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

  • July 8, 2019 - April 30, 2024 - Neural Mechanisms of Sensory OverResponsivity, Principal Investigator. Sponsor: NIH/NIMH, 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/NIBIB, Sponsor Award ID: U01EB025162
  • February 1, 2017 - September 30, 2021 - Multi-level assessment and rehabilitation of combat mild traumatic brain injury, Principal Investigator. Sponsor: VA, Sponsor Award ID: I01RX002300
  • January 1, 2019 - September 30, 2019 - ShEEP IC Request to purchase MAGNETOM Terra 7T coil upgrade, Principal Investigator. Sponsor: VA, Sponsor Award ID: IS1BX004816

Education

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. Nolan AL, Petersen C, Iacono D, Mac Donald CL, Mukherjee P, van der Kouwe A, Jain S, Stevens A, Diamond B, Wang R, Markowitz AJ, Fischl B, Perl D, Manley GT, Keene CD, Diaz-Arrastia R, Edlow BL Tractography-Pathology Correlations in Traumatic Brain Injury: A TRACK-TBI Study.  View on PubMed
  2. Xu LB, Yue JK, Korley F, Puccio AM, Yuh EL, Sun X, Rabinowitz M, Vassar MJ, Taylor SR, Winkler EA, Puffer RC, Deng H, McCrea M, Stein MB, Robertson CS, Levin HS, Dikmen S, Temkin NR, Giacino JT, Mukherjee P, Wang KKW, Okonkwo DO, Markowitz AJ, Jain S, Manley GT, Diaz-Arrastia R High-Sensitivity C-Reactive Protein Is a Prognostic Biomarker of Six-Month Disability after Traumatic Brain Injury: Results from the TRACK-TBI Study.  View on PubMed
  3. Agtarap SD, Campbell-Sills L, Jain S, Sun X, Dikmen S, Levin H, McCrea MA, Mukherjee P, Nelson LD, Temkin N, Yuh EL, Giacino JT, Manley GT, Stein MB Satisfaction with Life after Mild Traumatic Brain Injury: A TRACK-TBI Study.  View on PubMed
  4. Lerma-Usabiaga G, Mukherjee P, Perry ML, Wandell BA Data-science ready, multisite, human diffusion MRI white-matter-tract statistics.  View on PubMed
  5. Maruta J, Mallott JM, Sulioti G, Ghajar J, Palacios EM, Mukherjee P Concussion Disrupts Normal Brain White Matter Microstructural Symmetry.  View on PubMed
  6. Stein MB, Yuh E, Jain S, Okonkwo DO, Mac Donald CL, Levin H, Giacino JT, Dikmen S, Vassar MJ, Diaz-Arrastia R, Robertson CS, Nelson LD, McCrea M, Sun X, Temkin N, Taylor SR, Markowitz AJ, Manley GT, Mukherjee P Smaller Regional Brain Volumes Predict Posttraumatic Stress Disorder at 3 Months After Mild Traumatic Brain Injury.  View on PubMed
  7. Okonkwo DO, Puffer RC, Puccio AM, Yuh EL, Yue JK, Diaz-Arrastia R, Korley FK, Wang KKW, Sun X, Taylor SR, Mukherjee P, Markowitz AJ, Jain S, Manley GT Point-of-Care Platform Blood Biomarker Testing of Glial Fibrillary Acidic Protein versus S100 Calcium-Binding Protein B for Prediction of Traumatic Brain Injuries: A Transforming Research and Clinical Knowledge in Traumatic Brain Injury Study.  View on PubMed
  8. Deng H, Yue JK, Mukherjee P Atypical Presentation of Severe Posterior Reversible Encephalopathy Syndrome: An Important Diagnosis in Neurocritical Care.  View on PubMed
  9. Raji CA, Wang MB, Nguyen N, Owen JP, Palacios EM, Yuh EL, Mukherjee P Connectome mapping with edge density imaging differentiates pediatric mild traumatic brain injury from typically developing controls: proof of concept.  View on PubMed
  10. Agtarap S, Kramer MD, Campbell-Sills L, Yuh E, Mukherjee P, Manley GT, McCrea MA, Dikmen S, Giacino JT, Stein MB, Nelson LD Invariance of the Bifactor Structure of Mild Traumatic Brain Injury (mTBI) Symptoms on the Rivermead Postconcussion Symptoms Questionnaire Across Time, Demographic Characteristics, and Clinical Groups: A TRACK-TBI Study.  View on PubMed
  11. Raj A, Cai C, Xie X, Palacios E, Owen J, Mukherjee P, Nagarajan S Spectral graph theory of brain oscillations.  View on PubMed
  12. Thompson PM, Jahanshad N, Ching CRK, Salminen LE, Thomopoulos SI, Bright J, Baune BT, Bertolín S, Bralten J, Bruin WB, Bülow R, Chen J, Chye Y, Dannlowski U, de Kovel CGF, Donohoe G, Eyler LT, Faraone SV, Favre P, Filippi CA, Frodl T, Garijo D, Gil Y, Grabe HJ, Grasby KL, Hajek T, Han LKM, Hatton SN, Hilbert K, Ho TC, Holleran L, Homuth G, Hosten N, Houenou J, Ivanov I, Jia T, Kelly S, Klein M, Kwon JS, Laansma MA, Leerssen J, Lueken U, Nunes A, Neill JO, Opel N, Piras F, Piras F, Postema MC, Pozzi E, Shatokhina N, Soriano-Mas C, Spalletta G, Sun D, Teumer A, Tilot AK, Tozzi L, van der Merwe C, Van Someren EJW, van Wingen GA, Völzke H, Walton E, Wang L, Winkler AM, Wittfeld K, Wright MJ, Yun JY, Zhang G, Zhang-James Y, Adhikari BM, Agartz I, Aghajani M, Aleman A, Althoff RR, Altmann A, Andreassen OA, Baron DA, Bartnik-Olson BL, Marie Bas-Hoogendam J, Baskin-Sommers AR, Bearden CE, Berner LA, Boedhoe PSW, Brouwer RM, Buitelaar JK, Caeyenberghs K, Cecil CAM, Cohen RA, Cole JH, Conrod PJ, De Brito SA, de Zwarte SMC, Dennis EL, Desrivieres S, Dima D, Ehrlich S, Esopenko C, Fairchild G, Fisher SE, Fouche JP, Francks C, Frangou S, Franke B, Garavan HP, Glahn DC, Groenewold NA, Gurholt TP, Gutman BA, Hahn T, Harding IH, Hernaus D, Hibar DP, Hillary FG, Hoogman M, Hulshoff Pol HE, Jalbrzikowski M, Karkashadze GA, Klapwijk ET, Knickmeyer RC, Kochunov P, Koerte IK, Kong XZ, Liew SL, Lin AP, Logue MW, Luders E, Macciardi F, Mackey S, Mayer AR, McDonald CR, McMahon AB, Medland SE, Modinos G, Morey RA, Mueller SC, Mukherjee P, Namazova-Baranova L, Nir TM, Olsen A, Paschou P, Pine DS, Pizzagalli F, Rentería ME, Rohrer JD, Sämann PG, Schmaal L, Schumann G, Shiroishi MS, Sisodiya SM, Smit DJA, Sønderby IE, Stein DJ, Stein JL, Tahmasian M, Tate DF, Turner JA, van den Heuvel OA, van der Wee NJA, van der Werf YD, van Erp TGM, van Haren NEM, van Rooij D, van Velzen LS, Veer IM, Veltman DJ, Villalon-Reina JE, Walter H, Whelan CD, Wilde EA, Zarei M, Zelman V ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries.  View on PubMed
  13. Yue JK, Phelps RRL, Winkler EA, Deng H, Upadhyayula PS, Vassar MJ, Madhok DY, Schnyer DM, Puccio AM, Lingsma HF, Yuh EL, Mukherjee P, Valadka AB, Okonkwo DO, Manley GT Substance use on admission toxicology screen is associated with peri-injury factors and six-month outcome after traumatic brain injury: A TRACK-TBI Pilot study.  View on PubMed
  14. Matsuzaki J, Berman JI, Blaskey L, Kuschner ES, Gaetz L, Mukherjee P, Buckner RL, Nagarajan SS, Chung WK, Sherr EH, Roberts TPL Abnormal Auditory Mismatch Fields in Children and Adolescents With 16p11.2 Deletion and 16p11.2 Duplication.  View on PubMed
  15. Kuo W, H?ne C, Mukherjee P, Malik J, Yuh EL Expert-level detection of acute intracranial hemorrhage on head computed tomography using deep learning.  View on PubMed
  16. Teena Shetty, Joseph Nguyen, Esther Kim, George Skulikidis, Matthew Garvey, Caitlin Miller, Taylor Sogsil, Apostolos Tsiouris, Sumit Niogi, Aashka Dalal, Kristin Halvorsen, Tianhao Zhang, Joseph Masdeu, Pratik Mukherjee, Luca Marinelli Resting State Functional Connectivity is Directly Related to Clinical Presentation of Mild Traumatic Brain Injury.  View on PubMed
  17. John K Yue, Ethan A Winkler, Hansen Deng, Ryan R L Phelps, Ankush Chandra, Mary J Vassar, David M Schnyer, Ava Puccio, Hester F Lingsma, Esther Yuh, Pratik Mukherjee, Alex B Valadka, David O Okonkwo, Geoffrey T Manley Brain Derived Neurotrophic Factor (BDNF) Val66Met Single Nucleotide Polymorphism (rs6265) is Associated With Decreased Functional Outcome After Traumatic Brain Injury: A Multicenter Cohort Study.  View on PubMed
  18. Jordan K, Morin O, Wahl M, Amirbekian B, Chapman C, Owen J, Mukherjee P, Braunstein S, Henry R An Open-Source Tool for Anisotropic Radiation Therapy Planning in Neuro-oncology Using DW-MRI Tractography.  View on PubMed
  19. Kim H, Irimia A, Hobel SM, Pogosyan M, Tang H, Petrosyan P, Blanco REC, Duffy BA, Zhao L, Crawford KL, Liew SL, Clark K, Law M, Mukherjee P, Manley GT, Van Horn JD, Toga AW The LONI QC System: A Semi-Automated, Web-Based and Freely-Available Environment for the Comprehensive Quality Control of Neuroimaging Data.  View on PubMed
  20. Yue JK, Yuh EL, Korley FK, Winkler EA, Sun X, Puffer RC, Deng H, Choy W, Chandra A, Taylor SR, Ferguson AR, Huie JR, Rabinowitz M, Puccio AM, Mukherjee P, Vassar MJ, Wang KKW, Diaz-Arrastia R, Okonkwo DO, Jain S, Manley GT Association between plasma GFAP concentrations and MRI abnormalities in patients with CT-negative traumatic brain injury in the TRACK-TBI cohort: a prospective multicentre study.  View on PubMed

Go to UCSF Profiles, powered by CTSI