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USD 35 /hr

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Hire Dr. Arup G.

India

USD 35 /hr

https://arup.dev

Profile Summary

In past, I have worked on projects like biological database development and literature mining using NCBI API and now working as a PhD student in the field of computational biology and bioinformatics.

Subject Matter Expertise

• ☆ Computational Biology
• ☆ Biostatistics
• ☆ Database Management
• ☆ Data Analysis
• ☆ Data Processing
• ☆ Machine Learning
• ☆ Text Mining & Analytics
• ☆ Bioinformatics
• ☆ Pharmacy

Services

• Research
• Data & AI

Research Scientific and Technical Research, Systematic Literature Review

Data & AI Statistical Analysis, Data Visualization, Big Data Analytics, Data Processing

Work Experience

Postdoctoral Researcher

Norwegian Institute of Public Health

October 2024 - Present

PhD Student

Institute of Life Sciences, Bhubaneswar

September 2016 - Present

Scientist - B

National Institute for Research in Tribal Health

January 2024 - July 2024

Trainee

CSIR - Indian Institute of Chemical Biology

June 2015 - June 2017

Education

Doctoral Student (Immunogenomics & System Biology)

Institute of Life Sciences

July 2016 - 2023

Masters Trainee (Computational Genomics)

Indian Institute of Chemical Biology CSIR

June 2015 - July 2016

MS(Pharm.) (Natural Products)

National Institute of Pharmaceutical Education and Research

June 2014 - June 2016

Certifications

• Certification details not provided.

Publications

JOURNAL ARTICLE

Arup Ghosh, Purna Dwivedi, Mukul Sharma, Afzal Ansari, Subasa C. Bishwal, Suman Kumar Ray, Manish Katiyar, Subbiah Kombiah, Ashok Kumar, Lalit Sahare, et al. (2024). Molecular Characterization and Genomic Surveillance of SARS-CoV-2 Lineages in Central India . Viruses.

Arup Ghosh, Purna Dwivedi, Mukul Sharma, AFZAL ANSARI, Subasa C. Bishwal, Dr. Suman Kumar Ray, Manish Katiyar, Subbiah Kombiah, Dr Ashok kumar, Lalit Sahare, et al. (2024). Molecular Characterization and Genomic Surveillance of SARS-CoV-2 Lineages in Central India . Viruses.

Arup Ghosh, Safal Walia, Roma Rattan, Amol Kanampalliwar, Atimukta Jha, Shifu Aggarwal, Sana Fatma, Niyati Das, Nirupama Chayani, Punit Prasad, et al.(2022). Genomic profiles of vaccine breakthrough SARS-CoV-2 strains from Odisha, India . International Journal of Infectious Diseases. 119. p. 111--113. Elsevier {BV}

Ankit K Pathak and Gyan Prakash Mishra and Bharathram Uppili and Safal Walia and Saman Fatihi and Tahseen Abbas and Sofia Banu and Arup Ghosh and Amol Kanampalliwar and Atimukta Jha and Sana Fatma and Shifu Aggarwal and Mahesh Shanker Dhar and Robin Marwal and Venkatraman Srinivasan Radhakrishnan and Kalaiarasan Ponnusamy and Sandhya Kabra and Partha Rakshit and Rahul C Bhoyar and Abhinav Jain and Mohit Kumar Divakar and Mohamed Imran and Mohammed Faruq and Divya Tej Sowpati and Lipi Thukral and Sunil~K Raghav and Mitali Mukerji(2022). Spatio-temporal dynamics of intra-host variability in SARS-CoV-2 genomes . Nucleic Acids Research. 50. (3). p. 1551--1561. Oxford University Press ({OUP})

Arup Ghosh, Punit Prasad, Soumendu Mahapatra, Rasmita Mishra, Krushna Chandra Murmu, Shifu Aggarwal, Manisha Sethi, Priyanka Mohapatra, Rina Yadav, Hiren Dodia, et al.(2022). Long-read 16S-seq reveals nasopharynx microbial dysbiosis and enrichment of Mycobacterium and Mycoplasma in COVID-19 patients: a potential source of co-infection . Molecular Omics. Royal Society of Chemistry ({RSC})

Voddu Suresh and Varshasnata Mohanty and Kiran Avula and Arup Ghosh and Bharati Singh and Rajendra Kumar Reddy and Deepti Parida and Amol Ratnakar Suryawanshi and Sunil Kumar Raghav and Soma Chattopadhyay and Punit Prasad and Rajeeb Kumar Swain and Rupesh Dash and Ajay Parida and Gulam Hussain Syed and Shantibhusan Senapati(2021). Quantitative proteomics of hamster lung tissues infected with SARS‐CoV‐2 reveal host factors having implication in the disease pathogenesis and severity . The FASEB Journal. 35. (7). Wiley

Arup Ghosh, Pujarini Dash, Jyotirmayee Turuk, Santosh K. Behera, Subrata Kumar Palo, Sunil K. Raghav, Jyotsnamayee Sabat, Sonalika Rath, Subhra Subhadra, Khokan Rana, et al.(2021). Sequence analysis of Indian SARS-CoV-2 isolates shows a stronger interaction of mutant receptor-binding domain with ACE2 . International Journal of Infectious Diseases. 104. p. 491--500. Elsevier {BV}

Arup Ghosh, Pallavi Mohapatra, Omprakash Shriwas, Sibasish Mohanty, Shuchi Smita, Sandeep Rai Kaushik, Rakesh Arya, Rachna Rath, Saroj Das Majumdar, Dillip Kumar Muduly, et al. (2021). CMTM6 drives cisplatin resistance by regulating Wnt signaling through ENO-1/AKT/GSK3β axis . JCI Insight.

Kumar Sagar Jaiswal and Shweta Khanna and Arup Ghosh and Prasanta Padhan and Sunil Kumar Raghav and Bhawna Gupta(2020). Differential mitochondrial genome in patients with Rheumatoid Arthritis . Autoimmunity. p. 1--12. Informa {UK} Limited

(2020). Altered mitochondrial proteome and functional dynamics in patients with rheumatoid arthritis . Mitochondrion.

(2020). BedSect: An Integrated Web Server Application to Perform Intersection, Visualization, and Functional Annotation of Genomic Regions From Multiple Datasets . Frontiers in Genetics.

Analysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity @ARTICLE{10.3389/fmicb.2020.594928, AUTHOR= {Raghav, Sunil and Ghosh, Arup and Turuk, Jyotirmayee and Kumar, Sugandh and Jha, Atimukta and Madhulika, Swati and Priyadarshini, Manasi and Biswas, Viplov K. and Shyamli, P. Sushree and Singh, Bharati and Singh, Neha and Singh, Deepika and Datey, Ankita and Avula, Kiran and Smita, Shuchi and Sabat, Jyotsnamayee and Bhattacharya, Debdutta and Kshatri, Jaya Singh and Vasudevan, Dileep and Suryawanshi, Amol and Dash, Rupesh and Senapati, Shantibhushan and Beuria, Tushar K. and Swain, Rajeeb and Chattopadhyay, Soma and Syed, Gulam Hussain and Dixit, Anshuman and Prasad, Punit and , Odisha COVID-19 Study Group and , ILS COVID-19 Team and Pati, Sanghamitra and Parida, Ajay and Singh, Arvind Kumar and Mishra, Baijayantimala and Parida, Banajini and Patro, Binod Kumar and Dogra, D. P. and Das, Dasarathi and Prasad, Deepa and Jena, Dhaneswari and Mohapatra, Dharitri and Sahu, Dinesh Prasad and Satapathy, Durga Madhab and Sahoo, Durgesh Prasad and Panda, Jayanta and Khatri, Jaya Singh and Mishra, Kaushik and Satpathy, Manoranjan and Chaini, Nirupama and Rattan, Roma and Panda, Sadhu and Das, Sangeeta and Pradhan, Somen Kumar and Kanungo, Srikanta and Mohanty, Sriprasad and Palo, Subrata Kumar and Chatterjee, Aditi and Mishra, Adyasha and Singh, Ajit Kumar and Ray, Amrita and Datey, Ankita and Minz, Aliva and Yadav, Ashish and Khuntia, Auromira and Dixit, Anshuman and Barik, Debyashreeta and Singh, Deepak and Laha, Eshna and Dodia, Hiren G. and Chawla, Jeky and Jena, Kautilya and Sen, Kaushik and Das, Niyati and Shriwas, Omprakash and Vaishali, P. M. and Nath, Parej and Nath, Paritosh and Mamidi, Prabhudutta and Mohapatra, Priyanka and Das, Rahul and Yadav, Rina and Rout, Sachikanta and De, Saikat and Chatterjee, Sanchari and Suranjika, Sandhya and Sahoo, Satyaranjan and Ansari, Shamima and Aggarwal, Shifu and Pradhan, Shiva and Krishna, Sivaram and Dutta, Sneha and Mahapatra, Soumendu and Gosh, Soumyajit and Barik, Subhabrata and Boral, Sudhir and Keshry, Supriya Suman and Priyadarshini, Swatismita and Sherpa, Tsheten}, TITLE= {Analysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity}, JOURNAL= {Frontiers in Microbiology}, VOLUME= {11}, PAGES= {2847}, YEAR= {2020}, URL= {https://www.frontiersin.org/article/10.3389/fmicb.2020.594928}, DOI= {10.3389/fmicb.2020.594928}, ISSN= {1664-302X}, ABSTRACT= {Coronavirus disease 2019 (COVID-19), caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus, has emerged as a global pandemic worldwide. In this study, we used ARTIC primers–based amplicon sequencing to profile 225 SARS-CoV-2 genomes from India. Phylogenetic analysis of 202 high-quality assemblies identified the presence of all the five reported clades 19A, 19B, 20A, 20B, and 20C in the population. The analyses revealed Europe and Southeast Asia as two major routes for introduction of the disease in India followed by local transmission. Interestingly, the19B clade was found to be more prevalent in our sequenced genomes (17%) compared to other genomes reported so far from India. Haplotype network analysis showed evolution of 19A and 19B clades in parallel from predominantly Gujarat state in India, suggesting it to be one of the major routes of disease transmission in India during the months of March and April, whereas 20B and 20C appeared to evolve from 20A. At the same time, 20A and 20B clades depicted prevalence of four common mutations 241 C > T in 5′ UTR, P4715L, F942F along with D614G in the Spike protein. D614G mutation has been reported to increase virus shedding and infectivity. Our molecular modeling and docking analysis identified that D614G mutation resulted in enhanced affinity of Spike S1–S2 hinge region with TMPRSS2 protease, possibly the reason for increased shedding of S1 domain in G614 as compared to D614. Moreover, we also observed an increased concordance of G614 mutation with the viral load, as evident from decreased Ct value of Spike and the ORF1ab gene.}} . Frontiers in Microbiology.

Mishra, G.P., Ghosh, A., Jha, A., Raghav, S.K.(2020). BedSect: An Integrated Web Server Application to Perform Intersection, Visualization, and Functional Annotation of Genomic Regions From Multiple Datasets . Frontiers in Genetics. 11.

(2018). Importance of EMT Factor ZEB1 in cDC1 “MutuDC Line” Mediated Induction of Th1 Immune Response . Frontiers in Immunology.

(2018). EumicrobeDBLite: a lightweight genomic resource and analytic platform for draft oomycete genomes . Molecular Plant Pathology.

Smita, S., Ahad, A., Ghosh, A., Biswas, V.K., Koga, M.M., Gupta, B., Acha-Orbea, H., Raghav, S.K.(2018). Importance of EMT factor ZEB1 in cDC1 "mutuDC line" mediated induction of Th1 immune response . Frontiers in Immunology. 9. (NOV).

Panda, A., Sen, D., Ghosh, A., Gupta, A., Malar C., M., Mishra, G.P., Singh, D., Ye, W., Tyler, B.M., Tripathy, S.(2018). EumicrobeDBLite: A lightweight genomic resource and analytic platform for draft oomycete genomes . Molecular Plant Pathology. 19. (1). p. 227-237.

PREPRINT

Arup Ghosh, Purna Dwivedi, Mukul Sharma, Afzal Ansari, Subasa Chandra Bishwal, Suman Kumar Ray, Manish Katiyar, Kombiah Subbiah, Lalit Sahare, Mahendra Ukey, et al. (2024). Molecular Characterization and Genomic Surveillance of SARS-CoV-2 Lineages in Central India .

Arup Ghosh, Himadri Bal, Viplov Kumar Biswas, Dasarathi Das, Sanghmitra Pati, Sunil Raghav(2022). Genotypic and phenotypic diversity of the multidrug-resistant Mycobacterium tuberculosis strains from eastern India . Cold Spring Harbor Laboratory

Pallavi Mohapatra and Sibasish Mohanty and Shamima Azma Ansari and Omprakash Shriwas and Arup Ghosh and Rachna Rath and Saroj Kumar Das Majumdar and Rajeeb K Swain and Sunil K Raghav and Rupesh Dash(2022). CMTM6 mediates cisplatin resistance in OSCC by regulating AKT/c-MYC driven ribosome biogenesis . []. Cold Spring Harbor Laboratory

Arup Ghosh, Ankit K. Pathak, Gyan Prakash Mishra, Bharathram Uppili, Safal Walia, Saman Fatihi, Tahseen Abbas, Sofia Banu, Amol Kanampalliwar, Atimukta Jha, et al. (2020). Spatio-temporal dynamics of intra-host variability in SARS-CoV-2 genomes .

Arindam Maitra and Sunil Raghav and Ashwin Dalal and Farhan Ali and Vanessa Molin Paynter and Dhiraj Paul and Nidhan K Biswas and Arup Ghosh and Kunal Jani and Sreedhar Chinnaswamy and Sanghamitra Pati and Arvind Sahu and Debashis Mitra and Manoj Kumar Bhat and Satyajit Mayor and Apurva Sarin and Yogesh S. Sauche and Aswin Sai Narain Seshasayee and Dasaradhi Palakodeti and Murali D. Bashyam and Ajay Parida and Saumitra Das and(2020). PAN-INDIA 1000 SARS-CoV-2 RNA Genome Sequencing Reveals Important Insights into the Outbreak . bioRxiv. Cold Spring Harbor Laboratory

OTHER

Arup Ghosh, Sanchari Chatterjee, Ankita Datey, Soumya Sengupta, Atimukta Jha, Safal Walia, Sharad Singh, Sandhya Suranjika, Gargee Bhattacharya, Eshna Laha, et al.(2021). Clinical, immunological and genomic characterization of asymptomatic and symptomatic cases with SARS-CoV-2 infection, India . Cold Spring Harbor Laboratory

Arup Ghosh, Sunil K. Raghav, Kaushik Sen, Sudeshna Datta, Abdul Ahad, Atimukta Jha, Sanchari Chatterjee, Sandhya Suranjika, Soumya Sengupta, Gargee Bhattacharya, et al.(2021). SARS-CoV-2 specific immune-signature in direct contacts of COVID-19 cases protect them from contracting disease: A Retrospective Study . Cold Spring Harbor Laboratory

REPORT

Lubiana, Tiago and Weber, Sabine and Andrade Paranhos, Bruno and Araújo, Dayane and Dorrego-Rivas, Ana and Franzen, Delwen and Nogueira Viçosa, Gabriela and Ghosh, Arup and Hojas García-Plaza, Inés(2020). ANN: A platform to annotate text with Wikidata IDs . eLife Sprint 2020. Zenodo

BOOK CHAPTER

Bhawna Gupta and Kumar Sagar Jaiswal and Arup Ghosh and Sunil Kumar Raghav(2019). Epigenetics and Epigenomics Analysis for Autoimmune Diseases . Computational Epigenetics and Diseases. p. 365--395. Elsevier

WORKING PAPER

Molecular Characterization and Genomic Surveillance of SARS-CoV-2 Lineages in Central India .