Department of Biochemistry and Molecular Biology

Websitehttps://med.psu.edu/biochemistry

United States

Organization profile

The Department of Biochemistry and Molecular Biology at Penn State College of Medicine strives to marry the increasingly powerful tools of genomics and computational biology with the classic approaches of biochemistry and molecular biology to reveal fundamental processes of biology and to convert those discoveries into treatments that improve the well-being of patients.

Fingerprint Dive into the research topics where Department of Biochemistry and Molecular Biology is active. These topic labels come from the works of this organization's members. Together they form a unique fingerprint.

Proteins Medicine & Life Sciences

Genes Medicine & Life Sciences

DNA Medicine & Life Sciences

Mutation Medicine & Life Sciences

Yeasts Medicine & Life Sciences

Neoplasms Medicine & Life Sciences

Chromatin Medicine & Life Sciences

Plasmodium falciparum Medicine & Life Sciences

Network Recent external collaboration on country level. Dive into details by clicking on the dots.

Profiles

Cesar Aliaga, MS

Department of Biochemistry and Molecular Biology - Senior Research Associate

Person: Academic

Maria Bewley, PhD

Department of Biochemistry and Molecular Biology - Associate Professor

Person: Academic

James Broach, PhD

Department of Biochemistry and Molecular Biology - Distinguished Professor and Chair
Institute for Personalized Medicine
Penn State Cancer Institute
Cancer Institute, Experimental Therapeutics

Person: Academic

Laura Carrel, MA, PhD

Department of Biochemistry and Molecular Biology - Associate Professor
Huck Institutes of the Life Sciences

Person: Academic

Kun-Ming Chen, PhD, MS

Department of Biochemistry and Molecular Biology - Associate Professor
Penn State Cancer Institute
Cancer Institute, Mechanisms of Carcinogenesis

Person: Academic

Keith Cheng, MD, PhD

Department of Pathology and Laboratory Medicine - Distinguished Professor
Division of Experimental Pathology
Department of Biochemistry and Molecular Biology - Distinguished Professor
Department of Pharmacology - Distinguished Professor
Penn State Cancer Institute
Huck Institutes of the Life Sciences
Cancer Institute, Experimental Therapeutics

Person: Academic

Gary Clawson, MS, PhD, MD

Person: Academic

Paula Dalessio, MS, PhD

Department of Biochemistry and Molecular Biology - Assistant Professor

Person: Academic

Arunangshu Das, MSc, PhD

Department of Biochemistry and Molecular Biology - Assistant Professor

Person: Academic

Nikolay Dokholyan, PhD, MS

Department of Pharmacology - G. Thomas Passananti Professor and Vice Chair for Research
Department of Biochemistry and Molecular Biology - G. Thomas Passananti Professor
Cancer Institute, Experimental Therapeutics
Penn State Cancer Institute

Person: Academic

Research Output 1969 2020

111818 Citations
142 h-Index
2004 Article
144 Review article
45 Comment/debate
31 Chapter
91 More

De novo resonance assignment of the transmembrane domain of LR11/SorLA in E. coli membranes

Ding, X., Fu, R. & Tian, F., Jan 2020, In : Journal of Magnetic Resonance. 310, 106639.

Research output: Contribution to journal › Article

Escherichia coli

membranes

proteins

Membranes

Membrane Proteins

Ligand-induced disorder-to-order transitions characterized by structural proteomics and molecular dynamics simulations

Makepeace, K. A. T., Brodie, N. I., Popov, K. I., Gudavicius, G., Nelson, C. J., Petrotchenko, E. V., Dokholyan, N. V. & Borchers, C. H., Jan 16 2020, In : Journal of Proteomics. 211, 103544.

Research output: Contribution to journal › Article

Open Access

Molecular Dynamics Simulation

Proteomics

Molecular dynamics

Ligands

Computer simulation

Abstracts of Presentations at the Association of Clinical Scientists 139^th Meeting Hershey, PA, May 15-18, 2019

Donaldson, K., Buchanich, J. M., Grigson, P. S., Deneke, E., Vrana, K. E., Sacks, D. B., Kuehn, G. J., Cardamone, D., Pesce, A., Smiley, S., Nickley, J., Krock, K., Thomas, R., Wilkerson, M. L., Farag, H. A., Challa, S. R., Tice, A. M., Wolk, D. M., Prichard, J., Grant, M. L. & 102 others, Regmi, S., Kerbacher, B., Quinton, L. E., Tice, A. M., Olson, J., Haynes, A., Yu, E., McCully, K. S., Assi, J., Wong, M., Zarrin-Khameh, N., Nifong, T. P., Hawker, C. D., Carlton, G. T., Rivera, J. M., Foulis, P. R., Zuraw, A., Morlote, D., Peker, D., Reddy, V., Harada, S., Crutchfield, C., Zander, D., Barbhuiya, M. A., Pederson, E. C., Straub, M. L., Scott, S. C., Neibauer, T. L., Salter, W. F., Creer, M. H., Zhu, Y., Bornhorst, J. A., Theobald, J. P., Algeciras-Schimnich, A., Cao, L., Knox, J., Hardy, R., Texas, H. J., McGuire, M. F., Hunter, R. L., Brown, R. E., Hicks, J., Cai, Z., Brown, R. E., Ali, Y., Cheng, K. C., Katz, S. R., Ding, Y., Vanselow, D. J., Yakovlev, M. A., Lin, A. Y., Clark, D. P., Vargas, P., Xin, X., Copper, J. E., Canfield, V. A., Ang, K. C., Wang, Y., Xiao, X., De Carlo, F., van Rossum, D. B., La Rivière, P. J., Newell, J., Hossler, C., Roche, M., Warrick, J., Phaeton, R., Kesterson, J., Myers, C., Barrios, R., Mintz, P., Robyak, K., Hamilton, C., McGhee, P., Pederson, C., Straub, M., Scott, S., Neibauer, T., Salter, W., Robyak, K., Singh, N., Morlote, D., Vnencak-Jones, C., Yemelyanova, A., Harada, S., Shah, M., Moghadamtousi, S. Z., Lan, C., Duose, D., Hu, P., Esquenazi, Y., Luthra, R., Ballester, L. Y., Koenig, A. N., Liu, C. G., Zhang, J., Kalia, A., Al-Habib, A., Van Arsdall, M., Dhingra, S., Patel, K. & Tatevian, N., May 1 2019, In : Annals of clinical and laboratory science. 49, 3, p. 403-416 14 p.

Research output: Contribution to journal › Article

A central core disease mutation in the Ca²⁺-binding site of skeletal muscle ryanodine receptor impairs single-channel regulation

Chirasani, V. R., Xu, L., Addis, H. G., Pasek, D. A., Dokholyan, N. V., Meissner, G. & Yamaguchi, N., Aug 2019, In : American Journal of Physiology - Cell Physiology. 317, 2, p. C358-C365

Research output: Contribution to journal › Article

Central Core Myopathy

Ryanodine Receptor Calcium Release Channel

Skeletal Muscle

Binding Sites

Mutation

Activation of Wnt signaling promotes olaparib resistant ovarian cancer

Yamamoto, T. M., McMellen, A., Watson, Z. L., Aguilera, J., Ferguson, R., Nurmemmedov, E., Thakar, T., Moldovan, G-L., Kim, H., Cittelly, D. M., Joglar, A. M., Brennecke, E. P., Wilson, H., Behbakht, K., Sikora, M. J. & Bitler, B. G., Oct 1 2019, In : Molecular Carcinogenesis. 58, 10, p. 1770-1782 13 p.

Research output: Contribution to journal › Article

Ovarian Neoplasms

Carcinoma

Ovarian Diseases

Recombinational DNA Repair

Cell Line

12 Citations (Scopus)

Allostery in Its Many Disguises: From Theory to Applications

Wodak, S. J., Paci, E., Dokholyan, N. V., Berezovsky, I. N., Horovitz, A., Li, J., Hilser, V. J., Bahar, I., Karanicolas, J., Stock, G., Hamm, P., Stote, R. H., Eberhardt, J., Chebaro, Y., Dejaegere, A., Cecchini, M., Changeux, J. P., Bolhuis, P. G., Vreede, J., Faccioli, P. & 19 others, Orioli, S., Ravasio, R., Yan, L., Brito, C., Wyart, M., Gkeka, P., Rivalta, I., Palermo, G., McCammon, J. A., Panecka-Hofman, J., Wade, R. C., Di Pizio, A., Niv, M. Y., Nussinov, R., Tsai, C. J., Jang, H., Padhorny, D., Kozakov, D. & McLeish, T., Apr 2 2019, In : Structure. 27, 4, p. 566-578 13 p.

Research output: Contribution to journal › Review article

Allosteric Regulation

Biological Phenomena

Education

Drug Design

Signal Transduction

An R package for model fitting, model selection and the simulation for longitudinal data with dropout missingness

Xu, C., Li, Z., Xue, Y., Zhang, L. & Wang, M., Oct 21 2019, In : Communications in Statistics: Simulation and Computation. 48, 9, p. 2812-2829 18 p.

Research output: Contribution to journal › Article

Drop out

Model Fitting

Longitudinal Data

Model Selection

Weighted Estimating Equations

1 Citation (Scopus)

A single nucleotide polymorphism in dopamine beta hydroxylase (rs6271(C>T)) is over-represented in inflammatory bowel disease patients and reduces circulating enzyme

Gonzalez-Lopez, E., Kawasawa-Imamura, Y., Zhang, L., Huang, X., Koltun, W. A., Coates, M. D. & Vrana, K. E., Feb 2019, In : PloS one. 14, 2, e0210175.

Research output: Contribution to journal › Article

Open Access

dopamine beta-monooxygenase

Dopamine beta-Hydroxylase

inflammatory bowel disease

Polymorphism

Inflammatory Bowel Diseases

5 Citations (Scopus)

Association between DNA methylation in obesity-related genes and body mass index percentile in adolescents

He, F., Berg, A., Imamura, Y., Bixler, E., Fernandez-Mendoza, J., Whitsel, E. A. & Liao, D., Dec 1 2019, In : Scientific reports. 9, 1, 2079.

Research output: Contribution to journal › Article

DNA Methylation

Body Mass Index

Obesity

Genes

Pediatric Obesity

2 Citations (Scopus)

Association between inflammatory cytokine levels and anemia during Plasmodium falciparum and Plasmodium vivax infections in Mangaluru: A Southwestern Coastal Region of India

Punnath, K., Dayanand, K. K., Chandrashekhar, V. N., Achur, R. N., Kakkilaya, S. B., Ghosh, S. K., Kumari, S. N. & Gowda, C., Jul 1 2019, In : Tropical Parasitology. 9, 2, p. 98-107 10 p.

Research output: Contribution to journal › Article

Plasmodium vivax

Plasmodium falciparum

Malaria

Anemia

India

Projects 1981 2023

8 Active
46 Finished

Structural and Molecular Basis of Human ATG3 Activation and Regulation for LC3 Lipid Conjugation in Autophagy

Tian, F.

National Institutes of Health

1/15/19 → 12/31/22

Project: Research project

Autophagy

Lipids

Membranes

Heart Neoplasms

Structural Models

Targeting Rab6-km23-1-mediated compartmentalized trafficking as a novel therapeutic approach to Alzheimers Disease

Mulder, K. & Liotta, L. A.

National Institutes of Health

8/15/18 → 5/31/20

Project: Research project

Amyloid beta-Protein Precursor

Alzheimer Disease

Amyloid

Protein Transport

Therapeutics

Penn State Biomedical Big Data to Knowledge (B2D2K) Training Program

Honavar, V. G., Ritchie, M. D., Li, R., Ritchie, M. D. & Broach, J.

National Institutes of Health

4/1/16 → 3/31/21

Project: Research project

Health

Bioinformatics

Statistics

Information science

Big data

Genotoxicity and Repair of Tobacco-Specific Nitrosamine DNA Adducts

Spratt, T.

National Institutes of Health

7/20/12 → 5/31/23

Project: Research project

Nitrosamines

DNA Adducts

Tobacco

Oligodeoxyribonucleotides

Smoke

Preparing for research careers related to diabetes, digestive &kidney diseases

Matters, G., Matters, G., Reeves, W. B. & Bond, J.

National Institutes of Health

6/1/07 → 2/28/22

Project: Research project

chronic illness

career

Disease

student

experience

Ras and Tor Signaling in Yeast

Broach, J.

National Institutes of Health

4/1/07 → 1/31/20

Project: Research project

Yeasts

Food

Transcription Factors

Metabolome

Growth

GENE REGULATION DURING CHLAMYDOMONAS ZYGOTE DEVELOPMENT

Matters, G.

National Institutes of Health

3/14/88 → …

Project: Research project

STUDIES OF PROTEIN FOLDING USING SOLUTION SCATTERING

Flanagan, J.

National Institutes of Health

2/29/88 → …

Project: Research project

Molecular Insights into Membrane Curvature Recognition

Tian, F.

National Institutes of Health

2/1/14 → 11/30/19

Project: Research project

Membranes

Lipids

Bacillus subtilis

Recognition (Psychology)

Capsid Proteins

Directional Motility and ERM Scaffolding in Pathfinder Pancreatic Carcinoma Cells

Mulder, K.

National Institutes of Health

1/1/14 → 12/31/17

Project: Research project

Adenocarcinoma

Actins

Neoplasm Metastasis

Cell Movement

Pancreatic Stellate Cells

Activities 2017 2017

3 Oral presentation

From Morphology to Math: Using whole zebrafish to create the engineering and computational infrastructure for Microanatomic Phenomics

Keith Cheng (Speaker), Y Ding (Speaker), SR Katz (Speaker), AY Lin (Speaker), D van Rossum (Speaker), D Vanselow (Speaker)

Sep 27 2017

Activity: Talk types › Oral presentation

Motivations and Potential for a 3D Image Informatics for Histopathology (Panel Discussion)

Keith Cheng (Speaker)

Nov 4 2017

Activity: Talk types › Oral presentation

Morphometric phenomics and Cross-Atlas Registration of Virtual 3D soft tissue microCT images of Zebrafish

Keith Cheng (Speaker), Y Ding (Speaker), AY Lin (Speaker), M Yakovlev (Speaker), D Vanselow (Speaker), X Xin (Speaker), S Katz (Speaker), D Vanselow (Speaker), PJ La Riviere (Speaker)

Jul 5 2017

Activity: Talk types › Oral presentation