Development Quality Control
Resume:
SHANTANU ROY
Objective:
To seek a research based position in an industry environment, where I can apply my experiences in diverse biological research fields.
Practical Skills:
o Molecular techniques, such as cDNA library construction, Sequencing, and analysis, Northern blot, Polymerase Chain Reaction (PCR), Expanded long template PCR, Real-Time PCR, Specific gene expression quantification and sophisticated analysis, RFLP, Dendogram analysis, sequencing, phylogenetic analysis, Low through put genotyping by Fluorescence Polarization (FP) etc.
o Illumina platform: Ultra High throughput whole genome single nucleotide polymorphism (SNP) genotyping and copy number variation (CNV) assays. Genome-wide DNA methylation assay and microarray-based gene expression by cDNA mediated annealing, selection and ligation assay.
o Data and freezer inventory maintaining for thousands of samples and reagents.
o Supervising to junior laboratory technologist.
o Agilent Technologies: Huge numbers of DNA and RNA chips run on bioanalyzer.
o Cell culture in RPMI medium, PBMC separation from whole blood, stimulation and proliferation of separated PBMC, Cell breakage, ELISA, ELISPOT, immunoassays, spectroscopy, enzyme assays, protein purification, gene cloning.
o Agarose gel electrophoresis, capillary electrophoresis using Agilent Bioanalyzer 2100, DNA and RNA extraction, purification of mRNA and quality control of DNA and RNA using NanoDrop technology.
o Spectrophotometer: Single and eight- headed nano drops to measure nucleotides.
o Multiplex qPCR assay development for different intestinal parasites. Assay development for rapid diagnosis strips for multiple parasitic diseases
o Anticancer and antimicrobial drug development and treatment from the different plant extracts and chemically synthesized compound.
o Animal model experience - hamsters and mice model on leishmaniasis research.
Professional Experiences:
Research Technologist August 2007 to present
University of Chicago
o Primer and probe designing, Real-time PCR assay development and PCR standardization.
o Extraction of high quality RNA for use in downstream applications like microarray experiments to investigate the differential gene expression. Extracted RNA from different sources (e.g., Formalin Fixed Paraffin embedded archived tissues, OCT-embedded Frozen tissues, Whole blood, clot blood, separated cells etc).
o Genome-wide DNA methylation assay at nucleotide resolution and Methyl profiler assay development by real time PCR.
o Extraction of high quality DNA for use in high throughput whole genome SNP genotyping and copy number variation (CNV) analysis and the assays ran on Human 610-Quad and Human Cyto SNP12 bead chips.
o Multiplexing for cytokines and chemokines detection by Luminex bead based assay
o Whole-genome wide genotyping, Gene expression, DNA methylation assays are doing by illumina microarray platform.
Research Assistant and Research scholar August 2006 to July 2007
University of Chicago
o In vitro Leishmaniasis cell culture with RPMI medium
o Hamster models for Leishmaniasis development and molecular assays (such as PCR establishment, sequences, cloning, Northern blot etc).
o Microscopy, cell counting by hemocytometer and staining.
Sr. Research Officer Nov 2005 to July 2006
ICDDR,B (International Center for Diarrhoeal Disease Research, Bangladesh)
o Malaria and Leishmania cell culture maintaining in vitro and treat them by selective drugs. Leishmania and Malaria specific ELISA and quick diagnostics strip development.
o Assay development of quick diagnosis for multiple intestinal parasites.
o ELISPOT assay and minimum use of FACS.
o High quality of DNA and RNA isolation from different sources (blood, stool, saliva etc).
o Primer designing for PCR and qPCR. Sequencing and its data analysis.
o Supports for the grant writing according to the laboratory responsibilities and data analysis.
Research Officer May 2004 to October 2005
ICDDR,B (International Center for Diarrhoeal Disease Research, Bangladesh)
o ELISA assays to diagnosis the different intestinal parasites and antibody detections.
o PBMC separation from human whole blood, cell stimulation and proliferation.
o Real time PCR based singleplex and multiplex assay development
o Genotyping for different intestinal parasites to get association with virulent effect.
o Microscopy, cell counting by hemocytometer and staining.
Sr. Research Assistant March 2001 to April 2004
ICDDR,B (International Center for Diarrhoeal Disease Research, Bangladesh)
o ELISAs for antigen detection and antibody measurement.
o To develop the culture medium for Entamoeba from the stool samples.
o Established few PCRs to diagnosis intestinal parasites.
o Sample management and data maintenance according to project requirements.
o Microscopy and maintaining equipments in the lab on regular basis.
Additional Skills:
Computer skills: Knowledge and experience on Windows XP, MS office, MS Access. Other work related soft wares – Prism, LinRegPCR, SPSS, KC junior, Xponent, Millipore Analyst, Agilent 2100, RQ manager, SDS 2.3, Chromas, Oligo, Primer3 and bead studio etc. Quick software learner as required for the data analysis.
Problem solving: Performed mathematical analysis and evaluation.
Teamwork: I was involved in various team projects both in academic and non-academic environments.
Ability to:
o Establish work priorities and effectively perform multi-task.
o Work both independently and as a part of the team, as well as an effective team leader
o Comply with project timelines
o Provide attention to details
o Communicate effectively both verbally and in writing.
Education:
M.Sc. in Biochemistry 1998 University of Rajshahi, Bangladesh
Thesis Title: Antineoplastic and antimicrobial activity of some medicinal plant extract and chemically synthesized compounds.
Major Theoretical Courses: Biochemistry, Molecular Biology, Genetics, Immunology, Food and Nutrition, Pharmaceutical Microbiology, Parasitology, Infectious Diseases, Selected Topics in Microbiology.
B.Sc. in Biochemistry 1996 University of Rajshahi, Bangladesh
Major Theoretical Courses: Organic Chemistry, Physical Chemistry, Inorganic Chemistry, Basic Biochemistry, General Microbiology, Food Microbiology, Microbial Chemistry, Physiology and Metabolism, Microbial Genetics, Microbial Biotechnology, Immunology, Molecular Biology, Biostatics etc.
Membership in professional societies:
Life member of Graduate Biochemistry Association, Bangladesh.
Life Member, Bangladesh Society of Microbiologists.
Honors and Awards
1. Selected for ASM-UNESCO travel award- 2006 Prof. Upinder Singh’s lab, Stanford University and Prof. William A Petri’s lab, University of Virginia, USA. (ASM-UNESCO is one of the most competitive awards for international participants).
2. Outstanding Performance Award (M.Sc) from Department of Biochemistry, University of Rajshahi, Bangladesh. Year: 1998
3. Gold Medal Award 1996 (Bachelor of Science degree) from Shaheed Ziaur Rahman Hall, University of Rajshahi, Bangladesh. Year: 1996
4. Outstanding performance Award 1996 (Bachelor 3rd Year) within all Govt. Universities by University Grant Commission, Bangladesh. Year: 1996
5. Talent pool scholarship (Bachelor 3rd Year) from the Department of Biochemistry, University of Rajshahi, Bangladesh. Year: 1994
6. Distinction scholarships (Bachelor 2nd Year) from Department of Biochemistry, University of Rajshahi, Bangladesh: Year: 1993
Publications in peer-reviewed journals
1. Kibriya MG, Maruf Raza AKM, Jasmine F, Roy S, Paul-Brutus MR, Rahaman R, Dodsworth C, Rakibbuz-Zaman M, Kamal M, Ahsan H : A Genome-wide DNA Methylation Study in Colorectal Carcinoma ( Submitted).
2. Kibriya MG, Jasmine F, Roy S, Paul-Brutus MR, Argos M and Ahsan H: Analyses and interpretation of whole-genome gene expression from formalin-fixed paraffin-embedded tissue: an illustration with genes related to breast cancer. BMC Genomics 2010, 11 (1): 622.
3. Raqib R, Ahmed S, Sultana R, Wagatsuma Y, Mondal D, Hoque AMW, Nermell B, Yunus M, Roy S, Persson LA, Arifeen SE, Moore S and Vahter M: Effects of in utero arsenic exposure on child immunity and morbidity in rural Bangladesh. Toxicology Letter 2009, 185(3):197-202.
4. Ali IKM, Solaymani-Mohammadi S, Akhter J, Roy S, Gorrini C, Calderaro A, Parker SK, Haque R, Petri Jr. WA, and Clark CG: Tissue Invasion by Entamoeba histolytica: Evidence of Genetic Selection and/or DNA Reorganization Events in Organ Tropism. PLoS Neglected Tropical Diseases 2008, 2(4): e219.
5. Ali IKM, Mondal U, Roy S, Haque R, Petri Jr. WA and Clark CG: Evidence for a link between parasite genotype and outcome of infection with Entamoeba histolytica. The Journal of Clinical Microbiology 2007, 45(2): 285-89.
6. Haque R, Roy S, Siddique A, Mondal U, Rahman SMM, Mondal D, Houpt E and Petri Jr WA: Multiplex Real-Time PCR assay for detection of Entamoeba histolytica, Giradia lamblia and Cryptosporidium Spp. The American Journal of Tropical Medicine and Hygiene 2007, 76(4): 713-17.
7. Haque R, Mondal D, Shu J, Roy S, Kabir M, Davis AN, Duggal P and Petri, Jr. WA: Correlation of interferon-gamma production by peripheral blood mononuclear cells with childhood malnutrition and susceptibility to amebiasis. The American Journal of Tropical Medicine and Hygiene 2007, 76(2):340-44.
8. Haque R, Mondal D, Duggal P, Kabir M, Roy S, Farr BM, Sack B, and Petri Jr. WA: Entamoeba histolytica Infection in Children and Protection from Subsequent Amebiasis. Infection & Immunity 2006, 74(2): 904-09.
9. Stroup SE, Roy S, Mchele J, Guerrant RL, Kirkpatrick BD, Fayer R, Herbein J, Ward H, Haque R and Houpt ER: Real-time PCR detection and speciation of Cryptosporidium infection using Scorpion probes. Journal of Medical Microbiology 2006, 55:1217-22.
10. Leo M, Haque R, Kabir M, Roy S, Lahlou RM, Mondal D, Tannich E and Petri, Jr. WA: Evaluation of Entamoeba histolytica Antigen and Antibody Point-Of-care tests for the Rapid Diagnosis of Amebiasis. Journal of Clinical Microbiology 2006, 44(12): 4569-71.
11. Haque R, Roy S, Kabir M, Stroup SE, Mondal D, and Houpt ER: Giardia Assmblage A Infection and Diarrhea in Bangladesh. Journal of Infectious Diseases 2005, 192: 2171-73.
12. Roy S, Kabir M, Mondal D, Ali IKM, Petri Jr. WA, and Haque R: Real–Time-PCR assay for Diagnosis of Entamoeba histolytica infection. Journal of Clinical Microbiology 2005, 43(5): 2168-72.
13. Ng CT, Gilchrist CA, Lane A, Roy S, Haque R and Houpt ER: Multiplex Real-Time PCR assay using scorpion probes and DNA capture for genotype- specific detection of Giardia lamblia on fecal samples. Journal of Clinical Microbiology 2005, 43(3):1256-60.
14. Kurkjian KM, Vaz LE, Haque R, Centre-Sossah C, Akhter S, Roy S, Steurer F, Amann J, Ali M, Chowdhury R, Wagatsuma Y, Williamson J, Crawford S, Breiman RF, Maguire JH, Bern C, and Secor WE: Application of an Improved Method for the Recombinant K39 Enzyme-Linked Immunosorbent Assay To Detect Viseral Leishmaniasis Disease and Infection in Bangladesh. Clinical and Diagnostic Laboratory Immunology 2005, 12(12):1410-15.
15. Duggal P, Haque R, Roy S, Mondal D, Sack RB, Farr BM, Beaty TH and Petri Jr WA: Influence of Human Leukocyte Antigen Class II Alleles on Susceptibility to Entamoeba histolytica Infection in Bangladeshi Children. Journal of Infectious Disease 2004, 189(3): 520-26.
16. Ali IKM, Md. Hossain B, Roy S, Petri Jr. WA, Haque R, and Clark CG: Entamoeba moshkovshkii infections in children in Bangladesh. Emerging Infectious Diseases 2003, 9(5): 580-84.
17. Khanam JA, Roy S and Rana M: Antineoplastic Activity of Cyanohydroxamic Acid (Sodium Salt) Against Ehrlich Ascites Carcinoma in Mice. The Sciences 2001, 1(5): 339-42.
Reference: Available upon request.
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