Research Summary

Pratik Mukherjee, MD, PhD, is a Professor in Residence in the Department Radiology and Biomedical Imaging, Bioengineering, and he is an attending neuroradiologist at the University of California, San Francisco. He is the Director of the Center for Imaging of Neurodegenerative Disease (CIND) based at the San Francisco VA Medical Center. He also directs the Neural Connectivity Laboratory (NCL) at UCSF China Basin.

Dr. Mukherjee received his PhD in Neuroscience from Rockefeller University, New York in 1994 and his MD from Cornell University, New York, in 1995. He completed his internship in Internal Medicine at New York Hospital - Cornell Medical Center, followed by a residency in Radiology and fellowship in Neuroradiology at Washington University Medical Center in St. Louis, Missouri, completed in 2002.

Dr. Mukherjee's primary clinical research is the study of neurodevelopmental disorders and traumatic brain injury (TBI) using advanced MRI. His research has been focused on technical development, neuroscience and clinical applications of advanced imaging methods for mapping structure and function of the human brain, especially diffusion MRI, which is a popular technique for assessing the development and integrity of white matter and for mapping axonal fiber pathways.

Dr. Mukherjee has served as Principal Investigator or Co-Principal Investigator for several NIH grants. His work has also been funded by grants from the Dept. of Defense, the Simons Foundation, McDonnell Foundation, Dana Foundation, Wallace Research Foundation, GE Healthcare and the GE-NFL Head Health Initiative. He has published over 150 peer-reviewed papers.

Research Funding

  • September 1, 2021 - August 31, 2025 - Transforming Research and Clinical Knowledge in Older Veterans with Acute Traumatic Brain Injury (TRACK-VA) , Principal Investigator . Sponsor: US Department of Veterans Affairs, CSRD Merit, Sponsor Award ID: CX002346-01
  • January 1, 2021 - December 31, 2024 - Predicting Outcomes in Pediatric Hemorrhagic Stroke with Personalized Connectomics: Project 2 , . Sponsor: American Heart Association/American Stroke Association Bugher Foundation, Sponsor Award ID: A136503
  • July 8, 2019 - April 30, 2024 - Neural Mechanisms of Sensory OverResponsivity , Principal Investigator . Sponsor: NIH, Sponsor Award ID: R01MH116950
  • September 30, 2017 - July 31, 2022 - MRI CORTICOGRAPHY: DEVELOPING NEXT GENERATION MICROSCALE HUMAN CORTEX MRI SCANNER , Co-Principal Investigator . Sponsor: NIH, Sponsor Award ID: U01EB025162


Yale University, New Haven, CT, B.A., 1988, Computer Science & Psychology
Rockefeller Univ., New York, NY, Ph.D., 1994, Neuroscience
Cornell University, New York, NY, M.D., 1995, Medicine

Honors & Awards

  • 1988-95
    Medical Scientist Training Program Grant, National Institutes of Health
  • 1994
    S. Koide Memorial Fellowship, Rockefeller University
  • 1999
    Roentgen Resident/Fellow Research Award, Radiological Society of North America
  • 2001
    Berlex/ASNR Award in Basic Science Research, American Society of Neuroradiology

Selected Publications

  1. Edlow BL, Boerwinkle VL, Annen J, Boly M, Gosseries O, Laureys S, Mukherjee P, Puybasset L, Stevens RD, Threlkeld ZD, Newcombe VFJ, Fernandez-Espejo D, and the Curing Coma Campaign and its Contributing Members. Correction: Common Data Elements for Disorders of Consciousness: Recommendations from the Working Group on Neuroimaging. Neurocrit Care. 2023 Oct 04.  View on PubMed
  2. Etemad LL, Yue JK, Barber J, Nelson LD, Bodien YG, Satris GG, Belton PJ, Madhok DY, Huie JR, Hamidi S, Tracey JX, Coskun BC, Wong JC, Yuh EL, Mukherjee P, Markowitz AJ, Huang MC, Tarapore PE, Robertson CS, Diaz-Arrastia R, Stein MB, Ferguson AR, Puccio AM, Okonkwo DO, Giacino JT, McCrea MA, Manley GT, Temkin NR, DiGiorgio AM, TRACK-TBI Investigators. Longitudinal Recovery Following Repetitive Traumatic Brain Injury. JAMA Netw Open. 2023 Sep 05; 6(9):e2335804.  View on PubMed
  3. Edlow BL, Boerwinkle VL, Annen J, Boly M, Gosseries O, Laureys S, Mukherjee P, Puybasset L, Stevens RD, Threlkeld ZD, Newcombe VFJ, Fernandez-Espejo D, and the Curing Coma Campaign and  its Contributing Members. Common Data Elements for Disorders of Consciousness: Recommendations from the Working Group on Neuroimaging. Neurocrit Care. 2023 Aug 08.  View on PubMed
  4. Bobba PS, Weber CF, Higaki ARA, Mukherjee P, Scheinost D, Constable RT, Ment L, Taylor SN, Payabvash S. Impact of postnatal weight gain on brain white matter maturation in very preterm infants. J Neuroimaging. 2023 Jul 22.  View on PubMed
  5. Wickwire E, Albrecht JS, Capaldi VF, Jain S, Gardner RC, Smith MT, Williams S, Collen J, Schnyer DM, Giacino J, Nelson LD, Mukherjee P, Sun X, Werner K, Mosti C, Markowitz AJ, Manley GT, Krystal AD. Association between Insomnia and Mental Health and Neurocognitive Outcomes Following Traumatic Brain Injury. J Neurotrauma. 2023 Jul 18.  View on PubMed
  6. Mark IT, Wren-Jarvis J, Xiao J, Cai LT, Parekh S, Bourla I, Lazerwitz MC, Rowe MA, Marco EJ, Mukherjee P. Neurite orientation dispersion and density imaging of white matter microstructure in sensory processing dysfunction with versus without comorbid ADHD. Front Neurosci. 2023; 17:1136424.  View on PubMed
  7. Kryza-Lacombe M, Santiago R, Hwang A, Raptentsetsang S, Maruyama BA, Chen J, Cassar M, Abrams G, Novakovic-Agopian T, Mukherjee P. Resting-State Connectivity Changes After Goal-Oriented Attentional Self-Regulation Training in Veterans With Mild Traumatic Brain Injury: Preliminary Findings from a Randomized Controlled Trial. Neurotrauma Rep. 2023; 4(1):420-432.  View on PubMed
  8. Jakary A, Lupo JM, Mackin S, Yin A, Murray D, Yang T, Mukherjee P, Larson P, Xu D, Eisendrath S, Luks T, Li Y. Evaluation of major depressive disorder using 7 Tesla phase sensitive neuroimaging before and after mindfulness-based cognitive therapy. J Affect Disord. 2023 08 15; 335:383-391.  View on PubMed
  9. Dams-O'Connor K, Awwad HO, Hoffman S, Pugh MJ, Johnson VE, Keene CD, McGavern L, Mukherjee P, Opanashuk L, Umoh N, Sopko G, Zetterberg H. Alzheimer's Disease-Related Dementias Summit 2022: National Research Priorities for the Investigation of Post-Traumatic Brain Injury Alzheimer's Disease and Related Dementias. J Neurotrauma. 2023 08; 40(15-16):1512-1523.  View on PubMed
  10. Mukherjee P, Palacios EM, Manley GT. Response to Hutchinson M. "The Concept of Mild Traumatic Brain Injury: Response to Palacios et al." (doi: 10.1089/neu.2023.0011). J Neurotrauma. 2023 08; 40(15-16):1808-1809.  View on PubMed
  11. Parekh SA, Wren-Jarvis J, Lazerwitz M, Rowe MA, Powers R, Bourla I, Cai LT, Chu R, Trimarchi K, Garcia R, Marco EJ, Mukherjee P. Hemispheric lateralization of white matter microstructure in children and its potential role in sensory processing dysfunction. Front Neurosci. 2023; 17:1088052.  View on PubMed
  12. Yue JK, Kobeissy FH, Jain S, Sun X, Phelps RRL, Korley FK, Gardner RC, Ferguson AR, Huie JR, Schneider ALC, Yang Z, Xu H, Lynch CE, Deng H, Rabinowitz M, Vassar MJ, Taylor SR, Mukherjee P, Yuh EL, Markowitz AJ, Puccio AM, Okonkwo DO, Diaz-Arrastia R, Manley GT, Wang KKW. Neuroinflammatory Biomarkers for Traumatic Brain Injury Diagnosis and Prognosis: A TRACK-TBI Pilot Study. Neurotrauma Rep. 2023; 4(1):171-183.  View on PubMed
  13. Yue JK, Krishnan N, Kanter JH, Deng H, Okonkwo DO, Puccio AM, Madhok DY, Belton PJ, Lindquist BE, Satris GG, Lee YM, Umbach G, Duhaime AC, Mukherjee P, Yuh EL, Valadka AB, DiGiorgio AM, Tarapore PE, Huang MC, Manley GT, TRACK-TBI Investigators. Neuroworsening in the Emergency Department Is a Predictor of Traumatic Brain Injury Intervention and Outcome: A TRACK-TBI Pilot Study. J Clin Med. 2023 03 03; 12(5).  View on PubMed
  14. Stein MB, Jain S, Parodi L, Choi KW, Maihofer AX, Nelson LD, Mukherjee P, Sun X, He F, Okonkwo DO, Giacino JT, Korley FK, Vassar MJ, Robertson CS, McCrea MA, Temkin N, Markowitz AJ, Diaz-Arrastia R, Rosand J, Manley GT, TRACK-TBI Investigators. Polygenic risk for mental disorders as predictors of posttraumatic stress disorder after mild traumatic brain injury. Transl Psychiatry. 2023 01 25; 13(1):24.  View on PubMed
  15. Kulbe JR, Jain S, Nelson LD, Korley FK, Mukherjee P, Sun X, Okonkwo DO, Giacino JT, Vassar MJ, Robertson CS, McCrea MA, Wang KKW, Temkin N, Mac Donald CL, Taylor SR, Ferguson AR, Markowitz AJ, Diaz-Arrastia R, Manley GT, Stein MB, TRACK-TBI Investigators. Correction to: Association of day-of-injury plasma glial fibrillary acidic protein concentration and six-month posttraumatic stress disorder in patients with mild traumatic brain injury. Neuropsychopharmacology. 2022 Dec; 47(13):2332.  View on PubMed
  16. Gardner RC, Puccio AM, Korley FK, Wang KKW, Diaz-Arrastia R, Okonkwo DO, Puffer RC, Yuh EL, Yue JK, Sun X, Taylor SR, Mukherjee P, Jain S, Manley GT, TRACK-TBI Investigators . Effects of age and time since injury on traumatic brain injury blood biomarkers: a TRACK-TBI study. Brain Commun. 2023; 5(1):fcac316.  View on PubMed
  17. Lazerwitz MC, Rowe MA, Trimarchi KJ, Garcia RD, Chu R, Steele MC, Parekh S, Wren-Jarvis J, Bourla I, Mark I, Marco EJ, Mukherjee P. Brief Report: Characterization of Sensory Over-Responsivity in a Broad Neurodevelopmental Concern Cohort Using the Sensory Processing Three Dimensions (SP3D) Assessment. J Autism Dev Disord. 2022 Sep 30.  View on PubMed
  18. Maas AIR, Menon DK, Manley GT, Abrams M, Åkerlund C, Andelic N, Aries M, Bashford T, Bell MJ, Bodien YG, Brett BL, Büki A, Chesnut RM, Citerio G, Clark D, Clasby B, Cooper DJ, Czeiter E, Czosnyka M, Dams-O'Connor K, De Keyser V, Diaz-Arrastia R, Ercole A, van Essen TA, Falvey É, Ferguson AR, Figaji A, Fitzgerald M, Foreman B, Gantner D, Gao G, Giacino J, Gravesteijn B, Guiza F, Gupta D, Gurnell M, Haagsma JA, Hammond FM, Hawryluk G, Hutchinson P, van der Jagt M, Jain S, Jain S, Jiang JY, Kent H, Kolias A, Kompanje EJO, Lecky F, Lingsma HF, Maegele M, Majdan M, Markowitz A, McCrea M, Meyfroidt G, Mikolic A, Mondello S, Mukherjee P, Nelson D, Nelson LD, Newcombe V, Okonkwo D, Orešic M, Peul W, Pisica D, Polinder S, Ponsford J, Puybasset L, Raj R, Robba C, Røe C, Rosand J, Schueler P, Sharp DJ, Smielewski P, Stein MB, von Steinbüchel N, Stewart W, Steyerberg EW, Stocchetti N, Temkin N, Tenovuo O, Theadom A, Thomas I, Espin AT, Turgeon AF, Unterberg A, Van Praag D, van Veen E, Verheyden J, Vyvere TV, Wang KKW, Wiegers EJA, Williams WH, Wilson L, Wisniewski SR, Younsi A, Yue JK, Yuh EL, Zeiler FA, Zeldovich M, Zemek R, InTBIR Participants and Investigators. Traumatic brain injury: progress and challenges in prevention, clinical care, and research. Lancet Neurol. 2022 11; 21(11):1004-1060.  View on PubMed
  19. Cai LT, Brett BL, Palacios EM, Yuh EL, Bourla I, Wren-Jarvis J, Wang Y, Mac Donald C, Diaz-Arrastia R, Giacino JT, Okonkwo DO, Levin HS, Robertson CS, Temkin N, Markowitz AJ, Manley GT, Stein MB, McCrea MA, Zafonte RD, Nelson LD, Mukherjee P, TRACK-TBI Investigators. Emotional Resilience Predicts Preserved White Matter Microstructure Following Mild Traumatic Brain Injury. Biol Psychiatry Cogn Neurosci Neuroimaging. 2022 Sep 21.  View on PubMed
  20. Weber CF, Lake EMR, Haider SP, Mozayan A, Mukherjee P, Scheinost D, Bamford NS, Ment L, Constable T, Payabvash S. Age-dependent white matter microstructural disintegrity in autism spectrum disorder. Front Neurosci. 2022; 16:957018.  View on PubMed

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