This collection is limited to articles published under the terms of a creative commons license or other open access publishing agreement since 2016. It is not intended as a complete list of the author's works.

Recent Submissions

  • Proteomic profiles of prevalent mild cognitive impairment and Alzheimer's disease among adults with Down syndrome 

    Petersen, Melissa E.; Zhang, Fan; Krinsky-McHale, Sharon J.; Silverman, Wayne; Lee, Joseph H.; Pang, Deborah; Hall, James R.; Schupf, Nicole; O'Bryant, Sid E.; 0000-0003-0582-5266 (O'Bryant, Sid E.); 0000-0002-3920-5877 (Petersen, Melissa E.) (Wiley Periodicals, Inc., 2020-04-17)
    Introduction: We sought to determine if a proteomic profile approach developed to detect Alzheimer's disease (AD) in the general population would apply to adults with Down syndrome (DS). Methods: Plasma samples were ...
  • Proteomic profiles for Alzheimer's disease and mild cognitive impairment among adults with Down syndrome spanning serum and plasma: An Alzheimer's Biomarker Consortium-Down Syndrome (ABC-DS) study 

    Petersen, Melissa E.; Zhang, Fan; Schupf, Nicole; Krinsky-McHale, Sharon J.; Hall, James R.; Mapstone, Mark; Cheema, Amrita; Silverman, Wayne; Lott, Ira; Rafii, Michael S.; Handen, Benjamin; Klunk, William; Head, Elizabeth; Christian, Bradley; Foroud, Tatiana; Lai, Florence; Rosas, H. Diana; Zaman, Shahid; Ances, Beau M.; Wang, Mei-Cheng; Tycko, Benjamin; Lee, Joseph H.; O'Bryant, Sid E.; 0000-0003-0582-5266 (O'Bryant, Sid E.); 0000-0002-3920-5877 (Petersen, Melissa E.) (Wiley Periodicals, Inc., 2020-06-30)
    Introduction: Previously generated serum and plasma proteomic profiles were examined among adults with Down syndrome (DS) to determine whether these profiles could discriminate those with mild cognitive impairment (MCI-DS) ...
  • Accelerating Hyperparameter Tuning in Machine Learning for Alzheimer's Disease With High Performance Computing 

    Zhang, Fan; Petersen, Melissa E.; Johnson, Leigh A.; Hall, James R.; O'Bryant, Sid E.; 0000-0003-0582-5266 (O'Bryant, Sid E.); 0000-0001-7769-8417 (Johnson, Leigh A.); 0000-0002-3920-5877 (Petersen, Melissa E.) (Frontiers Media S.A., 2021-12-08)
    Driven by massive datasets that comprise biomarkers from both blood and magnetic resonance imaging (MRI), the need for advanced learning algorithms and accelerator architectures, such as GPUs and FPGAs has increased. Machine ...
  • Neurodegeneration from the AT(N) framework is different among Mexican Americans compared to non-Hispanic Whites: A Health & Aging Brain among Latino Elders (HABLE) Study 

    O'Bryant, Sid E.; Zhang, Fan; Petersen, Melissa E.; Hall, James R.; Johnson, Leigh A.; Yaffe, Kristine; Braskie, Meredith N.; Rissman, Robert A.; Vig, Rocky; Toga, Arthur W.; 0000-0003-0582-5266 (O'Bryant, Sid E.); 0000-0001-7769-8417 (Johnson, Leigh A.); 0000-0002-3920-5877 (Petersen, Melissa E.) (Wiley Periodicals, LLC, 2022-02-09)
    Introduction: We sought to examine a magnetic resonance imaging (MRI)-based marker of neurodegeneration from the AT(N) (amyloid/tau/neurodegeneration) framework among a multi-ethnic, community-dwelling cohort. Methods: ...
  • A Precision Medicine Approach to Treating Alzheimer's Disease Using Rosiglitazone Therapy: A Biomarker Analysis of the REFLECT Trials 

    O'Bryant, Sid E.; Zhang, Fan; Petersen, Melissa E.; Johnson, Leigh A.; Hall, James R.; Rissman, Robert A.; 0000-0003-0582-5266 (O'Bryant, Sid E.); 0000-0001-7769-8417 (Johnson, Leigh A.); 0000-0002-3920-5877 (Petersen, Melissa E.) (IOS Press, 2021-05-18)
    Background: The REFLECT trials were conducted to examine the treatment of mild-to-moderate Alzheimer's disease utilizing a peroxisome proliferator-activated receptor gamma agonist. Objective: To generate a predictive ...
  • Proteomic profiles of incident mild cognitive impairment and Alzheimer's disease among adults with Down syndrome 

    O'Bryant, Sid E.; Zhang, Fan; Silverman, Wayne; Lee, Joseph H.; Krinsky-McHale, Sharon J.; Pang, Deborah; Hall, James R.; Schupf, Nicole; 0000-0003-0582-5266 (O'Bryant, Sid E.) (Wiley Periodicals, Inc., 2020-05-21)
    Introduction: We sought to determine if proteomic profiles could predict risk for incident mild cognitive impairment (MCI) and Alzheimer's disease (AD) among adults with Down syndrome (DS). Methods: In a cohort of 398 ...
  • Potential two-step proteomic signature for Parkinson's disease: Pilot analysis in the Harvard Biomarkers Study 

    O'Bryant, Sid E.; Edwards, Melissa; Zhang, Fan; Johnson, Leigh A.; Hall, James R.; Kuras, Yuliya; Scherzer, Clemens R.; 0000-0003-0582-5266 (O'Bryant, Sid E.); 0000-0001-7769-8417 (Johnson, Leigh A.) (Elsevier Inc., 2019-05-02)
    Introduction: We sought to determine if our previously validated proteomic profile for detecting Alzheimer's disease would detect Parkinson's disease (PD) and distinguish PD from other neurodegenerative diseases. Methods: ...
  • A proteomic signature for dementia with Lewy bodies 

    O'Bryant, Sid E.; Ferman, Tanis J.; Zhang, Fan; Hall, James R.; Pedraza, Otto; Wszolek, Zbigniew K.; Como, Tori; Julovich, David A.; Mattevada, Sravan; Johnson, Leigh A.; Edwards, Melissa; Graff-Radford, Neill R.; 0000-0003-0582-5266 (O'Bryant, Sid E.); 0000-0001-7769-8417 (Johnson, Leigh A.) (Elsevier Inc., 2019-03-15)
    Introduction: We sought to determine if a proteomic profile approach developed to detect Alzheimer's disease would distinguish patients with Lewy body disease from normal controls, and if it would distinguish dementia with ...
  • Identification of novel alternative splicing biomarkers for breast cancer with LC/MS/MS and RNA-Seq 

    Zhang, Fan; Deng, Chris K.; Wang, Mu; Deng, Bin; Barber, Robert C.; Huang, Gang; 0000-0001-6857-0286 (Barber, Robert C.) (BioMed Central Ltd., 2020-12-03)
    Background: Alternative splicing isoforms have been reported as a new and robust class of diagnostic biomarkers. Over 95% of human genes are estimated to be alternatively spliced as a powerful means of producing functionally ...
  • Identification of long non-coding RNA-related and -coexpressed mRNA biomarkers for hepatocellular carcinoma 

    Zhang, Fan; Ding, Linda; Cui, Li; Barber, Robert C.; Deng, Bin; 0000-0001-6857-0286 (Barber, Robert C.) (BioMed Central Ltd., 2019-01-31)
    Background: While changes in mRNA expression during tumorigenesis have been used widely as molecular biomarkers for the diagnosis of a number of cancers, the approach has limitations. For example, traditional methods do ...
  • The Health & Aging Brain among Latino Elders (HABLE) study methods and participant characteristics 

    O'Bryant, Sid E.; Johnson, Leigh A.; Barber, Robert C.; Braskie, Meredith N.; Christian, Bradley; Hall, James R.; Hazra, Nalini; King, Kevin; Kothapalli, Deydeep; Large, Stephanie; Mason, David; Matsiyevskiy, Elizabeth; McColl, Roderick; Nandy, Rajesh; Palmer, Raymond; Petersen, Melissa E.; Philips, Nicole; Rissman, Robert A.; Shi, Yonggang; Toga, Arthur W.; Vintimilla, Raul; Vig, Rocky; Zhang, Fan; Yaffe, Kristine; 0000-0001-6857-0286 (Barber, Robert C.); 0000-0003-0582-5266 O'Bryant, Sid E.; 0000-0001-7769-8417 (Johnson, Leigh A.); 0000-0002-3920-5877 (Petersen, Melissa E.) (Wiley Periodicals, LLC, 2021-06-21)
    Introduction: Mexican Americans remain severely underrepresented in Alzheimer's disease (AD) research. The Health & Aging Brain among Latino Elders (HABLE) study was created to fill important gaps in the existing literature. ...
  • IPAD: the Integrated Pathway Analysis Database for Systematic Enrichment Analysis 

    Zhang, Fan; Drabier, Renee (Springer Nature, 2012)
    Background: Next-Generation Sequencing (NGS) technologies and Genome-Wide Association Studies (GWAS) generate millions of reads and hundreds of datasets, and there is an urgent need for a better way to accurately interpret ...
  • SASD: The Synthetic Alternative Splicing Database for identifying novel isoform from proteomics 

    Zhang, Fan; Drabier, Renee (2013)
    Background: Alternative splicing is an important and widespread mechanism for generating protein diversity and regulating protein expression. High-throughput identification and analysis of alternative splicing in the protein ...