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Mukherjee is a learned and eclectic musician – although he was an Imdadkhani sitar student of Enayat Khan, a full list of his teachers also includes sitarist Balaram Pathak, khyal singers Badri Prasad and Jaichand Bhatt of the Patiala and Kirana gharanas, Rampur gharana beenkar Jotish Chandra Chowdhury, sarangi and esraj maestros Halkeram Bhat (Maihar gharana) and Chandrikaprasad Dube (Gaya gharana) and pakhavaj drummer Madhavrao Alkutkar. He also studied with Birendra Kishore Roy Chowdhury, the zamindar of Gouripur in present-day Bangladesh, who taught him the moribund sursringar (bass sarod).
Mukherjee is the father and teacher of sitar player Budhaditya Mukherjee. His other students include Dr. Arvind V. Joshi, Aniruddha A. Joshi, Arun Moroney, Sanjoy Bandopadhyay, Pt. Sudhir Kumar, Anupama Bhagwat, Joydeep Ghosh, Madhusudan RS (sarod), Ravi Sharma, Rajeev Janardan, Kamala Shankar,K. Rohan Naidu,  Brigitte Menon.
He should not be confused with Bimal Mukherjee, a sitar player of the same generation.
- Who's who of Indian musicians. Sangeet Natak Akademi. 1968. p. 45.
- "Stringing along". The Hindu. 10 October 2008. Retrieved 6 May 2009.
- The list was available on Budhaditya Mukherjee's budhaditya.com in 2006.
- Kinnear, Michael S (1985). A discography of Hindustani and Karnatic music. Greenwood Press. p. 39. ISBN 0-313-24479-0.
- "Sitar recital set for San Ramon". The Oakland Tribune. 19 May 2006. Retrieved 6 May 2009.
- "Odd woman out". The Hindu. 2 October 2003. Retrieved 6 May 2009.