Dr. Sajib Chakraborty
(Associate Professor (Study Leave))Department of Biochemistry and Molecular Biology
| Degree Name | Group/Major Subject | Board/Institute | Country | Passing Year |
|---|---|---|---|---|
| Ph.D. | Proteomics and Systems Biology | German Cancer Research Center (DKFZ), Heidelberg, | Germany | 2016 |
| Masters | Molecular Medicine | University College London, London, UK | United Kingdom | 2010 |
| Masters | Biochemistry and Molecular Biology | University of Dhaka, Dhaka, Bangladesh | Bangladesh | 2006 |
| Bachelor | Biochemistry and Molecular Biology | University of Dhaka, Dhaka, Bangladesh | Bangladesh | 2005 |
| Title | Organization | Location | From Date | To Date |
|---|---|---|---|---|
| Associate Professor | University of Dhaka | Dhaka, Bangladesh | 26, Dec 2018 | Currently Working |
| Assistant Professor | University of Dhaka | Dhaka, Bangladesh | 26, Dec 2016 | 25-12-2018 |
| MSc practical course corodinator | German Cancer Research Center (DKFZ), Heidelberg | Heidelberg, Germany | 01, Jan 2013 | 01-12-2016 |
| Research Fellow | Imperial College London | London, UK | 01, Feb 2010 | 31-07-2010 |
| Research Officer | International Centre for Diarrhoeal Disease Research, Bangladesh (ICDDR,B) | Dhaka, Bangladesh | 01, Jun 2009 | 01-03-2009 |
| Lecturer | University of Dhaka | Dhaka, Bangladesh | 05, Mar 2009 | 20-09-2009 |
Research Interest
| Subject | Description | Research Interest (Goal, Target Indicator) |
|---|---|---|
| Correlation between epigenome and transcriptome in cancer | The complexity of the mammalian cells is largely driven by the heritable genome constrained by epigenetic mechanism to regulate the expression of genes in different cellular contexts. This enables the cells to acquire the necessary functions for differentiation and proliferation. Based on the casual relationship between methylation and gene expression it is generally accepted that hyper- and hypo-methylation of promoter regions should essentially be reflected in decreased and increased expression of corresponding genes respectively. Therefore in principle the reciprocal relationship between differential gene expression and epigenomic alterations can be investigated through the integration of ChIP-seq, methylomics and RNA-seq data. Whether a concordant or discordant relationship between methylation and gene-expression exist in cancer will be the focus of this sub-projetc. The sub-project will also focus on the mechanisms that underlie the relationship between epigenome and transcriptome in cancer cells/tissues. These fundamental features of cancer cells/tissues can only be solved by harnessing the power of multi-OMICS technology. | |
| Concordance and discordance of transcriptome-to-proteome correlation in cancer | Although this multi-OMICS strategy is already in use to decipher molecular intricacy and mechanistic views of cancer pathophysiology, there are some fundamental questions which remain unanswered till date. For example, it is now accepted that mRNA and protein levels are not correlated in mammalian systems. Whether this poor/moderate correlation is increased (or decreased) in a cancer context is unknown. Similarly whether a constant protein-to-mRNA ratio for a given gene within epithelial cells of different tissues changes upon cancerous transformation remains unresolved. In this sub-project these fundamental questions will be investigated to be able to harness the full potential of the integration of multi-OMICS studies. Besides this this sub-project will focus on, whether the protein-to-mRNA ratios change or remain constant over time in highly evolving cells such as tumor cells. | |
| Translational systems biology of cancer chemo and immunotherapy | Systems biology approach has the potential to develop effective strategies to administer personalized cancer therapy. The aim of this sub-project is to develop predictive models that will be particularly beneficial to select patients based on personalized multi-OMICS data who are most likely to benefit from targeted therapies. In summary with systems biology models driven by multi-OMICS data we seek to increase the onco-drug efficacy and overcome the chemo/immuno-therapy resistance phenotype of cancer cells rendering them vulnerable to targeted therapies and ultimately to improve quality of life of patients. | |
| Multi-OMICS data driven molecular onco-systems biology | With powerful computational tools one can identify the link between genomic and epigenomic signatures with differentially expressed mRNAs and proteins that are associated with a cellular perturbation. Integration of multi-OMICS data provides a platform to link the genomic/epigenomic alterations to interconnected transcriptome and proteome networks, which underlie the cellular response to a perturbation. The project will focus on models that can deal with thousands of mRNA and protein changes in a dynamic manner. |
Project/Research Supervision
| Level of Study | Title | Supervisor | Co-Supervisor(s) | Name of Student(s) | Area of Research | Current Completion |
|---|---|---|---|---|---|---|
| Ph.D. | Identifying linkage between genetic mutation(s) of tubulin B8 gene and female in | Prof. Dr. A.H.M. Nurun Nabi Dr. Sajib Chakrabarty | Dr. Nadia Zebin Khan | Genomics | Current Year | |
| M.Phil | Transcriptomics analysis of placentas may reveal the underlying cause, biomarker | Prof. Dr. Yearul Kabir Dr. Sajib Chakrabarty | Shamima Arin Aishi | Transcriptomics | Current Year | |
| M.Phil | Proteomics analysis of placentas may reveal the underlying cause, biomarkers and | Prof. Dr. Yearul Kabir Dr. Sajib Chakrabarty | Fariha Ferdaus | Proteomics | Current Year | |
| Masters | Harnessing the lncRNA-peptidome to discover novel cancer-biomarkers | Dr. Sajib Chakrabarty | Mahmudul Hasan | Proteomics | ||
| Masters | Genomic analysis reveals CRISPR-Cas mediated host-phage interaction between ente | Dr. Sajib Chakrabarty | Mehnaz Manzur | Bacterial Genomics | ||
| Masters | Genome-wide analysis of CRISPR-cas systems reveals correlation between different | Dr. Sajib Chakrabarty | Mehedi Hasan | Bacterial Genomics |
Project/Research Work
| Subject | Project Name | Source of Fund | From Date | To Date | Collaboration |
|---|---|---|---|---|---|
| Transnational Systems Biology | Efficacy and Safety of Eltrombopag to correct thrombocytopenia in moderate to se | Incepta Pharmaceuticals Ltd. | 01-06-2019 | 30-09-2020 | |
| Multi-OMICS data driven molecular onco-systems biology | Proteogenomics analysis of differential therapeutic potency of targeted anti-can | Department of Biochemistry and Molecular Biology, DU | 01-06-2017 | 31-05-2018 | |
| Systems Biology of human brain | Neuroinformatics analysis of the accelerated evolutionary pattern, gene expressi | Neuroscience Research Center, University of Dhaka | 01-06-2017 | 01-06-2018 | |
| CRISPR-Cas Systems Biology | Investigating the potential of Clustered regularly interspersed short palindromi | Ministry of Education, Bangladesh | 01-07-2014 | 30-06-2017 |
Invited Talk
| SL | Invited Talk |
|---|---|
| No invited talk is found | |
| SL | Collaboration & Membership Name | Type | Membership Year | Expire Year |
|---|---|---|---|---|
| No Collaboration & Membership is found | ||||
| Journal Article | |
|---|---|
| 1 |
Robichon K, Maiwald T, Schilling M, Schneider A, Willemsen J, Salopiata F, Teusel M, and Chakraborty S, : Identification of Interleukin1beta as an Amplifier of Interferon alpha-induced Antiviral Responses,
PLoS pathogens , 2020
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| 2 |
Das T, Andrieux G, Ahmed M and Chakraborty S : Integration of Online Omics-Data Resources for Cancer Research,
Frontiers in genetics , 2020
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| 3 |
Andrieux G, Chakraborty S, Das T and Boerries M : Alteration of proteotranscriptomic landscape reveals the transcriptional regulatory circuits controlling key-signaling pathways and metabolic reprogramming during tumor evolution,
Front Cell Dev Biol , 2020
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| 4 |
Chakraborty S, Alam S, Sayem M, Sanyal M, Kabir A and Nurun Nabi AHM : Investigation of the efficacy and safety of eltrombopag to correct thrombocytopenia in moderate to severe dengue patients - a phase II randomized controlled clinical trial,
Lancet-eClinicalMedicine , 2020
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| 5 |
Shekhar HU, Chakraborty S, Mannoor MK and Sarker AH : Recent Advances in Understanding the Role of Genomic and Epigenomic Factors in Noncommunicable Diseases,
Biomed Res Int (impact factor:2.54) , 2019
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| 6 |
Sajib Chakraborty, Geoffroy Andrieux, A. M. Mahmudul Hasan, Musaddeque Ahmed, Md. Ismail Hosen, Tania Rahman, M. Anwar Hossain and Melanie Boerries : Harnessing the tissue and plasma lncRNA-peptidome to discover peptide-based cancer biomarkers,
Scientific Reports (Nature) (impact factor:4.52) , vol.9 , pp.12322 , 2019
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| 7 |
Chakraborty S, Mentzer AV, Begum YA, Manzur M, Hasan M, Ghosh AN, Hossain MA, Camilli A and Qadri F : Phenotypic and genomic analyses of bacteriophages targeting environmental and clinical CS3-expressing enterotoxigenic Escherichia coli (ETEC) strains,
PLONE ONE (impact factor:2.766) , 2018
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| 8 |
Chakraborty S, Hosen MI, Ahmed M and Shekhar HU : Onco-Multi-OMICS Approach: A New Frontier in Cancer Research,
Biomed Res Int (impact factor:2.54) , 2018
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| 9 |
Chakraborty S, Islam MR, Ali MM and Nabi AHMN : Evolutionary Divergence of Brain-specific Precursor miRNAs Drives Efficient Processing and Production of Mature miRNAs in Human,
Neuroscience (impact factor:3.4) , pp.141-159 , 2018
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| 10 |
Alam MS, Chakraborty S, Rahman T, Hosen MI, Paul A, Hasan AKMM and Hossain MS : Investigation of the Potential Association between Clustered Regularly Interspersed Short Palindromic Repeats (CRISPR) and Antibiotic Resistance Patte,
Open J Med Microbiol (impact factor:0.87) , 2018
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| 11 |
Begum K, Mannan MA, Sanyal M, Hosen MI, Chakraborty S and Shekhar HU : Molecular Diagnostic Approach Prevails Superior Over Conventional GelElectrophoresis Method in Detecting Sickle Cell Anemia,
J Mol Biomark Diagn , 2018
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| 12 |
Islam SMT, Zaman S, Khan MK, Ikhtear MU, Chakraborty S, Nishat NS, Ibnat N, Rahman T, Murshid M, Bhuiyan A, Seraj ZI and Firdausi F : Multi-Epitope Cluster Ep85B within the Mycobacterial Protein Ag85B Elicits Cell-Mediated and Humoral Responses in Mice,
Turkish Journal of Immunology , 2018
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| 13 |
Adlung L, Kar S, Wagner MC, She B, Chakraborty S, Bao J, Lattermann S, Boerries M, Busch H, Wuchter P, Ho AD, Timmer J, Schilling M, Höfer T and Klingmüller U : Protein abundance of AKT and ERK pathway components governs cell type-specific regulation of proliferation.,
Mol Syst Biol (impact factor:12.7) , 2017
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| 14 |
Khan MK, Zaman S, Chakraborty S, Chakravorty R, Alam MM, Bhuiyan TR, Rahman MJ, Fernández C, Qadri F and Seraj ZI : In silico predicted mycobacterial epitope elicits in vitro T-cell responses,
Mol Immunol (impact factor:3.2) , pp.16-22 , 2014
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| 15 |
Chakraborty S, Rahman T and Chakravorty R : Characterization of the Protective HIV-1 CTL Epitopes and the Corresponding HLA Class I Alleles: A Step towards Designing CTL Based HIV-1 Vaccine,
Adv Virol. (impact factor:2.5) , 2014
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| 16 |
Chakraborty S, Rahman T, Chakravorty R, Kuchta A, Rabby A and Sahiuzzaman M : HLA supertypes contribute in HIV type 1 cytotoxic T lymphocyte epitope clustering in Nef and Gag proteins,
AIDS Res Hum Retroviruses (impact factor:2.0) , 2013
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| 17 |
Chakraborty S, Snijders AP, Chakravorty R, Ahmed M, Tarek AM and Hossain MA : Comparative network clustering of direct repeats (DRs) and cas genes confirms the possibility of the horizontal transfer of CRISPR locus among bacteria,
Mol Phylogenet Evol (impact factor:4.41) , pp.878-87 , 2010
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| 18 |
Begum YA, Chakraborty S, Chowdhury A, Ghosh AN, Nair GB, Sack RB, Svennerholm AM and Qadri F : Isolation of a bacteriophage specific for CS7-expressing strains of enterotoxigenic Escherichia coli.,
J Med Microbiol (impact factor:3.0) , pp.266-72 , 2010
.
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| Award Type | Title | Year | Country | Description |
|---|---|---|---|---|
| International | Best talk and poster | 2018 | South Korea | Issued by the International Union of Biochemistry and Molecular Biology (IUBMB) conference, Seoul, Korea |
| International | Young Scientist Program (YSP) Fellowship 2018 | 2018 | South Korea | Issued by the International Union of Biochemistry and Molecular Biology (IUBMB) |
| International | Helmholtz graduate Scholarship | 2012 | Germany | Issued by Helmholtz association Germany |
| International | Commonwealth Scholarship | 2009 | Gabon | Issued by Commonwealth Scholarship Commission in the UK |
| National | Deans Award | 2006 | Bangladesh | Issued by Dean, Faculty of Biological Sciences, University of Dhaka |
| National | Dhaka Board Scholarship | 2002 | Bangladesh | Issued by Dhaka education board, Bangladesh |
Dr. Sajib Chakraborty
Associate Professor (Study Leave)
Department of Biochemistry and Molecular Biology
Faculty of Biological Sciences
Email: sajib@du.ac.bd
Mobile (Dept): 880-2-9661900/7636