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Sandeep Kaushik is an Auxiliary (Assistant) Researcher equivalent to Assistant Professor in 3B's Research Group, University of Minho and works in the area(s) of Computational Biology and Bioinformatics. His current research interest is to develop a computational model for breast cancer using agent based modeling approach. His post-doctoral research experience in bioinformatics extends across past 7 years and includes analysis of NGS data (both transcriptomics and genomics), database scraping, website and web-based-tool development, molecular modeling and programming in R (Bioconductor), PERL and NetLogo languages. He has analysed RNA-seq data derived from mycobacteria (M. tuberculosis & M. smegmatis) and humans (vitiligo) along with plant (wheat) genomic data.
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Identificação

Identificação pessoal

Nome completo
Sandeep Kaushik

Nomes de citação

  • Kaushik, Sandeep

Identificadores de autor

Ciência ID
8914-D444-D58E
ORCID iD
0000-0001-9649-1358
Google Scholar ID
y0BVHqEAAAAJ
Researcher Id
M-3840-2017
Scopus Author Id
56970619500

Endereços de correio eletrónico

  • sandeep.kaushik.nii2012@gmail.com (Profissional)
  • prince.kratos@gmail.com (Pessoal)

Telefones

Telemóvel
  • 919581649 (Pessoal)

Moradas

  • 3B's Resaerch Group, Head Qtrs of European Instt. of Excellence on, Tissue Engg. and Regenerative Medicine Avepark, 4805-017, Barco, Guimaraes, Portugal (Profissional)

Websites

Domínios de atuação

  • Ciências Exatas - Ciências da Computação e da Informação - Bioinformática

Idiomas

Idioma Conversação Leitura Escrita Compreensão Peer-review
Inglês Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1)
Hindi (Idioma materno)
Formação
Grau Classificação
2012/01/31
Concluído
 Bioinformatics (Doktor (PhD))
Especialização em Molecular Dynamics Simulations, PERL programming
Jawaharlal Nehru University, Índia

National Institute of Immunology, Índia
"Computational analysis of the structural stability and substrate specificity of legume lectins" (TESE/DISSERTAÇÃO)
 N A
2002 - 2004
Concluído
 Biotechnology (Master)
Especialização em Biotechnology
Jawaharlal Nehru University, Índia

Jawaharlal Nehru University School of Biotechnology, Índia
"Understanding the folding/unfolding of Ubiquitin" (TESE/DISSERTAÇÃO)
 A-
1999 - 2002/06
Concluído
 Biochemistry (Hons) (Bachelor)
Especialização em Biochemistry
University of Delhi, Índia

Sri Venkateswara College, Índia
61 %
Percurso profissional

Ciência

Categoria Profissional
Instituição de acolhimento 		Empregador
2017/03/01 - Atual Investigador Auxiliar (carreira) (Investigação) Biomaterials Biodegradables and Biomimetics, Portugal
2016/02/01 - 2016/07/31 Pós-doutorado (Investigação) Genome Institute of Singapore, Singapura
2014/08/04 - 2015/12/06 Assistente de Investigação (carreira) (Investigação) National Research Center on Plant Biotechnology, Índia
2011/11/07 - 2014/07/15 Assistente de Investigação (carreira) (Investigação) Institute of Genomics and Integrative Biology CSIR, Índia
Produções

Publicações

Artigo em revista
  1. Kaushik, Sandeep. "Editorial: Multi-Omics Approaches to Study Signaling Pathways". Frontiers in Bioengineering and Biotechnology 8 (2020): http://dx.doi.org/10.3389/fbioe.2020.00829.
    10.3389/fbioe.2020.00829
  2. Anshumali Mittal; Tom C. Hobman; Kavyashree Manjunath; Rajesh Kumar Ranjan; Sandeep Kaushik; Sujeet Kumar; Vikash Verma. "COVID-19 pandemic: Insights into structure, function, and hACE2 receptor recognition by SARS-CoV-2". PLOS Pathogens (2020): https://doi.org/10.1371/journal.ppat.1008762.
    10.1371/journal.ppat.1008762
  3. Kaushik, Sandeep. "Big data in healthcare: management, analysis and future prospects". Journal of Big Data (2019): http://dx.doi.org/10.1186/s40537-019-0217-0.
    10.1186/s40537-019-0217-0
  4. Kaushik, Sandeep; Agrawal, Nikhil; Hossain, Md. Summon; Skelton, Adam A.; Muralidhar, Kambadur; Kaushik, Sandeep. "Unraveling the mechanism of l-gulonate-3-dehydrogenase inhibition by ascorbic acid: Insights from molecular modeling". Computational Biology and Chemistry 77 (2018): 146-153. http://www.sciencedirect.com/science/article/pii/S1476927118304018.
    Publicado • https://doi.org/10.1016/j.compbiolchem.2018.09.015
  5. Caballero, D.; Kaushik, S.; Correlo, V.M.; Oliveira, J.M.; Reis, R.L.; Kundu, S.C.. "Organ-on-chip models of cancer metastasis for future personalized medicine: From chip to the patient". Biomaterials 149 (2017): 98-115. http://dx.doi.org/10.1016/j.biomaterials.2017.10.005.
    Publicado • 10.1016/j.biomaterials.2017.10.005
  6. Anand, Amitesh; Verma, Priyanka; Singh, Anil Kumar; Kaushik, Sandeep; Pandey, Rajesh; Shi, Ce; Kaur, Harneet; et al. "Polyketide Quinones Are Alternate Intermediate Electron Carriers during Mycobacterial Respiration in Oxygen-Deficient Niches". Molecular Cell 60 4 (2015): 637-650. http://dx.doi.org/10.1016/j.molcel.2015.10.016.
    Publicado • 10.1016/j.molcel.2015.10.016
  7. Kaushik, Sandeep; Mohanty, Debasisa; Surolia, Avadhesha. "Molecular Dynamics Simulations onPars Intercerebralis MajorPeptide-C (PMP-C) Reveal the Role of Glycosylation and Disulfide Bonds in its Enhanced Structural Stability and Function". Journal of Biomolecular Structure and Dynamics 29 5 (2012): 905-920. http://dx.doi.org/10.1080/073911012010525026.
    Publicado • 10.1080/073911012010525026
  8. Kaushik, Sandeep; Krishnarjuna, Bankala; Raghothama, Srinivasarao; Aggarwal, Sangita; Raghunathan, Vidya; Ganjiwale, Anjali. "Theoretical and in vitro studies of a C-terminal peptide from PGKC of Leishmania mexicana mexicana". Molecular and Biochemical Parasitology 185 1 (2012): 27-35. http://dx.doi.org/10.1016/j.molbiopara.2012.06.004.
    Publicado • 10.1016/j.molbiopara.2012.06.004
  9. Kaushik, Sandeep; Mohanty, Debasisa; Surolia, Avadhesha. "Role of glycosylation in structure and stability of Erythrina corallodendron lectin (EcorL): A molecular dynamics study". Protein Science 20 3 (2011): 465-481. http://dx.doi.org/10.1002/pro.578.
    Publicado • 10.1002/pro.578
  10. Kaushik, Sandeep; Mohanty, Debasisa; Surolia, Avadhesha. "The Role of Metal Ions in Substrate Recognition and Stability of Concanavalin A: A Molecular Dynamics Study". Biophysical Journal 96 1 (2009): 21-34. http://dx.doi.org/10.1529/biophysj.108.134601.
    Publicado • 10.1529/biophysj.108.134601
Capítulo de livro
  1. Kaushik, Sandeep. "Text Mining Resources for Bioinformatics". editado por Shoba Ranganathan; Michael Gribskov; Kenta Nakai; Christian Schönbach, 1083-1092. Academic Press, 2019.
    https://doi.org/10.1016/B978-0-12-809633-8.20499-8
  2. Kaushik, Sandeep. "Mutation Effects on 3D-Structural Reorganization Using HIV-1 Protease as a Case Study". editado por Shoba Ranganathan; Michael Gribskov; Kenta Nakai; Christian Schönbach, 706-721. Academic Press, 2019.
    https://doi.org/10.1016/B978-0-12-809633-8.20279-3
  3. Kaushik, Sandeep. "Phylogenetic Analysis: Early Evolution of Life". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20171-4
  4. Kaushik, Sandeep. "Pharmacophore Development". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20276-8
  5. Kaushik, Sandeep. "Pathway Informatics". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20288-4
  6. Kaushik, Sandeep. "Protein Structure Visualization". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20283-5
  7. Kaushik, Sandeep. "Translational and Disease Bioinformatics". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20302-6
  8. Kaushik, Sandeep. "Bioinformatics Approaches for Studying Alternative Splicing". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20228-8
  9. Kaushik, Sandeep. "Nucleic-Acid Structure Database". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20285-9
  10. Kaushik, Sandeep. "Functional Genomics". Elsevier, 2018.
    https://doi.org/10.1016/B978-0-12-809633-8.20222-7
Poster em conferência
  1. Kaushik, Sandeep; Brancato, V; Oliveira, J M; Correlo, V.M.; Reis, R.L.; Kundu, S.C.. "An agent-based model for breast cancer research.". Trabalho apresentado em FoReCaST, 2017.
  2. Kaushik, Sandeep; Oliveira, J M; Correlo, V.M.; Reis, R.L.; Kundu, S.C.. "In silico models for breast cancer research.". Trabalho apresentado em Chem2Nature, 2017.
  3. Kaushik, Sandeep; Mahato, A; Chaudhary, C K; Yadav, I S ; Sharma, P; Gupta, O P; Gaikwad, K; et al. "Genome assembly and annotation of wheat chromosome arm 2AS.". Trabalho apresentado em Inernational Conference on Structural Genomics, 2015.
  4. Kaushik, Sandeep; Hossain, M S; Hussain, S S ; Muralidhar, K. "Molecular Docking Investigations on porcine L-Gulonate Dehydrogenase.". Trabalho apresentado em South Asian Biotechnology Conference, 2015.
  5. Kaushik, Sandeep; Dr Debasisa Mohanty; Surolia, Avadhesha. "Computational analysis of the structural stability and substrate specificity of legume lectins.". Trabalho apresentado em National Conference on Biology and Bioinformatics of Economically Important Plants and Microbes., 2012.
Website
  1. Kaushik, Sandeep. FoReCaST. 2018. http://dev.forecast.3bs.pt.
Atividades

Participação em evento

Descrição da atividade
Tipo de evento 		Nome do evento
Instituição / Organização
2017/11/15 - 2017/11/17 FoReCaST 2017 Conference (Organization & participation).
Conferência
 FoReCaST Conference
Biomaterials Biodegradables and Biomimetics, Portugal
2017/06/05 - 2017/06/09 CHEM2NATURE
Oficina (workshop)
 CHEM2NATURE
Biomaterials Biodegradables and Biomimetics, Portugal
2015/06/07 - 2015/06/11 International Conference on Structural Genomics 2015 (Poster)
Conferência
 International Conference on Structural Genomics 2015
Weizmann Institute of Science, Israel
2015/02/12 - 2015/02/14 International South Asian Biotechnology Conference (Poster)
Conferência
 International South Asian Biotechnology Conference
South Asian University, Índia
2013/08/24 - 2013/08/27 Bioinformatics for Human Genome Analysis
Oficina (workshop)
 Workshop on Bioinformatics for Human Genome Analysis
Institute of Bioinformatics, Índia
2012/12/30 - 2013/01/01 Genomeet
Conferência
 Genomeet 2012
Institute of Genomics and Integrative Biology CSIR, Índia
2012/02/17 - 2012/02/19 Biology and Bioinformatics of Economically Important Plant and Microbes (Poster Presentation)
Conferência
 Biology and Bioinformatics of Economically Important Plant and Microbes 2012
University of North Bengal, Índia
2010/10/26 - 2010/10/27 Indo-Swiss Bioinformatics Symposium
Simpósio
 Indo-Swiss Bioinformatics Symposium
Indian Institute of Technology Delhi, Índia
2006/12/18 - 2006/12/20 5th International Conference on Bioinformatics (InCoB) 2006
Conferência
 International Conference on Bioinformatics
Indian Institute of Technology Delhi, Índia

Jawaharlal Nehru University, Índia

Department of Biotechnology Ministry of Science and Technology, Índia
2005/01/12 - 2005/01/15 International Workshop on Biomedical MR
Oficina (workshop)
 International Workshop on Biomedical MR
All India Institute of Medical Sciences, Índia
Distinções

Outra distinção

2015 Travel Award (International Conference on Structural Genomics )
Weizmann Institute of Science, Israel
2005 CSIR-UGC National Eligibility Test (NET)
Council of Scientific and Industrial Research, Índia

University Grants Commission, Índia
2005 CSIR-Junior/Senior Research Fellowship
Council of Scientific and Industrial Research, Índia
2002 Post-Graduate Scholarship (All India 4th rank)
Department of Biotechnology Ministry of Science and Technology, Índia
1998 Merit Certificate (National Mathematics Olympiad)
1996 Merit Certificate (for 1st rank in IXth standard)
Guru Nanak Yuvak Sindhi Seva Mandal, Índia
1996 Merit Certificate (Quiz Competition)
Navodaya Vidyalaya Samiti, Índia
1995 Merit Certificate (National Mathematics Olympiad)