University of Washington · Department of Medicine

Shubhabrata
Mukherjee

Research Associate Professor
Division of General Internal Medicine
smukherj@uw.edu (206) 685-5222 908 Jefferson NJB1318 · Seattle, WA 98104 Google Scholar
Shubhabrata Mukherjee
01

Research Interests

Statistical Genetics
Genome-wide association studies of Alzheimer's disease and cognitive endophenotypes across multi-ancestry cohorts, systems-biology approaches integrating protein–protein interaction networks, cognitively-defined AD subgrouping across five studies, and multi-ancestry analyses of genetic resilience and sex-specific AD loci.
F
Psychometrics & Cognitive Harmonization
Development of harmonized cognitive composite scores (memory, executive function, language, visuospatial) across major aging cohorts using confirmatory factor analysis, item response theory, differential item functioning, and co-calibration methods.
Neuropathology & AD Subtyping
Harmonized brain pathology scoring across autopsy cohorts (ACT, ROS, MAP, NACC), genetic and transcriptomic correlates of mixed neuropathology burden, neuropathological endophenotype GWAS, and cell-type-level analyses through the Seattle AD Brain Cell Atlas.
Biostatistical Methods
Statistical machine learning bridging molecular knowledge and diagnostics, change-point models for cognitive decline, and measurement precision methods in longitudinal cognitive aging studies.
02

Education & Academic Positions

Education
2007
Univ. of Louisiana at Lafayette
PhD & MS in Statistics
PhD Thesis: Tolerance Limits and Stress-Strength Reliability for Continuous Models
2003
IIT Kharagpur
MS in Mathematics
Thesis: Mathematical Modeling of DNA Knots and Links
Academic Positions
2019–Present
University of Washington
Research Associate Professor
Department of Medicine
2013–2019
University of Washington
Research Assistant Professor
Department of Medicine
2008–2013
University of Washington
Postgraduate Senior Fellow
Department of Medicine
03

Research Funding

Current
R01 AG082730
Genetic Architecture of Pure AD and Mixed Pathology
National Institute on Aging · 09/2023–05/2028
Multiple PI NIH Reporter
R01 AG096677
Genetic Architecture of Executive Functioning and its Resilience
National Institute on Aging · 07/2025–06/2030
Multiple PI NIH Reporter
U19 AG066567
Cognitively Defined Alzheimer's Subgroups: Natural History, Neuropathology, and Life Course Ramifications
National Institute on Aging · 05/2021–04/2026
Co-Investigator NIH Reporter
R01 AG073439
Sex-Specific Genetic Drivers of Alzheimer's Disease Endophenotypes
National Institute on Aging · 09/2021–06/2026
Co-I / UW Subcontract PI NIH Reporter
U24 AG074855
Alzheimer's Disease Sequencing Project – Phenotype Harmonization Consortium
National Institute on Aging · 09/2021–08/2026
Co-Investigator NIH Reporter
U19 AG074879
CLEARAD: Centrally-linked Longitudinal Peripheral Biomarkers of AD in Multi-ethnic Populations
National Institute on Aging · 09/2023–08/2028
Co-I / UW Subcontract PI NIH Reporter
P01 AG078112
A Multimodal Brain Cell Atlas of Alzheimer's Disease and Comorbid Dementias
National Institute on Aging · 09/2025–08/2030
Co-Investigator NIH Reporter
U24 AG092760
Open Measurement Network Initiative – ADRD
National Institute on Aging · 04/2025–03/2030
Co-Investigator NIH Reporter
R01 AG085375
Optimism and Dementia-Related Health Outcomes
National Institute on Aging · 07/2024–06/2029
Co-Investigator NIH Reporter
Past
K25 AG055620
Molecular Mechanisms of Alzheimer's Disease Neuropathological Endophenotypes
NIA · 05/2018–04/2024
PI NIH Reporter
R01 AG029672
ADNI Psychometrics
NIA · 04/2017–03/2024
Co-Investigator NIH Reporter
U19 AG060909
Platform for Cell Type-Level Transcriptomic and Epigenomic Interrogation of Alzheimer's Disease
NIA · 05/2020–04/2025
Co-Investigator NIH Reporter
R01 AG061028
Leveraging Existing Aging Research Networks to Investigate TBI and AD/ADRD Risk
NIA · 03/2019–11/2024
Co-Investigator NIH Reporter
U01 AG068057
Ultrascale Machine Learning to Empower Discovery in Alzheimer's Disease Biobanks
NIA · 09/2020–08/2025
Co-Investigator NIH Reporter
R01 ES026187
Air Pollution, Occupational Exposure and Risk of Alzheimer's Disease
NIEHS · 09/2016–07/2021
Co-Investigator NIH Reporter
R01 AG051170
Psychometric Integrative Technology for Cognitive Health Research
NIA · 09/2015–05/2020
Co-Investigator NIH Reporter
U01 NS086625
Neuropathology of CTE & Delayed Effects of TBI: Towards In Vivo Diagnostics
NINDS · 01/2014–12/2018
Co-Investigator NIH Reporter
R01 AG042437
Genetic Architecture of Memory and Executive Functioning in Alzheimer's Disease
NIA · 09/2014–05/2018
Co-Investigator NIH Reporter
U01 HG006375
Genetic Discovery and Application in a Clinical Setting
NHGRI · 08/2011–07/2015
Co-Investigator NIH Reporter
04

Publications

Key Publications — First & Second Author
PLoS Medicine 2nd Author 2015
Associations between potentially modifiable risk factors and Alzheimer's disease: A Mendelian randomization study
Ostergaard SO, Mukherjee S, Sharp SJ, et al.
PubMed
Alzheimer's & Dementia 1st Author 2017
Systems-biology approach to Late-Onset Alzheimer's Disease GWAS identifies novel candidate genes validated in C. elegans
Mukherjee S, Russell JC, Carr DT, Burgess JD, et al.
PubMed
Molecular Psychiatry 1st Author 2018
Genetic data support the biological coherence of cognitively-defined late-onset Alzheimer's disease subgroups
Mukherjee S, Mez J, Trittschuh EH, Saykin AJ, et al.
PubMed
Neuropsychology 1st Author 2022
Cognitive domain harmonization and co-calibration in studies of older adults
Mukherjee S, Choi S-E, Lee ML, Scollard P, et al.
PubMed
99
Agrawal A, Rachleff VM, Travaglini KJ, Mukherjee S, Crane PK, …, Gabitto MI (2026). BBIND: Biophysical Bayesian Inference for Neurodegenerative Dynamics. Annals of Applied Statistics (accepted).
91
Peter C, Sathe A, …, Mukherjee S, …, Archer DB (2025). White matter abnormalities in aging and Alzheimer's disease: A harmonized study of cognitive performance and decline across multiple domains. JAMA Neurology, 82(8):825–836. PubMed
88
Gabitto MI, Travaglini KJ, …, Mukherjee S, Crane PK, …, Lein ES (2024). Integrated multimodal cell atlas of Alzheimer's disease. Nature Neuroscience. doi: 10.1038/s41593-024-01774-5. PubMed
87
Shade LMP, Katsumata Y, …, Mukherjee S, …, Fardo DW (2024). Genome-wide association study of multiple neuropathology endophenotypes identifies novel risk loci. Nature Genetics. doi: 10.1038/s41588-024-01939-9. PubMed
86
Wu Y, Sun Z, …, Mukherjee S, Fletcher JM, Lu Q (2024). Pervasive biases in proxy GWAS based on parental history of Alzheimer's disease. Nature Genetics. DOI
83
Kang M, Ang TFA, …, Mukherjee S, …, Farrer LA (2023). A genome-wide search for pleiotropy in more than 100,000 harmonized longitudinal cognitive domain scores. Molecular Degeneration, 18(1):40. Top 10% Most-Viewed PubMed
80
Archer DB, Eissman JM, Mukherjee S, …, Hohman TJ (2023). Longitudinal change in memory performance as a strong endophenotype for Alzheimer's disease. Alzheimer's & Dementia, 20(2):1268–1283. Top 10% Most-Viewed PubMed
74
Mukherjee S, Choi S-E, Lee ML, Scollard P, …, Crane PK (2022). Cognitive domain harmonization and co-calibration in studies of older adults. Neuropsychology, 37(4):409–423. PubMed
View All Publications on PubMed ↗

103 peer-reviewed articles · 1 book chapter · 11 manuscripts under review · Selected recent publications shown above

05

Editorial & Professional Service

Editorial Roles
  • Specialty Chief Editor, Genetics & Biomarkers of Dementia — Frontiers in Dementia
  • Associate Editor, Statistical Genetics & Methodology — Frontiers in Genetics
  • Review Editor, Dementia and Neurodegenerative Diseases — Frontiers in Neurology
  • Editor — PLoS One
Ad-hoc Reviewer
  • Alzheimer's & Dementia
  • Nature Scientific Reports
  • The Lancet Diabetes & Endocrinology
  • Biological Psychiatry · Metrika · PLoS One
  • Nature Parkinson's Disease
Grant Review
  • NIH Molecular Neurodegeneration Study Section (2025)
  • Alzheimer's Association New Investigator Awards (2014)
  • UK Medical Research Council (2015)
  • BRACE – Alzheimer's Research Grant, UK (2016)
  • UW Royalty Research Fund
Leadership
  • Specialty Chief Editor, Frontiers Research Topic on Biomarkers in Underrepresented Populations (2025)
  • Chair, MELODEM Initiative Session, Joint Statistical Meetings (2021)
  • Co-organizer, 14th Advanced Psychometrics Workshop, Friday Harbor, WA (2017)
  • Invited Session Chair, AAICAD Copenhagen (2014)
  • Speaker & Panelist, ADSP PHC, AAIC Amsterdam (2023)
06

Collaborating Networks

Active member and analyst in eight major Alzheimer's disease research consortia spanning genomics, biomarkers, neuropathology, and cognitive harmonization.

ADGC Alzheimer's Disease Genetics Consortium
ADSP Alzheimer's Disease Sequencing Project
ADSP‑PHC ADSP Phenotype Harmonization Consortium
SEA‑AD Seattle Alzheimer's Disease Brain Cell Atlas
AI4AD AI for Alzheimer's Disease
CLEAR‑AD Centrally-linked Longitudinal Peripheral Biomarkers of AD
NACC National Alzheimer's Coordinating Center
UCL London Queen Square Institute of Neurology — Neurodegenerative Disease