Research Area
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Structural biology, protein-ligand (Fluorescence quenching experiment and bioinformatics approach) and protein-protein interaction (bioinformatics approach), protein folding-unfolding analysis using Circular Dichroism and Fluorescence spectroscopy, Protein purification, Molecular Cloning
Technical expertise
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Protein purification using ion exchange, affinity, gel filtration, hydrophobic interaction chromatography, ultra-centrifugation and ultra-filtration
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Enzyme kinetics, inhibition kinetics and ligand binding studies.
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Protein conformational studies using biophysical tools such as circular dichroism, fluorescence spectroscopy, Absorption spectroscopy.
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Molecular Cloning and protein expression
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Fluorescence quenching, protein-protein interaction studies along with bioinformatics tools, such as Modeller, Autodock, tinker etc.
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Proficiency in, Image analysis software, Origin, Sigma Plot
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Bioinformatics tools in proteomics, e.g. BLAST, PSI-BLAST, Clustalw, HMM (Hidden Markov Models), STAMP (Structural Alignment of Multiple Poteins), MODELLER, AUTODOCK, Statics Potential tools; e.g PROSA, Threading etc.
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Proficiency in Windows and Linux OS
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Drug Designing; Virtual Screening, Dynamic docking, Molecular Simulation using Gromacs
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Some tools on Machine learning (e.g. Principal Component Analysis)
Academic Awards and achievements
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CEMS (Centre of Experimental Medicine and Surgery) Research fellowshipINDIA
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CSIR-SRF (Council for Scientific and Industrial Research) fellowshipINDIA
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BIF (Boehringer Ingelheim Fonds) fellowship, Department of Biophysical chemistry, University of Groningen,NETHERLANDS
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Wood Whelan Research Fellowship, Instituto de Quimica, Universidad Nacional autónoma de méxico (UNAM), (received but denied)MEXICO
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CAPES (Coordenacao de aperfeicoamento de pessoa de nivel superior) postdoctoral fellowship, Department of Physics,Universidade Estadual Paulista (UNESP), Sao Jose do Rio Preto, Sao paulo,BRAZIL
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FAPESP (Fundacao de Amparo a Pesquisa do Estado de Sao Paulo) Postdoctoral fellowship Universidade de São Paulo–USP, SP,BRAZIL
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BEPE (Bolsa Estágio de Pesquisa no Exterior) fellowship, University Pompeu Fabra (UPF), Barcelona,SPAIN
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DS Kothari Fellow, Department of Biochemistry, Panjab University, Chandigarh,INDIA
Previous Experience/position
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Principal Project Associate at Department of Biotherapeutics, CSIR-Institute of Microbial Technology (IMTech), Chandigarh – INDIA. Establishment of National Repository of GMP cell lines for Biopharmaceutical Products (NRGCBIO) [2020- 2022] INDIA
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DS Kothari Post-Doctoral research fellow at Department of Biochemistry, Panjab University, Chandigarh, INDIA. Stress Granules assembly: Structural and biochemical characterization. The primary work based on drug designing on LSM protein, which caused pancreatic cancer. Teaching (Theory as well as practical) at the department, in addition. [2016 – 2019] INDIA
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Post-Doctoral fellow; BEPE (Bolsa Estágio de Pesquisa no Exterior) fellowship at University Pompeu Fabra (UPF), Barcelona, SPAIN. Physicochemical characterization and protein-protein interaction analysis between pab1, pbp1 and pbp4 of stress granules proteins. The major work was based on basic bioinformatics techniques, such as sequence and structure alignment of multiple proteins with BLAST, HMMER and STAMP, Comparative homology modelling with MODELLER, and statistical potential analysis with Prosa. [2015 - 2016] SPAIN
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Post-Doctoral Fellow; FAPESP (Fundacao de Amparo a Pesquisa do Estado de Sao Paulo) at Institute of Chemistry, Sao Carlos, University of Sao Paulo (USP), BRAZIL. Biochemical and structural characterization of assembling stress granules: The pros and cons of translation [2014 - 2015] BRAZIL
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Interim training; Department of Neuroscience, University of Wisconsin, Madison, USA. Cloning and introducing mutations in a voltage-gated potassium channel. In addition, cloned an accessory subunit of calcium channel in baculovirus vector [July - September 2014] USA
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Post-Doctoral Fellow; CAPES (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior) at Department of Physics, Universidade Estadual Paulista (UNESP), São José do Rio Preto, Sao Paulo, BRAZIL. Post-translational modifications of venom proteins; protein-protein and protein-ligand interactions [2012 -2013] BRAZIL
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Interim training; BIF (Boehringer Ingelheim Fonds) fellowship, Laboratory of Biophysical Chemistry, University of Groningen, The Netherlands. Interim training during Doctorate (Ph.D.) times on the subject of Macromolecular crystallography (work on crystallization trials on the purified protease; Cotinifolin) [April - July 2009] NETHERLANDS
Thesis supervisor (no. 1)
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Ph.D. Co-Supervisor – Mrs. Seemab Siddhiqui, Department of Biotechnology, Invertis University, Bareilly, UP, INDIA
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Lecture on Structural Bioinformatics tools for proteomics data interpretation, 8 May 2020, Invertis University Bareilly, Uttar Pradesh, India
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Protein-protein interaction lecture on Computer aided drug designing course 27 May - 2 June 2016 Department of Biotechnology, Motilal Nehru National Institute of Technology, Allahabad, UP, India
External examiner (no. 2)
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External Examiner (M.Sc. Biotechnology / Molecular Biology), 18 December 2017, Invertis University Bareilly, Uttar Pradesh, India
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External Examiner (M.Sc. Biotechnology), 28 May 2018, Invertis University Bareilly, Uttar Pradesh, India
Organizer (no. 1)
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Organizer for a national level lecture-cum-practical training programme in Biochemistry 8-12 February, 2017, Department of Biochemistry, Panjab University, Chandigarh, India
Grant (no. 3)
Completed: 2
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Bolsa no Exterior – Governed by FAPESP, Brazil on title “Physicochemical characterization and protein-protein interaction analysis between pab1, pbp1 and pbp4 of stress granule assembly” Grant Number: 15/07263-2, Amount: (63206.60 Brazilian Reals plus 32306.23 USD = Approx. 35 lakh INR), Duration: 9 months (2014-2015), Place: University Pomeu Fabra, Barcelona, SPAIN.
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DS Kothari Fellowship – Governed by UGC, INDIA on title “stress granule assembly: structural and biochemical characterization” Grant Number: BL 15-16/0340, Amount: 2177808.00 INR, Duration: 3 Years (2016-2019), Place: Panjab University, Chandigarh, INDIA.
Submitted: 1
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DBT grant on title “in silico decoding of e-waste degrading microbial metabolites for in vitro validation and utilization”. TRN: BT/PR/45754. Amount: 5529610.00 INR, Duration: 3 Year, Place: GLA University, Mathura, UP, INDIA
References
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Dr. Bauke W. Dijkstra
Em. Professor of Biophysical Chemistry Laboratory of Biophysical Chemistry,
University of Groningen Nijenborgh 7,
9747 AG Groningen,
the Netherlands E-mail: b.w.dijkstra@rug.nl
Phone: +31-503634381 / fax: +31-503634800
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Dr. Baldo Oliva Miguel Professor & Head
Structural Bioinformatics Laboratory (GRIB-IMIM)
Universitat Pompeu Fabra,
Barcelona Research Park of Biomedicine (PRBB) C/ Doctor Aiguader,
80., Barcelona-08003, Catalonia,
Spain (EU) Email: baldo.oliva@upf.edu
Phone: +34-933160509 Fax: +34-933160550