Office Hours


  • 8:15 AM - 9:00 AM Bech Hall 1970 Santa Rosa Campus


  • 8:15 AM - 9:00 AM Bech Hall 1970 Santa Rosa Campus

Fall 2017

Section 0296 of CHEM42
Introductory General Chemistry -- : Aug 23 - Dec 15 2017

Spring 2017

Section 4347 of CHEM60
Chemistry for the Allied Health Sciences -- : Jan 17 - May 19 2017

Section 5213 of CHEM1A
General Chemistry -- : Jan 17 - May 18 2017

Section 8687 of CHEM60
Chemistry for the Allied Health Sciences -- : Jan 18 - May 17 2017

BS Chemistry, 1979, Middle East Technical University, Ankara, Turkey

MS Organic Chemistry, 1981,  Middle East Technical University, Ankara, Turkey

PhD Physical Organic Chemistry, 1986,  Virginia Commonwealth University, Richmond, VA

Postdoctoral Fellow. Quantum Chemistry, 1986-89, University of Alabama at Birmingham, Birmingham, AL

Certificate, Executive Program for Scientists and Engineers, Business Management, 2001,  University of California at San Diego, San Diego, CA,

My over 30 years of experience in computational chemistry started in 1982 with my PhD research that involved molecular orbital calculations to compare computational predictions of regio- and stereo-selectivity of some Diels-Alder reactions to experimental results.  My postdoctoral fellowship that started in 1987 involved in quantum mechanical computational design of some high energy/density materials to be used in rocket propellants.  From 1989 on my area of interest moved from materials science to life sciences dealing with chemical informatics systems (at MDL 1989-1996), molecular modeling technology (at Accelrys 1996-2005) to computer-aided drug design (at Turquoise Consulting 2006-2011, and at Mercer University 2012-2015).  Following my retirement at August 2015, I am now employed, part-time, teaching chemistry at Santa Rosa Junior College.

Work and Consulting Experience: 

2016 - to date Adjunct Faculty (teaching), Santa Rosa Junior College, Santa Rosa, CA

2015 – to date Adjunct Faculty (research), Center for Drug Design, Mercer University, College of Pharmacy, Atlanta, GA

4/2015-8/2015 Scientific Marketing Director, Collaborative Drug Discovery, Inc., Burlingame, CA

2012-2015       Research Scientist, Center for Drug Design, Mercer University, College of Pharmacy, Atlanta, GA

2006-2012       Principal, Turquoise Consulting, San Diego, California, (2006-10), and Ankara, Turkey (2010-12)

1996-2005       Executive Director (last position), Cheminformatics & Rational Drug Design, Accelrys, Inc., San Diego, CA

1989-1996       Senior Scientist (last position), ISIS Business Unit, MDL Information Systems, Inc., San Leandro, CA

Professional Areas of Interest: 

1. GH-Score: Development of a metric to assess the quality of pharmacophore models and hitlists following database screening/searching.  The GH-score (Goodness of Hit List, also recognized as the Güner-Henry score) is now utilized routinely for external validation of pharmacophore models and screening results.

Following favorable results from a study that performed a comparative study of such metrics, GH-Score has become one of the most reliable external validations of search results.

“They found that the cumulative recall and the “Goodness of Hit List” or Güner-Henry (GH) score were among the most successful of those tested for measuring the effectiveness of similarity retrieval.”

Quoted from: Raymond, J.W. and Willett, P., J. Comp.-Aided Molec. Des., 2002, 16(1), 59-71


  1. Güner, O. F. and Henry, D. R. "Metrics for Analyzing Hit Lists and Pharmacophores” in Pharmacophore Perception, Development, and Use for Drug Design, Güner, O. F. (Ed.), International University Line, 2000, 193-211
  2. Güner, O. F.; Waldman, M.; Hoffmann, R.; Kim, J-H., “Strategies in Database Mining and Pharmacophore Development,” in Pharmacophore Perception, Development, and Use for Drug Design, Güner, O. F. (Ed.), International University Line, 2000, 213-232

2. First book on pharmacophores: The contributor/editor of the first book about pharmacophore modeling, entitled “Pharmacophore Perception, Development, and Use in Drug Design” published in 2000.  

Quoting Lisa Balbes in her book review for The Alchemist:

“In principle, it is a simple idea, but in practice the large number of different methods, as well as the wide variety of problems to which these methodologies are applied, make this a very hard field to get started in — much of the information is not published anywhere, and there is no single complete source that includes information on all the different methods.  That is, until now.  If I had to describe this book in one word, it would be ‘comprehensive’.”


  1. Pharmacophore Perception, Development, and Use for Drug Design, Güner, O. F. (Ed.), International University Line, 2000, Ja Jolla California
  2. Güner, O. F. “History and Evolution of the Pharmacophore Concept in Computer-Aided Drug Design,” Curr. Top. In Med. Chem., 2002, 2, 1321-1332
  3. Güner, O. F.; Clement, O.; Kurogi, Y. “Pharmacophore Modeling and Three-Dimensional Database Searching for Drug Design Using Catalyst: Recent Advances,” Curr. Med. Chem., 2004, 11, 2991-3005
  4. Güner, O. F. “The Impact of Pharmacophores in Drug Design,” IDrugs 2005, 8(7), 657-672

3. Small molecule inhibitors of NADPH Oxidase (Nox): Many of the current medical treatments target to eliminate symptoms of common diseases (Antihypertensives, Cholesterol reducing agents, pain relievers, etc.) as opposed to eliminating the cause of diseases.  In contrast, because Nox enzymes are expressed in most tissues and have many pathophysiological functions, their inhibitors could be used to treat numerous diseases triggered by oxidative stress: I have identified very small molecule inhibitors of Nox4 enzyme, which can be used for the treatment of: Kidney and lung fibrosis; Cell proliferation in cancer; Brain damage after stroke; Cardiac hypertrophy and contractile dysfunction; Diabetic nephropathy; Arthritis; Osteoporosis; Peripheral nerve injury; Atherosclerosis; Restenosis after angioplasty; Aneurysms; Pulmonary hypertension; and Leprechaunism. 

Provisional patents for these small molecule inhibitors are submitted: US 62/010,670 – 06/11/2014, and US 62/011,230 – 06/12/2014, on which I am listed as the lead inventor.

4. Origin of the pharmacophore concept: The origin of the concept of pharmacophores has been recently challenged and incorrectly attributed to Lemont B. Kier based on his published model for muscarinic inhibitor compounds in 1967.  In a recent paper, I demonstrated that similar models were published earlier by different authors, and following a detailed scientific detective work, have identified an 1898 paper of Paul Ehrlich as the originator of the concept. 


  1. Güner, O. F. and Bowen, J. P. “Setting the Record Straight: The Origin of the Pharmacophore Concept,” J. Chem. Inf. Model. 2014, 54, 1269-1283

5. Epimerization in Diels-Alder reactions: I have identified a change in the stereochemical distribution of Diels-Alder cycloadducts during the chromatographic processing, where the chromatographic packing material catalyzed the transformation of kinetic product distribution into a thermodynamic one.  This observation brought caution to experimental chemists in choice of techniques for their characterization work of reactions that have distribution of stereoisomers.


  1. Güner, O. F; Ottenbrite, R. M.; Shillady, D. D.; Alston, P. V. “Epimerization and Stereoselectivity in the Diels-Alder Reaction of Monosubstituted Dienophiles,” J. Org. Chem., 1988, 53, 5348
  2. Güner, O. F.; Lammertsma, K.; Alston, P. V.; Ottenbrite, R. M.; Shillady, D. D. “Theoretical Evaluation of Epimerization in Diels-Alder Cycloadducts,” J. Org. Chem., 1990, 55, 28

Full list of publications up to 2006 can be accessed at Turquoise Consulting web site ( ).

List of more recent publications can be accessed at ResearchGate ( ).

Professional Involvement and Community Service: 

Member, American Chemical Society (1985-2011)

ACS Chemical Information Division (1993-2011)

Program Committee Member, 1998-2001

Associate Program Chair, 2001-2003

Program Chair, 2003-2004

Voting member of the Executive Committee, 2003-2007

Chair-Elect, 2005

Finance and Fund Raising Committee member, 2005-2007

Chair, 2006

Awards Committee member, 2006-2008

Past-Chair, 2007

Nominations Chair, 2007

Fellow, American Institute of Chemists (1989)

Member, International QSAR and Modelling Society (2000-2010)

Member of the Board of Directors (2000-2010),

Trustee, Chemical Structure Association Trust (2006-2008)

Member of the Organizing Committee:

ADMET-1 Conference San Diego, CA, 2004

15th EuroQSAR 2004, Istanbul, Turkey, 2004

ADMET-2 Conference San Diego, CA, 2005