Deepankar Chakroborty

Deepankar Chakroborty

PhD student (Turku Doctoral Programme of Molecular Medicine)

University of Turku

Turku Bioscience

Hi!!

My name is Deepankar, but I generally go by “Deep”. I am a PhD student at the University of Turku in Finland. At the moment, I am conducting research predominantly in the field of Cancer Genetics. I am actively involved in several projects which are aimed at understanding molecular mechanisms of different human Cancers and identifying opportunities for developing targeted therapeutics.

As my PhD project, I developed a new high-throughput screen to discern activating mutations in kinases by constructing a cDNA library encompassing all possible point-mutations in the said kinase. So far, the screen has been used to study the EGFR family of RTKs (EGFR, HER2, HER3, and HER4) and identify activating mutations and assess their druggability with TKIs. Using my screening workflow I am also investigating Therapeutic resistance to ERBB-targeted inhibitors.

I have also developed a collection of webtools using R and shiny which are hosted at https://eleniuslabtools.utu.fi.

Here’s a shorter version of my CV (PDF).

Interests

  • Kinases & Kinase inhibitors
  • Receptor Tyrosine Kinases
  • Mutations in EGFR family
  • Targeted therapeutics
  • Therapeutic resistance
  • Predictive biomarkers

Education

  • PhD in Medical Biochemistry and Genetics, 2015 - now

    University of Turku, Finland

  • MSc in Bioinformatics, 2014

    University of Turku, Finland

  • B.Tech in Biotechnology, 2012

    Amity University, India

Experience

 
 
 
 
 

PhD student

University of Turku

Jan 2015 – Present Turku, Finland

Conducting Functional Genetics research at the laboratory of Prof. Klaus Elenius. My responsibilities included:

  • Planning and conducting Functional Genetics experiments
  • Mammalian cell culture & dose-response analysis (Kinase inhibitors)
  • Analysis of next-generation sequencing data
 
 
 
 
 

Research Assistant

University of Turku

Jun 2014 – Dec 2014 Turku, Finland
While working at the laboratory of Prof. Klaus Elenius. I cloned and tested some retroviral mammalian expression constructs. I also evaluated different methods of random mutagenesis.
 
 
 
 
 

Master’s thesis student

University of Turku and Turku Centre for Biotechnology

Nov 2013 – May 2014 Turku, Finland
Under supervision of Prof. Laura Elo, my project was to investigate an embryonic stem cell marker and its interaction partners in gene expression datasets from different cancer types.
 
 
 
 
 

Summer Internship

Turku Centre for Biotechnology

Jun 2013 – Jul 2013 Turku, Finland
During the internship (supervised by Prof. Laura Elo) my primary task was mining cancer databases (like Oncomine, GEO, ArrayExpress, etc.) and summarizing the data by performing bioinformatics analyses.

More Publications

Quickly discover relevant content by filtering publications.

L1TD1 - a prognostic marker for colon cancer

Background: Prognostic markers specific to a particular cancer type can assist in the evaluation of survival probability of patients …
L1TD1 - a prognostic marker for colon cancer

An unbiased in vitro screen for activating epidermal growth factor receptor mutations

Cancer tissues harbor thousands of mutations, and a given oncogene may be mutated at hundreds of sites, yet only a few of these …
An unbiased in vitro screen for activating epidermal growth factor receptor mutations

Patents

L1TD1 as predictive biomarker of colon cancer

Identification of gene signature predicting positive prognosis in colon cancer using gene expression data.

Funding

Personal Grants

University of Turku Graduate School

Turku Doctoral Program of Molecular Medicine (2020)

University of Turku Graduate School

Turku Doctoral Program of Molecular Medicine (2019)

University of Turku Graduate School

Turku Doctoral Program of Molecular Medicine (2015)

Travels

Courses and Conferences

American Association for Cancer Research, Annual meeting, 2019

Syöpäjärjestöt Travel grant (€ 1 500). TuDMM Travel grant (€ 1 000). LIFESPAN research program, Turku Travel grant (€ 800).

American Association for Cancer Research, Annual meeting, 2018

TuDMM Travel grant (€ 1 000). LIFESPAN research program, Turku Travel grant (€ 800).

EMBO course: Non-neuronal Optogenetics workshop

Travel grant (€ 724): TuDMM. Costs of experiments and accommodation partially covered by EMBO sponsors.

Hobbies

Linux

Debian, Raspberry Pi

Scripting ⌨️

Shell, R, python

Photography

I ❤️ Primes!

We’ll have a great time discussing ☕️

🕶️

Digital Privacy

Pihole, DNS resolvers, FOSS

💶

Money

Equities, ETFs, #Essentialism

🎬

TV shows

The Office, Dark, Chuck

Contact