Genetic landscape of the people of India: A canvas for disease gene exploration

Samir K. Brahmachari; Partha P. Majumder; Mitali Mukerji; Saman Habib; Debasis Dash; Kunal Ray; Samira Bahl; Lalji Singh; Abhay Sharma; Susanta Roychoudhury; G. R. Chandak; K. Thangaraj; D. Parmar; Shantanu Sengupta; Dwaipayan Bharadwaj; Srikanta K. Rath; Jagmohan Singh; Ganga Nath Jha; Komal Virdi; V. R. Rao; Swapnil Sinha; Ashok Singh; Amit K. Mitra; Shrawan K. Mishra; Qadar Pasha; Sridhar Sivasubbu; Rajesh Pandey; Aradhita Baral; Prashant K. Singh; Amitabh Sharma; Jitender Kumar; Tsering Stobdan; Yasha Bhasin; Chitra Chauhan; Ashiq Hussain; Elyanambi Sundaramoorthy; S. P. Singh; Arun Bandyopadhyay; Krishanu Dasgupta; A. K. Reddy; Charles J. Spurgeon; M. Mohd Idris; Vinay Khanna; Alok Dhawan; Mohini Anand; R. Shankar; R. S. Bharti; Madhu Singh; Arvind P. Singh; Anwar J. Khan; Parag P. Shah; A. B. Pant; R. S. Bharti; Rupinder Kaur; Kamlesh K. Bisht; Ashok Kumar; Victor Rajamanickam; Eugene Wilson; Antony Thangadurai; Pankaj K. Jha; Mahua Maulik; Neelam Makhija; Abdur Rahim; Sangeeta Sharma; Rupali Chopra; Pooja Rana; M. Chidambaram; Arindam Maitra; Ruchi Chawla; Suruchika Soni; Preeti Khurana; Mohamed Nadeem Khan; Sushanta Das Sutar; Amit Tuteja; K. Narayansamy; Rachna Shukla; Swami Prakash; Swapna Mahurkar; K. Radha Mani; J. Hemavathi; Seema Bhaskar; Pankaj Khanna; G. S. Ramalakshmi; Shalini Mani Tripathi; Nikita Thakur; Balaram Ghosh; Ritushree Kukreti; Taruna Madan; Ranjana Verma; G. Sudheer; Anubha Mahajan; Sreenivas Chavali; Rubina Tabassum; Sandeep Grover; Meenal Gupta; Jyotsna Batra; Amrendra Kumar; Abdoulazim Nejatizadeh; Mudit Vaid; Swapan K. Das; Shilpy Sharma; Mamta Sharma; Rajshekhar Chatterjee; Jinny A. Paul; Pragya Srivastava; Charu Rajput; Uma Mittal; Mridula Singh; Manoj Hariharan; Sumantra Das; Keya Chaudhuri; Mainak Sengupta; Moulinath Acharya; Ashima Bhattacharyya; Atreyee Saha; Arindam Biswas; Moumita Chaki; Arnab Gupta; Saibal Mukherjee; Suddhasil Mookherjee; Ishita Chattopadhyay; Taraswi Banerjee; Meenakshi Chakravorty; Chaitali Misra; Gourish Monadal; Shiladitya Sengupta; Dipanjana Dutta De; Swati Bajaj; Ishani Deb; Arunava Banerjee; Rajdeep Chowdhury; Debalina Banerjee; Deepak Kumar; Sumit Ranjan Das; G. R. Chandak; Shrish Tiwari; Anshu Bharadwaj; M. Chidambaram; Ikhlak Ahmed; Sumera Parveen; Nivedita Singh; Dipayan Dasgupta; Siddharth Singh Bisht; Sangeeta Khanna; Rashmi Rajput; Biswaroop Ghosh; Naveen Kumar; Amit Chaurasia; James K. Abraham; Amit Sinha; G. Sudheer; Vinod Scaria; Tav Pritesh Sethi; Amit K. Mandal; Arijit Mukhopadhyay

doi:10.1007/s12041-008-0002-x

Genetic landscape of the people of India: A canvas for disease gene exploration

Samir K. Brahmachari, Partha P. Majumder, Mitali Mukerji, Saman Habib, Debasis Dash, Kunal Ray, Samira Bahl, Lalji Singh, Abhay Sharma, Susanta Roychoudhury, G. R. Chandak, K. Thangaraj, D. Parmar, Shantanu Sengupta, Dwaipayan Bharadwaj, Srikanta K. Rath, Jagmohan Singh, Ganga Nath Jha, Komal Virdi, V. R. RaoSwapnil Sinha, Ashok Singh, Amit K. Mitra, Shrawan K. Mishra, Qadar Pasha, Sridhar Sivasubbu, Rajesh Pandey, Aradhita Baral, Prashant K. Singh, Amitabh Sharma, Jitender Kumar, Tsering Stobdan, Yasha Bhasin, Chitra Chauhan, Ashiq Hussain, Elyanambi Sundaramoorthy, S. P. Singh, Arun Bandyopadhyay, Krishanu Dasgupta, A. K. Reddy, Charles J. Spurgeon, M. Mohd Idris, Vinay Khanna, Alok Dhawan, Mohini Anand, R. Shankar, R. S. Bharti, Madhu Singh, Arvind P. Singh, Anwar J. Khan, Parag P. Shah, A. B. Pant, R. S. Bharti, Rupinder Kaur, Kamlesh K. Bisht, Ashok Kumar, Victor Rajamanickam, Eugene Wilson, Antony Thangadurai, Pankaj K. Jha, Mahua Maulik, Neelam Makhija, Abdur Rahim, Sangeeta Sharma, Rupali Chopra, Pooja Rana, M. Chidambaram, Arindam Maitra, Ruchi Chawla, Suruchika Soni, Preeti Khurana, Mohamed Nadeem Khan, Sushanta Das Sutar, Amit Tuteja, K. Narayansamy, Rachna Shukla, Swami Prakash, Swapna Mahurkar, K. Radha Mani, J. Hemavathi, Seema Bhaskar, Pankaj Khanna, G. S. Ramalakshmi, Shalini Mani Tripathi, Nikita Thakur, Balaram Ghosh, Ritushree Kukreti, Taruna Madan, Ranjana Verma, G. Sudheer, Anubha Mahajan, Sreenivas Chavali, Rubina Tabassum, Sandeep Grover, Meenal Gupta, Jyotsna Batra, Amrendra Kumar, Abdoulazim Nejatizadeh, Mudit Vaid, Swapan K. Das, Shilpy Sharma, Mamta Sharma, Rajshekhar Chatterjee, Jinny A. Paul, Pragya Srivastava, Charu Rajput, Uma Mittal, Mridula Singh, Manoj Hariharan, Sumantra Das, Keya Chaudhuri, Mainak Sengupta, Moulinath Acharya, Ashima Bhattacharyya, Atreyee Saha, Arindam Biswas, Moumita Chaki, Arnab Gupta, Saibal Mukherjee, Suddhasil Mookherjee, Ishita Chattopadhyay, Taraswi Banerjee, Meenakshi Chakravorty, Chaitali Misra, Gourish Monadal, Shiladitya Sengupta, Dipanjana Dutta De, Swati Bajaj, Ishani Deb, Arunava Banerjee, Rajdeep Chowdhury, Debalina Banerjee, Deepak Kumar, Sumit Ranjan Das, G. R. Chandak, Shrish Tiwari, Anshu Bharadwaj, M. Chidambaram, Ikhlak Ahmed, Sumera Parveen, Nivedita Singh, Dipayan Dasgupta, Siddharth Singh Bisht, Sangeeta Khanna, Rashmi Rajput, Biswaroop Ghosh, Naveen Kumar, Amit Chaurasia, James K. Abraham, Amit Sinha, G. Sudheer, Vinod Scaria, Tav Pritesh Sethi, Amit K. Mandal, Arijit Mukhopadhyay

Research output: Contribution to journal › Article › peer-review

261 Scopus citations

Abstract

Analyses of frequency profiles of markers on disease or drug-response related genes in diverse populations are important for the dissection of common diseases. We report the results of analyses of data on 405 SNPs from 75 such genes and a 5.2 Mb chromosome, 22 genomic region in 1871 individuals from diverse 55 endogamous Indian populations. These include 32 large (> 10 million individuals) and 23 isolated populations, representing a large fraction of the people of India. We observe high levels of genetic divergence between groups of populations that cluster largely on the basis of ethnicity and language. Indian populations not only overlap with the diversity of HapMap populations, but also contain population groups that are genetically distinct. These data and results are useful for addressing stratification and study design issues in complex traits especially for heterogeneous populations.

Original language	English (US)
Pages (from-to)	3-20
Number of pages	18
Journal	Journal of Genetics
Volume	87
Issue number	1
DOIs	https://doi.org/10.1007/s12041-008-0002-x
State	Published - Apr 2008

Bibliographical note

Funding Information:
Financial support from Council of Scientific and Industrial Research (CSIR) Government of India, Task Force Project on ‘Predictive Medicine using repeat and single nucleotide polymorphisms’ (CMM0016); Department of Science and Technology (DST) for the TCGA facility and Department of Biotechnology (DBT) for ‘Programme support on Functional Genomics to IGIB’ is duly acknowledged. Consortium members would like to acknowledge the help of a large number of anthropologists and other members for help in community engagement and sample collection - Profs. P. K. Das and Jagannath Das, Dept. of Anthropology, Utkal University, Bhubaneshwar, Orissa; Thakur Prasad Murmu, Sunil Baraik, Ranchi; Prof. Jebon Singh, Dept. of Anthropology, Manipur University, Imphal; Dr A. V. Arakeri, Anthropological Survey of India (ASI), Udaipur; Dr F. A. Kulirani (ASI), Shillong; Dr B. N. Sarkar (ASI), Kolkata; Dr B. R. K. Shukla, Dept. of Anthropology, Lucknow University, Lucknow; Prof. Pradeep K. Singh, Dept. of Anthropology. Ranchi College, Jharkhand; Biren Ha-jong, Tura, Meghalaya; V. S. Upadhye and his team in LABINDIA, Shekhar Ranjan Ghoshal, Western Railways, Mumbai; Mr Rajesh Bhandari, Sundernagar; Devi Singh and Karan Thakur, Chambi village, Himachal; Nitin Maurya, Leena Kalla, Delhi University; Rana Nagarkatti, Kamya Mehla, Tej P. Singh, S. Siva, Aarif Ahsan, Karamjit Singh Dolt, Chitra Chauhan, Mridula Singh, Dr Sou-vik Maiti, Inder Singh, Ravishankar Roy (IGIB); V. Prasad Kolla, V. N. S. Prathyusha, Inder Deo Mali (CCMB), Bipin C. Mishra, J. P. Srivastava, R. K Gupta (CDRI); Somnath Dutta, and Siddiq Sarkar (IICB), clinicians Drs. Saurabh Malhotra and Ajay Vidhani. For HTSSS implementation we would like to acknowledge Ranjan Basu, Biswajit Das, Shuvankar Mukherjee, Jhuma Mukherjee, De-basish Saha (Silicogene); Pallab Banerjee, Bijoyesh Saha, Anirban Chatterjee, S. R. Moquim, Navneet Kwarta, Manish Kumar, De-bkumar Sinha (Labvantage Asia) and Raghunath Chatterjee (IICB) for help in informatics support. Administrative support from Dr Rekha Chaturvedi, T. V. Joshua, V. P. Bharadwaj, Ajit Singh, He-mant Kulkarni, P. Bansal, (IGIB) and Arpita Sengupta and Pabitra Patnaik (TCGA) is duly acknowledged. Critical prereviewing and comments on the drafts of the manuscript from Dr Satyajit Rath, National Institute of Immunology, Delhi; Prof. Irfan Habib, Aligarh Muslim University and Prof. Vani Brahmachari, Ambedkar Centre for Biomedical Research, Delhi University are acknowledged. Authors also thank Dr Ashis K. Saha and Department of Geography, Delhi University, for help in map preparation and Drs R. A. Mashelkar, V. S. Ramamurthy, M. K. Bhan, G. Padmanabhan, V. C. Vora for support and encouragement. Authors are indebted to Myles Axton, Alan Packer and the anonymous referees of Nature Genetics for their constructive suggestions and several rounds of reviewing of the manuscript. But for their efforts, the manuscript would not be in the present form.

Keywords

Asia
Complex disease
HapMap
Indian genome variation
Pharmacogenomics
Polymorphism
SNP

Publisher link

10.1007/s12041-008-0002-x

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Brahmachari, S. K., Majumder, P. P., Mukerji, M., Habib, S., Dash, D., Ray, K., Bahl, S., Singh, L., Sharma, A., Roychoudhury, S., Chandak, G. R., Thangaraj, K., Parmar, D., Sengupta, S., Bharadwaj, D., Rath, S. K., Singh, J., Jha, G. N., Virdi, K., ... Mukhopadhyay, A. (2008). Genetic landscape of the people of India: A canvas for disease gene exploration. Journal of Genetics, 87(1), 3-20. https://doi.org/10.1007/s12041-008-0002-x

Brahmachari, SK, Majumder, PP, Mukerji, M, Habib, S, Dash, D, Ray, K, Bahl, S, Singh, L, Sharma, A, Roychoudhury, S, Chandak, GR, Thangaraj, K, Parmar, D, Sengupta, S, Bharadwaj, D, Rath, SK, Singh, J, Jha, GN, Virdi, K, Rao, VR, Sinha, S, Singh, A, Mitra, AK, Mishra, SK, Pasha, Q, Sivasubbu, S, Pandey, R, Baral, A, Singh, PK, Sharma, A, Kumar, J, Stobdan, T, Bhasin, Y, Chauhan, C, Hussain, A, Sundaramoorthy, E, Singh, SP, Bandyopadhyay, A, Dasgupta, K, Reddy, AK, Spurgeon, CJ, Idris, MM, Khanna, V, Dhawan, A, Anand, M, Shankar, R, Bharti, RS, Singh, M, Singh, AP, Khan, AJ, Shah, PP, Pant, AB, Bharti, RS, Kaur, R, Bisht, KK, Kumar, A, Rajamanickam, V, Wilson, E, Thangadurai, A, Jha, PK, Maulik, M, Makhija, N, Rahim, A, Sharma, S, Chopra, R, Rana, P, Chidambaram, M, Maitra, A, Chawla, R, Soni, S, Khurana, P, Khan, MN, Sutar, SD, Tuteja, A, Narayansamy, K, Shukla, R, Prakash, S, Mahurkar, S, Mani, KR, Hemavathi, J, Bhaskar, S, Khanna, P, Ramalakshmi, GS, Tripathi, SM, Thakur, N, Ghosh, B, Kukreti, R, Madan, T, Verma, R, Sudheer, G, Mahajan, A, Chavali, S, Tabassum, R, Grover, S, Gupta, M, Batra, J, Kumar, A, Nejatizadeh, A, Vaid, M, Das, SK, Sharma, S, Sharma, M, Chatterjee, R, Paul, JA, Srivastava, P, Rajput, C, Mittal, U, Singh, M, Hariharan, M, Das, S, Chaudhuri, K, Sengupta, M, Acharya, M, Bhattacharyya, A, Saha, A, Biswas, A, Chaki, M, Gupta, A, Mukherjee, S, Mookherjee, S, Chattopadhyay, I, Banerjee, T, Chakravorty, M, Misra, C, Monadal, G, Sengupta, S, De, DD, Bajaj, S, Deb, I, Banerjee, A, Chowdhury, R, Banerjee, D, Kumar, D, Das, SR, Chandak, GR, Tiwari, S, Bharadwaj, A, Chidambaram, M, Ahmed, I, Parveen, S, Singh, N, Dasgupta, D, Bisht, SS, Khanna, S, Rajput, R, Ghosh, B, Kumar, N, Chaurasia, A, Abraham, JK, Sinha, A, Sudheer, G, Scaria, V, Sethi, TP, Mandal, AK & Mukhopadhyay, A 2008, 'Genetic landscape of the people of India: A canvas for disease gene exploration', Journal of Genetics, vol. 87, no. 1, pp. 3-20. https://doi.org/10.1007/s12041-008-0002-x

@article{a61a65f3bb9748979b80301f23685c8f,

title = "Genetic landscape of the people of India: A canvas for disease gene exploration",

abstract = "Analyses of frequency profiles of markers on disease or drug-response related genes in diverse populations are important for the dissection of common diseases. We report the results of analyses of data on 405 SNPs from 75 such genes and a 5.2 Mb chromosome, 22 genomic region in 1871 individuals from diverse 55 endogamous Indian populations. These include 32 large (> 10 million individuals) and 23 isolated populations, representing a large fraction of the people of India. We observe high levels of genetic divergence between groups of populations that cluster largely on the basis of ethnicity and language. Indian populations not only overlap with the diversity of HapMap populations, but also contain population groups that are genetically distinct. These data and results are useful for addressing stratification and study design issues in complex traits especially for heterogeneous populations.",

keywords = "Asia, Complex disease, HapMap, Indian genome variation, Pharmacogenomics, Polymorphism, SNP",

author = "Brahmachari, {Samir K.} and Majumder, {Partha P.} and Mitali Mukerji and Saman Habib and Debasis Dash and Kunal Ray and Samira Bahl and Lalji Singh and Abhay Sharma and Susanta Roychoudhury and Chandak, {G. R.} and K. Thangaraj and D. Parmar and Shantanu Sengupta and Dwaipayan Bharadwaj and Rath, {Srikanta K.} and Jagmohan Singh and Jha, {Ganga Nath} and Komal Virdi and Rao, {V. R.} and Swapnil Sinha and Ashok Singh and Mitra, {Amit K.} and Mishra, {Shrawan K.} and Qadar Pasha and Sridhar Sivasubbu and Rajesh Pandey and Aradhita Baral and Singh, {Prashant K.} and Amitabh Sharma and Jitender Kumar and Tsering Stobdan and Yasha Bhasin and Chitra Chauhan and Ashiq Hussain and Elyanambi Sundaramoorthy and Singh, {S. P.} and Arun Bandyopadhyay and Krishanu Dasgupta and Reddy, {A. K.} and Spurgeon, {Charles J.} and Idris, {M. Mohd} and Vinay Khanna and Alok Dhawan and Mohini Anand and R. Shankar and Bharti, {R. S.} and Madhu Singh and Singh, {Arvind P.} and Khan, {Anwar J.} and Shah, {Parag P.} and Pant, {A. B.} and Bharti, {R. S.} and Rupinder Kaur and Bisht, {Kamlesh K.} and Ashok Kumar and Victor Rajamanickam and Eugene Wilson and Antony Thangadurai and Jha, {Pankaj K.} and Mahua Maulik and Neelam Makhija and Abdur Rahim and Sangeeta Sharma and Rupali Chopra and Pooja Rana and M. Chidambaram and Arindam Maitra and Ruchi Chawla and Suruchika Soni and Preeti Khurana and Khan, {Mohamed Nadeem} and Sutar, {Sushanta Das} and Amit Tuteja and K. Narayansamy and Rachna Shukla and Swami Prakash and Swapna Mahurkar and Mani, {K. Radha} and J. Hemavathi and Seema Bhaskar and Pankaj Khanna and Ramalakshmi, {G. S.} and Tripathi, {Shalini Mani} and Nikita Thakur and Balaram Ghosh and Ritushree Kukreti and Taruna Madan and Ranjana Verma and G. Sudheer and Anubha Mahajan and Sreenivas Chavali and Rubina Tabassum and Sandeep Grover and Meenal Gupta and Jyotsna Batra and Amrendra Kumar and Abdoulazim Nejatizadeh and Mudit Vaid and Das, {Swapan K.} and Shilpy Sharma and Mamta Sharma and Rajshekhar Chatterjee and Paul, {Jinny A.} and Pragya Srivastava and Charu Rajput and Uma Mittal and Mridula Singh and Manoj Hariharan and Sumantra Das and Keya Chaudhuri and Mainak Sengupta and Moulinath Acharya and Ashima Bhattacharyya and Atreyee Saha and Arindam Biswas and Moumita Chaki and Arnab Gupta and Saibal Mukherjee and Suddhasil Mookherjee and Ishita Chattopadhyay and Taraswi Banerjee and Meenakshi Chakravorty and Chaitali Misra and Gourish Monadal and Shiladitya Sengupta and De, {Dipanjana Dutta} and Swati Bajaj and Ishani Deb and Arunava Banerjee and Rajdeep Chowdhury and Debalina Banerjee and Deepak Kumar and Das, {Sumit Ranjan} and Chandak, {G. R.} and Shrish Tiwari and Anshu Bharadwaj and M. Chidambaram and Ikhlak Ahmed and Sumera Parveen and Nivedita Singh and Dipayan Dasgupta and Bisht, {Siddharth Singh} and Sangeeta Khanna and Rashmi Rajput and Biswaroop Ghosh and Naveen Kumar and Amit Chaurasia and Abraham, {James K.} and Amit Sinha and G. Sudheer and Vinod Scaria and Sethi, {Tav Pritesh} and Mandal, {Amit K.} and Arijit Mukhopadhyay",

note = "Funding Information: Financial support from Council of Scientific and Industrial Research (CSIR) Government of India, Task Force Project on {\textquoteleft}Predictive Medicine using repeat and single nucleotide polymorphisms{\textquoteright} (CMM0016); Department of Science and Technology (DST) for the TCGA facility and Department of Biotechnology (DBT) for {\textquoteleft}Programme support on Functional Genomics to IGIB{\textquoteright} is duly acknowledged. Consortium members would like to acknowledge the help of a large number of anthropologists and other members for help in community engagement and sample collection - Profs. P. K. Das and Jagannath Das, Dept. of Anthropology, Utkal University, Bhubaneshwar, Orissa; Thakur Prasad Murmu, Sunil Baraik, Ranchi; Prof. Jebon Singh, Dept. of Anthropology, Manipur University, Imphal; Dr A. V. Arakeri, Anthropological Survey of India (ASI), Udaipur; Dr F. A. Kulirani (ASI), Shillong; Dr B. N. Sarkar (ASI), Kolkata; Dr B. R. K. Shukla, Dept. of Anthropology, Lucknow University, Lucknow; Prof. Pradeep K. Singh, Dept. of Anthropology. Ranchi College, Jharkhand; Biren Ha-jong, Tura, Meghalaya; V. S. Upadhye and his team in LABINDIA, Shekhar Ranjan Ghoshal, Western Railways, Mumbai; Mr Rajesh Bhandari, Sundernagar; Devi Singh and Karan Thakur, Chambi village, Himachal; Nitin Maurya, Leena Kalla, Delhi University; Rana Nagarkatti, Kamya Mehla, Tej P. Singh, S. Siva, Aarif Ahsan, Karamjit Singh Dolt, Chitra Chauhan, Mridula Singh, Dr Sou-vik Maiti, Inder Singh, Ravishankar Roy (IGIB); V. Prasad Kolla, V. N. S. Prathyusha, Inder Deo Mali (CCMB), Bipin C. Mishra, J. P. Srivastava, R. K Gupta (CDRI); Somnath Dutta, and Siddiq Sarkar (IICB), clinicians Drs. Saurabh Malhotra and Ajay Vidhani. For HTSSS implementation we would like to acknowledge Ranjan Basu, Biswajit Das, Shuvankar Mukherjee, Jhuma Mukherjee, De-basish Saha (Silicogene); Pallab Banerjee, Bijoyesh Saha, Anirban Chatterjee, S. R. Moquim, Navneet Kwarta, Manish Kumar, De-bkumar Sinha (Labvantage Asia) and Raghunath Chatterjee (IICB) for help in informatics support. Administrative support from Dr Rekha Chaturvedi, T. V. Joshua, V. P. Bharadwaj, Ajit Singh, He-mant Kulkarni, P. Bansal, (IGIB) and Arpita Sengupta and Pabitra Patnaik (TCGA) is duly acknowledged. Critical prereviewing and comments on the drafts of the manuscript from Dr Satyajit Rath, National Institute of Immunology, Delhi; Prof. Irfan Habib, Aligarh Muslim University and Prof. Vani Brahmachari, Ambedkar Centre for Biomedical Research, Delhi University are acknowledged. Authors also thank Dr Ashis K. Saha and Department of Geography, Delhi University, for help in map preparation and Drs R. A. Mashelkar, V. S. Ramamurthy, M. K. Bhan, G. Padmanabhan, V. C. Vora for support and encouragement. Authors are indebted to Myles Axton, Alan Packer and the anonymous referees of Nature Genetics for their constructive suggestions and several rounds of reviewing of the manuscript. But for their efforts, the manuscript would not be in the present form.",

year = "2008",

month = apr,

doi = "10.1007/s12041-008-0002-x",

language = "English (US)",

volume = "87",

pages = "3--20",

journal = "Journal of Genetics",

issn = "0022-1333",

publisher = "Springer India",

number = "1",

}

TY - JOUR

T1 - Genetic landscape of the people of India

T2 - A canvas for disease gene exploration

AU - Brahmachari, Samir K.

AU - Majumder, Partha P.

AU - Mukerji, Mitali

AU - Habib, Saman

AU - Dash, Debasis

AU - Ray, Kunal

AU - Bahl, Samira

AU - Singh, Lalji

AU - Sharma, Abhay

AU - Roychoudhury, Susanta

AU - Chandak, G. R.

AU - Thangaraj, K.

AU - Parmar, D.

AU - Sengupta, Shantanu

AU - Bharadwaj, Dwaipayan

AU - Rath, Srikanta K.

AU - Singh, Jagmohan

AU - Jha, Ganga Nath

AU - Virdi, Komal

AU - Rao, V. R.

AU - Sinha, Swapnil

AU - Singh, Ashok

AU - Mitra, Amit K.

AU - Mishra, Shrawan K.

AU - Pasha, Qadar

AU - Sivasubbu, Sridhar

AU - Pandey, Rajesh

AU - Baral, Aradhita

AU - Singh, Prashant K.

AU - Sharma, Amitabh

AU - Kumar, Jitender

AU - Stobdan, Tsering

AU - Bhasin, Yasha

AU - Chauhan, Chitra

AU - Hussain, Ashiq

AU - Sundaramoorthy, Elyanambi

AU - Singh, S. P.

AU - Bandyopadhyay, Arun

AU - Dasgupta, Krishanu

AU - Reddy, A. K.

AU - Spurgeon, Charles J.

AU - Idris, M. Mohd

AU - Khanna, Vinay

AU - Dhawan, Alok

AU - Anand, Mohini

AU - Shankar, R.

AU - Bharti, R. S.

AU - Singh, Madhu

AU - Singh, Arvind P.

AU - Khan, Anwar J.

AU - Shah, Parag P.

AU - Pant, A. B.

AU - Bharti, R. S.

AU - Kaur, Rupinder

AU - Bisht, Kamlesh K.

AU - Kumar, Ashok

AU - Rajamanickam, Victor

AU - Wilson, Eugene

AU - Thangadurai, Antony

AU - Jha, Pankaj K.

AU - Maulik, Mahua

AU - Makhija, Neelam

AU - Rahim, Abdur

AU - Sharma, Sangeeta

AU - Chopra, Rupali

AU - Rana, Pooja

AU - Chidambaram, M.

AU - Maitra, Arindam

AU - Chawla, Ruchi

AU - Soni, Suruchika

AU - Khurana, Preeti

AU - Khan, Mohamed Nadeem

AU - Sutar, Sushanta Das

AU - Tuteja, Amit

AU - Narayansamy, K.

AU - Shukla, Rachna

AU - Prakash, Swami

AU - Mahurkar, Swapna

AU - Mani, K. Radha

AU - Hemavathi, J.

AU - Bhaskar, Seema

AU - Khanna, Pankaj

AU - Ramalakshmi, G. S.

AU - Tripathi, Shalini Mani

AU - Thakur, Nikita

AU - Ghosh, Balaram

AU - Kukreti, Ritushree

AU - Madan, Taruna

AU - Verma, Ranjana

AU - Sudheer, G.

AU - Mahajan, Anubha

AU - Chavali, Sreenivas

AU - Tabassum, Rubina

AU - Grover, Sandeep

AU - Gupta, Meenal

AU - Batra, Jyotsna

AU - Kumar, Amrendra

AU - Nejatizadeh, Abdoulazim

AU - Vaid, Mudit

AU - Das, Swapan K.

AU - Sharma, Shilpy

AU - Sharma, Mamta

AU - Chatterjee, Rajshekhar

AU - Paul, Jinny A.

AU - Srivastava, Pragya

AU - Rajput, Charu

AU - Mittal, Uma

AU - Singh, Mridula

AU - Hariharan, Manoj

AU - Das, Sumantra

AU - Chaudhuri, Keya

AU - Sengupta, Mainak

AU - Acharya, Moulinath

AU - Bhattacharyya, Ashima

AU - Saha, Atreyee

AU - Biswas, Arindam

AU - Chaki, Moumita

AU - Gupta, Arnab

AU - Mukherjee, Saibal

AU - Mookherjee, Suddhasil

AU - Chattopadhyay, Ishita

AU - Banerjee, Taraswi

AU - Chakravorty, Meenakshi

AU - Misra, Chaitali

AU - Monadal, Gourish

AU - Sengupta, Shiladitya

AU - De, Dipanjana Dutta

AU - Bajaj, Swati

AU - Deb, Ishani

AU - Banerjee, Arunava

AU - Chowdhury, Rajdeep

AU - Banerjee, Debalina

AU - Kumar, Deepak

AU - Das, Sumit Ranjan

AU - Chandak, G. R.

AU - Tiwari, Shrish

AU - Bharadwaj, Anshu

AU - Chidambaram, M.

AU - Ahmed, Ikhlak

AU - Parveen, Sumera

AU - Singh, Nivedita

AU - Dasgupta, Dipayan

AU - Bisht, Siddharth Singh

AU - Khanna, Sangeeta

AU - Rajput, Rashmi

AU - Ghosh, Biswaroop

AU - Kumar, Naveen

AU - Chaurasia, Amit

AU - Abraham, James K.

AU - Sinha, Amit

AU - Sudheer, G.

AU - Scaria, Vinod

AU - Sethi, Tav Pritesh

AU - Mandal, Amit K.

AU - Mukhopadhyay, Arijit

N1 - Funding Information: Financial support from Council of Scientific and Industrial Research (CSIR) Government of India, Task Force Project on ‘Predictive Medicine using repeat and single nucleotide polymorphisms’ (CMM0016); Department of Science and Technology (DST) for the TCGA facility and Department of Biotechnology (DBT) for ‘Programme support on Functional Genomics to IGIB’ is duly acknowledged. Consortium members would like to acknowledge the help of a large number of anthropologists and other members for help in community engagement and sample collection - Profs. P. K. Das and Jagannath Das, Dept. of Anthropology, Utkal University, Bhubaneshwar, Orissa; Thakur Prasad Murmu, Sunil Baraik, Ranchi; Prof. Jebon Singh, Dept. of Anthropology, Manipur University, Imphal; Dr A. V. Arakeri, Anthropological Survey of India (ASI), Udaipur; Dr F. A. Kulirani (ASI), Shillong; Dr B. N. Sarkar (ASI), Kolkata; Dr B. R. K. Shukla, Dept. of Anthropology, Lucknow University, Lucknow; Prof. Pradeep K. Singh, Dept. of Anthropology. Ranchi College, Jharkhand; Biren Ha-jong, Tura, Meghalaya; V. S. Upadhye and his team in LABINDIA, Shekhar Ranjan Ghoshal, Western Railways, Mumbai; Mr Rajesh Bhandari, Sundernagar; Devi Singh and Karan Thakur, Chambi village, Himachal; Nitin Maurya, Leena Kalla, Delhi University; Rana Nagarkatti, Kamya Mehla, Tej P. Singh, S. Siva, Aarif Ahsan, Karamjit Singh Dolt, Chitra Chauhan, Mridula Singh, Dr Sou-vik Maiti, Inder Singh, Ravishankar Roy (IGIB); V. Prasad Kolla, V. N. S. Prathyusha, Inder Deo Mali (CCMB), Bipin C. Mishra, J. P. Srivastava, R. K Gupta (CDRI); Somnath Dutta, and Siddiq Sarkar (IICB), clinicians Drs. Saurabh Malhotra and Ajay Vidhani. For HTSSS implementation we would like to acknowledge Ranjan Basu, Biswajit Das, Shuvankar Mukherjee, Jhuma Mukherjee, De-basish Saha (Silicogene); Pallab Banerjee, Bijoyesh Saha, Anirban Chatterjee, S. R. Moquim, Navneet Kwarta, Manish Kumar, De-bkumar Sinha (Labvantage Asia) and Raghunath Chatterjee (IICB) for help in informatics support. Administrative support from Dr Rekha Chaturvedi, T. V. Joshua, V. P. Bharadwaj, Ajit Singh, He-mant Kulkarni, P. Bansal, (IGIB) and Arpita Sengupta and Pabitra Patnaik (TCGA) is duly acknowledged. Critical prereviewing and comments on the drafts of the manuscript from Dr Satyajit Rath, National Institute of Immunology, Delhi; Prof. Irfan Habib, Aligarh Muslim University and Prof. Vani Brahmachari, Ambedkar Centre for Biomedical Research, Delhi University are acknowledged. Authors also thank Dr Ashis K. Saha and Department of Geography, Delhi University, for help in map preparation and Drs R. A. Mashelkar, V. S. Ramamurthy, M. K. Bhan, G. Padmanabhan, V. C. Vora for support and encouragement. Authors are indebted to Myles Axton, Alan Packer and the anonymous referees of Nature Genetics for their constructive suggestions and several rounds of reviewing of the manuscript. But for their efforts, the manuscript would not be in the present form.

PY - 2008/4

Y1 - 2008/4

N2 - Analyses of frequency profiles of markers on disease or drug-response related genes in diverse populations are important for the dissection of common diseases. We report the results of analyses of data on 405 SNPs from 75 such genes and a 5.2 Mb chromosome, 22 genomic region in 1871 individuals from diverse 55 endogamous Indian populations. These include 32 large (> 10 million individuals) and 23 isolated populations, representing a large fraction of the people of India. We observe high levels of genetic divergence between groups of populations that cluster largely on the basis of ethnicity and language. Indian populations not only overlap with the diversity of HapMap populations, but also contain population groups that are genetically distinct. These data and results are useful for addressing stratification and study design issues in complex traits especially for heterogeneous populations.

AB - Analyses of frequency profiles of markers on disease or drug-response related genes in diverse populations are important for the dissection of common diseases. We report the results of analyses of data on 405 SNPs from 75 such genes and a 5.2 Mb chromosome, 22 genomic region in 1871 individuals from diverse 55 endogamous Indian populations. These include 32 large (> 10 million individuals) and 23 isolated populations, representing a large fraction of the people of India. We observe high levels of genetic divergence between groups of populations that cluster largely on the basis of ethnicity and language. Indian populations not only overlap with the diversity of HapMap populations, but also contain population groups that are genetically distinct. These data and results are useful for addressing stratification and study design issues in complex traits especially for heterogeneous populations.

KW - Asia

KW - Complex disease

KW - HapMap

KW - Indian genome variation

KW - Pharmacogenomics

KW - Polymorphism

KW - SNP

UR - http://www.scopus.com/inward/record.url?scp=44149107150&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=44149107150&partnerID=8YFLogxK

U2 - 10.1007/s12041-008-0002-x

DO - 10.1007/s12041-008-0002-x

M3 - Article

C2 - 18560169

AN - SCOPUS:44149107150

SN - 0022-1333

VL - 87

SP - 3

EP - 20

JO - Journal of Genetics

JF - Journal of Genetics

IS - 1

ER -

Genetic landscape of the people of India: A canvas for disease gene exploration

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