Involves analyzing array-based studies (gene expression, miRNA expression, and gene methylation) of murine embryos during the period of secondary palate and neural tube development.
Transplantation: Analysis of outcomes affecting post-transplantation mortality and graft survival (liver and kidney). Also, analysis of waiting times until transplantation.
Cancer genetic epidemiology: Analysis of genetic polymorphisms associated with increased risk for prostate and breast cancer. Also assessment and development of methods for detecting gene-gene interactions.
Community aquired pneumonia: Research into clinical epidemiology of infectious disease. Includes analysis of factors affecting in-hospital mortality, time to clinical stability, and length of hospital stay.


Students Mentored

Christina Studts, MS in Biostatistics, 2012
Robert Cannon, MS in Biostatistics, 2012
Nicole Ferguson, Ph.D. in Biostatistics, 2011 (joint with Dr. Somnath Datta)(
Dake Yang, MS in Biostatistics, 2011
Jie Zhang, MS in Biostatistics, 2011
Forest Arnold, MSc in Clinical Investigation Sciences, 2011
Whitney Kirzinger, MPH with Biostatistics concentration, 2011
Jie Fan, MS in Biostatistics, 2007 (joint with Dr. Somnath Datta)
Bart Brown, MS in Decision Science, 2007 (joint with Dr. Somnath Datta)
Oyeyemi Komolafe (Yemi), MPH with Biostatistics concentration, 2007 (Dr. La Creis Kidd, practicum site mentor)

Honors and Awards

Student Nominated 2006, 2010 Faculty Favorite
Nominated Provost Award for Exemplary Advising, 2006

Outside Interests

swimming, jazz, guitar, hiking in Louisville's fabulous Metro Parks

Active Grants

"Integrated Analysis: Epigenetic Regulation of Gene Expression During Orofacial Development"
NIH R03DE021460-01A1 (PI - Brock, Mukhopadhyay)
Role: Co-PI (with P Mukhopadhyay)
Term: 2012-2014

"Molecular Determinants of Developmental Defects" (PI - R.M. Greene)
NIH 2P20-RR017702-06, Center of Biomedical Research Excellence (COBRE)
Project Title: Integrated Analysis of RNA Expression During Orofacial Development
Role: Co-PI of project (with P Mukhopadhyay)
Term: 2011-2013

"Molecular Determinants of Developmental Defects" (PI - R.M. Greene)
NIH 2P20-RR017702-06, Center of Biomedical Research Excellence (COBRE)
Role: Co-Investigator/Biostatistician (20% time and effort)
Term: 2007-2013

"Transcriptional Coactivators and Pregnancy Outcomes" (PI – R.M. Greene)
NIH R01HD053509
Role: Co-Investigator/Biostatistician (8% time and effort)
Term: 2007-2012

"Microbiology Testing with the Aim of Directed Antimicrobial Therapy for Community-Acquired Pneumonia (CAP)"
NIH BAA-NIAID-DMID-NIHAI2009058 (PI – V Yu, Univ Pittsburgh)
Role: Co-Investigator/Biostatistician (20% time and effort)
Term: 2012-2017

Completed Grants

"Nutritional Epigenetics and Orofacial Development" (PI – R.M. Greene)
NIH R01DE018215
Role: Co-Investigator/Biostatistician (9% time and effort)
Term: 2009-2013

"Biomarkers for Steatohepatitis" (PI - C. McClain)
NIH 1RC2AA019385-0
Role: Co-Investigator (10% time and effort)
Term: 09/01/09-08/31/11

"Center for Environmental Genomics and Integrative Biology" (PI - K. Ramos)
NIH/NIEHS P30-ES014443, Bioinformatics, Biostatistics and Computational Biology Core
Role: Co-Investigator/Statistal Consultant (15% time and effort)
Term: 04/01/07-03/31/11

"Extension of Informatics Infrastructure to Support Translational and Basic Research" (PI - E. Rouchka and T. Kalbfleisch)
DOE 10EM00542
Role: Co-Investigator (10% time and effort)
Term: 01/01/10-12/31/11

"Innate Immune Response Predictors of Prostate Cancer Outcomes" (PI - L.R. Kidd)
Clinical & Translational Science Pilot (Intramural)
Role: Co-Investigator
Term: 7/1/10-6/30/11

"A Pharmacogenetic Approach to Prostate Cancer Susceptibility" (PI - L. Kidd)
NIH R03CA128028
Role: Co-Investigator (5% time and Effort)
Term: 2007-2009

"Genomic Approach to Predicting Breast Cancer Recurrence" (PI - L. Kidd & J. Wittliff)
Brown Cancer Center Pilot Project
Role: Co-Investigator
Term: 2/1/07-1/31/08

"Combined Genetic Assessment of Angiogenesis Pathway Variants Predictive of Prostate Cancer Risk" (PI - L. Kidd)
Prostate Cancer Foundation - 2006 Competition Awards Program
Role: Co-Investigator (10% time and Effort)
Term: 2/1/07-1/31/08

"Molecular Determinants of Developmental Defects" (PI - R.M. Greene)
NCRR Center for Biomedical Research Excellence (NIH) P20-RR/DE17702
Role: Co-Investigator (15%, from 2/1/07 to 04/01/07)

"The 4-Corners Women’s Health Study" (PI - K. Baumgartner)
NIH R01 CA078762
Role: Co-Investigator (25%, from 04/2006 to 07/2006)


Publications

Journal Articles

    2012

  1. Brock GN , Mukhopadhyay P, Pihur V, Webb C, Greene RM, Pisano MM. "Analysis of miRNA Microarray Data Using R and Bioconductor", accepted to Source Code in Biology and Medicine .
  2. Ferguson N, Datta S, and Brock G (2012). "msSurv, an R package for nonparametric estimation of multistate models", Journal of Statistical Software 50:14.
  3. Hertweck SP, Yoost JL, McClure ME, Siow Y, Brock G, Wintergerst KA, Fallat ME. "Ferriman-Gallwey Scores, Serum Androgen and Mullerian Inhibiting Substance Levels in Hirstute Adolescent Girls" J of Pediatric Adolescent Gynecology 25(5):300-4.
  4. Cannon RM, Brock GN , Marvin MR, Slakey DP, Buell JF. "A Decade of Disparity: Differences in Donor Quality for African American And Caucasian Recipients of Cadaveric Renal Transplants from 2000 to 2010" American Journal of Transplantation 12(7):1776-83.
  5. Alton TM, Brock G, Yang D, Wilkings D, Hertweck P, and Loveless MB (2012). "Retrospective Review of Intrauterine Device in Adolescent and Young Women" Journal of Pediatric and Adolescent Gynecology 25(3):195-200.
  6. Lavender NA, Rogers EN, Yeyeodu S, Rudd J, Hu T, Zhang J, Brock GN , Kimbro KS, Moore JH, Hein DW, Kidd LR. (2012) "Interaction among Apoptosis-Associated Sequence Variants and Joint Effects on Aggressive PCA" BMC Medical Genomics 5(1):11. [Epub ahead of print]
  7. Cannon RM, Brock G, Marvin MR, Eng M, Buell JF (2012). "Analysis of BK Viral Infection After Alemtuzumab Induction for Renal Transplant", Transplant Infectious Disease 14(2):142-9.
  8. Muenyi CS, Pinhas AR, Fan TW, Brock GN , Helm CW, and States JC (2012). "Sodium arsenite ± hyperthermia sensitize p53 expressing human ovarian cancer cells to cisplatin by modulating platinum DNA damage responses." Toxicological Sciences 127(1):139-49.
  9. Mukhopadhyay P, Singh S, Brock G, Pisano MM, and Greene RM. (2012) "Strain-specific modifier genes governing craniofacial phenotypes in ski-null mice" Birth Defects Research Part A 94(3):162-75.
  10. Cannon RM, Brock G, Buell JF (2012). "Surgical Resection for Hilar Cholangiocarcinoma: Experience improves Resectability", HPB 14(2):142-9.
  11. Lutz PM, Kelty EA, Brown TD, Wilson TJ, Brock G, Neal R. (2012) "Environmental Cigarette Smoke exposure Modulates IgE levels of Pb-exposed Children", Toxicology 291(1-3):43-50.

  12. 2011

  13. Brock GN , Barnes CN, Ramirez JA, Myers JA (2011). "How to handle mortality when investigating length of hospital stay and time to clinical stability" BMC Med Res Methodol. 11(1):144.
  14. Brock GN , Mostajabi F, Ferguson N, Carrubba CJ, Eng M, Buell JF, Marvin MR (2011). "Prophylaxis against denovo hepatitis B for liver transplantation utilizing Hep B core(+) donors: does HBIG provide a survival advantage?" Transplant Int. 24(6):570-81.
  15. Oh S, Kang DD, Brock GN* , Tseng GC* (2011) "Biological impacts of missing value imputation on down-stream analyses in microarray data" Bioinformatics 27(1):78-86.
  16. Lu C, Hallgren JJ, Lin Y, Black DS, Ekstrom LC, Fentie IH, Brock G, Song Y, Winstead WI, Roisen FJ (2011). "Human olfactory-derived neural progenitors diminish locomotory deficits following spinal cord contusion injury" Journal of Neurodegeneration and Regeneration 4(1):33-50.
  17. Cannon RM, Brock G, Buell JF (2011). "A Novel Classification System to Address Financial Impact and Referral Decisions for Bile Duct Injury in Laparoscopic Cholecystectomy" HPB Surgery , 2011:371245.
  18. Bordon J, Plankey MW, Young M, Greenblatt RM, Villacres MC, French AL, Zhang J, Brock G, Appana S, Herold B, Durkin H, Golub JE, Fernandez-Botran (2011). "Lower levels of interleukin-12 precede the development of tuberculosis among HIV-infected women" Cytokine, 56(2):325-31. PMID: 21880503.
  19. Mukhopadhyay P, Brock GN , Appana S, Webb C, Greene RM, and Pisano MM (2011). "Developmental microRNA expression profiling of murine neural tube" Birth Defects Research Part A, 91(8):744-62. PMID: 21770019.
  20. Cannon RM, Brock GN , Marvin MR, Buell JF (2011). "Laparoscopic Liver Resection: An Examination of Our First 300 Patients" J Am Coll Surg, 213(4):501-7. PMID: 21624840.
  21. Ramsey TL, Meltzer HY, Brock GN , Mehrotra B, Jayathilake K, Bobo WV, Brennan MD (2011). "Evidence for a SULT4A1 haplotype correlating with baseline psychopathology and response to atypical antipsychotics in schizophrenia and related disorders" Pharmacogenomics 12(4):471-80.
  22. Gobejishvili L, Avila DV, Barker DF, Ghare S, Henderson D, Brock GN , Kirpich IA, Joshi-Barve S, Mokshagundam SP, McClain CJ, Barve S (2011). "S-Adenosylmethionine Decreases LPS-Induced Phosphodiesterase 4B2 and Attenuates TNF Expression via cAMP/PKA Pathway" J Pharmacol Exp Ther 337(2):433-43.
  23. Kidd LCR, Templeton TM, Doll M, Srivastava D, Thacker B, Komolafe O, Pihur V, Brock G, and Hein DW (2011). "No association between variant N-acetyltransferase genes, cigarette smoking and prostate cancer susceptibility among men of African descent" Biomarkers in Cancer 3:1-13.
  24. Warner DR, Mukhopadhyay P, Brock GN , Pihur V, Pisano MM, Greene RM (2011). "TGFB and Wnt-3a interact to induce unique gene expression profiles in murine embryonic palate mesenchymal cells" Reproductive Toxicology 31(2):128-33.

  25. 2010

  26. Ouseph R, Eng M, Ravindra K, Brock GN , Buell JF, Marvin MR. "Review of the use of hepatitis B core antibody positive kidney donors" Transplantation Reviews (Orlando). 2010, 24(4):167-71.
  27. Arnold, F., Brock, G.N. , Peyrani, P., Rodrguez, E., Fuenzalida, A.D., Rossi, P., and Ramirez, J.A. "Time to clinical stability in hospitalized patients with community-acquired pneumonia: predictive accuracy of the PSI vs. CRB-65" Respiratory Medicine 2010,104(11):1736-43. PMID: 20576417.
  28. Kidd LR*, Brock GN* , Vancleave TT, Benford ML, Lavender NA, Kruer TL, Wittliff JL. "Angiogenesis-associated Sequence Variants Relative to Breast Cancer Recurrence and Survival" Cancer Causes & Control , 2010 Jun 23. [Epub ahead of print] PMID: 20571871.
  29. Mukhopadhyay P, Brock G , Pihur V, Webb C, Pisano MM, Greene RM. "Developmental microRNA expression profiling of murine embryonic orofacial tissue." Birth Defects Research Part A: Clinical and Molecular Teratology , 2010 Jul;88(7):511-34.
  30. Spiller HA, Appana S, Brock GN . "Epidemiological trends of suicide and attempted suicide by poisoning in the US: 2000 - 2008" Legal Medicine , 2010 Jul;12(4):177-83.
  31. Chen Y, Brock G , Wu D. "Estimating Key Parameters in Periodic Breast Cancer Screening Using the Canadian National Breast Screening Study Data" Cancer Epidemiology, 2010 Aug;34(4):429-33.
  32. Eng M, Brock G , Li X, Chen Y, Ravindra KV, Buell JF, Marvin MR. "Perioperative Anticoagulation and Antiplatelet Therapy in Renal Transplant: Is There an Increase in Bleeding Complication?" Clinical Transplantation, 2010 Jun 7. [Epub ahead of print]
  33. VanCleave, T.T., Moore, J.H., Benford, M.L., Brock, G.N. , Kalbfleisch, T., Zhu, Yuanqi, Baumgartner, R.N., Lillard, J.W., Kittles, R.A., Kidd, L.R. "Interaction among variant vascular endothelial growth factor (VEGF) and its receptor in relation to prostate cancer risk." The Prostate, 2010 Mar 1;70(4):341-52.
  34. Cave, M., Falkner, K.C., Ray, M., Joshi-Barve, S., Brock, G. , Khan , R., Bon Homme, M. and McClain, C. "Toxicant-associated steatohepatitis in vinyl chloride workers" Hepatology, 2010 Feb;51(2):474-81.
  35. Lavender, N.A., Komolafe, O.O., Brock, G.N. , Moore, J.H., VanCleave, T.M., Srivastava, D.S., Benford, M., States, J.C., Kittles, R.A., and Kidd, L.R. "No association between variant DNA repair genes and prostate cancer risk among men of African descent" The Prostate, 2010 Feb 1;70(2):113-9.

  36. 2009

  37. Aliberti, S., Brock, G.N. , Peyrani, P., Blasi, F., and Ramirez, J.A. and the CAPO Study Group. "The pneumonia severity index and the CRB-65 in cancer patients with community-acquired pneumonia" International Journal of Tuberculosis and Lung Disease 2009 Dec;13(12):1550-1556.
  38. Myers, J., Brock, G. , Appana, S., and Gray, L. "Kentucky pilot project for primary PCI without onsite CABG" Journal of the Kentucky Medical Association 2009, Nov;107(11):451-8.
  39. Lavender, N.A., Benford, M., VanCleave, T.T., Brock, G.N. , Kittles, R.A., Moore, J.H., Hein, D.W., and Kidd, L.C.R. "Examination of polymorphic glutathione S-transferase (GST) genes, tobacco smoking and prostate cancer risk among men of African descent: a case-control study" BMC Cancer 2009, 9:397.
  40. Arnold, F.W., LaJoie, A.S., Brock, G.N., Peyrani, P., Rello, J., Menéndez, R., Lopardo, G., Torres, T., Rossi, P., Ramirez, J.A., and the CAPO investigators.  “Improving Outcomes in Elderly Patients with Community-Acquired Pneumonia by Adhering to National Guidelines: Community-Acquired Pneumonia Organization International Cohort Study Results” Archives of Internal Medicine 2009 Sep 14;169(16):1515-24.
  41. Woodall, C.E., Brock, G.N., Byam, J.A., Scoggins, C.R., McMasters, K.M., and Martin, R.C.  “An evaluation of 2,537 gastrointestinal stromal tumors for a proposed clinical staging system” Archives of Surgery 2009 July;144(7):670-8..
  42. Brock, G.N., Beavis, W., and Salter, L. “Fuzzy logic and alternate methods for detecting gene regulatory Networks,” Information Fusion 2009 July;10(3):250-259.
  43. Marvin M.R., Brock, G.N., Kwarteng, K., Nagubandi, R., Ravindra, K.V., Eng, M. and Buell, J.F. “Increasing utilization of human T-cell lymphotropic virus(+) donors in liver transplantation: is it safe?” Transplantation 2009 87(8):1180-1190.
  44. Xu, P., Brock, G.N., and Parrish, R.S. “Modified linear discriminant analysis approaches for classification of high-dimensional microarray data” Computational Statistics and Data Analysis 2009 53(5):1674-1687.
  45. Landry, C.S., Brock, G., Scoggins, C.R., McMasters, K.M., and Martin, R.C.  “A Proposed Staging System for Gastric Carcinoid Tumors Based on an Analysis of 1,543 Patients,” Annals of Surgical Oncology 2009 Jan;16(1):51-60.

  46. 2008

  47. Landry, C.S., Brock, G., Scoggins, C.R., McMasters, K.M., and Martin, R.C.  “A proposed staging system for colon carcinoid tumors based on an analysis of 2,459 patients,” Journal of the American College of Surgeons 2008 Dec;207(6):874-81.
  48. Landry, C.S., Brock, G., Scoggins, C.R., McMasters, K.M., and Martin, R.C.  “A Proposed Staging System for Small Bowel Carcinoid Tumors Based on an Analysis of 6,380 Patients,” American Journal of Surgery 2008 Dec;196(6):896-903.
  49. Buell, J.F., and Brock, G., “Risk of cancer in liver transplant recipients: A look into the mirror,” Liver Transplantation 2008 Nov; 14(11):1561-3.
  50. Buell, J.F., Thomas, M.T., Rudich, S., Marvin, M., Nagubandi, R., Ravindra, K.V., Brock, G., and McMasters, K.M.  “Experience with more than 500 minimally invasive hepatic procedures” Annals of Surgery 2008 Sep; 248(3):475-86.
  51. Landry, C.S., Brock, G., Scoggins, C.R., McMasters, K.M., and Martin, R.C.  “A proposed staging system for rectal carcinoid tumors based on an analysis of 4701 patients” Surgery 2008; 144(3):460-6.
  52. Bordon, J., Peyrani, P., Brock, G., Blassi, F., Rello, J., File, T., Ramirez, J.A., and  the CAPO Study Group. “The care of hospitalized patients with community-acquired pneumonia should not be altered by the presence of pneumococcal bacteremia: Results from the community-acquired pneumonia organization (CAPO) international cohort study.” CHEST  2008; 133(3):618-24
  53. Bhattacharjee, S., Kuo, C-L., Mukhopadhyay, N., Brock, G., Weeks, D.E., and Feingold, F. “Robust score statistics for QTL linkage analysis” The American Journal of Human Genetics 2008; 82(3):567-82.
  54. Brock, G.N., Pihur, V., Datta, S., and Datta, S. “clValid, an R package for cluster  validation” Journal of Statistical Software Vol. 25, Issue 4, Mar 2008.
  55. Brock, G.N., Shaffer, J.R., Blakesley-Ball, R.E., Lotz, M.J., and Tseng, G.C. “Which missing value imputation method to use in expression profiles: a comparative study and two selection schemes” BMC Bioinformatics 2008; 9(1):12.

  56. 2007 and earlier

  57. Brock, G.N., Weeks, D.E., Sobel, E. and Feingold, E. “A novel method for estimating significance levels in NPL scores for large pedigrees” Genetic Epidemiology 2007; 31(5):417-430.
  58. Brock, G.N., Maher, B.S., Goldstein, T.H., Cooper, M.E., and Marazita, M.L. “Methods for detecting gene-gene interaction in multiplex extended pedigrees” BMC Genetics 2005; 6 Suppl 1:S144
  59. Maher, B.S., and Brock, G.N. “Approaches to detecting epistasis in the genetic analysis workshop 14 Pedigrees” Genetic Epidemiology 2005; 29 Suppl 1:S116-9.

Peer-Reviewed Book Chapters

  1. Pihur, V., Brock, G.N., Datta, S. and Datta, S. “Cluster validation for microarray data: An appraisal”. In Indian Statistical Institute Platinum Jubilee Series, Statistical Science and Interdisciplinary Research - Vol. 4, Advances in Multivariate Statistical Methods (A. SenGupta, Ed), World Scientific Press, 2009.
  2. Brock, G.N., Pihur, V., Kubatko, L. “Detecting gene regulatory networks from microarray data using fuzzy logic” In Fuzzy Systems in Bioinformatics, Bioengineering and Computational Biology (Studies in Fuzziness and Soft Computing) (Jin, Y. and Wang, L., Ed), Springer-Verlag, Berlin Heidelberg, 2009.
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