Gangal K, Sarson GR, Shukurov A. The near-eastern roots of the Neolithic in South Asia. PLoS One. 2014;9(5):e95714.
Article
PubMed
PubMed Central
CAS
Google Scholar
Kivisild T. In: Papiha SS, Deka R, Chakraborty R, editors. Genomic Diversity: Applications in Human Population Genetics. New York: Kluwer; 2001. p. 135–52.
Google Scholar
Metspalu M, Kivisild T, Metspalu E, Parik J, Hudjashov G, Kaldma K, Serk P, Karmin M, Behar DM, Gilbert MT, et al. Most of the extant mtDNA boundaries in south and Southwest Asia were likely shaped during the initial settlement of Eurasia by anatomically modern humans. BMC Genet. 2004;5:26.
Article
PubMed
PubMed Central
CAS
Google Scholar
Misra VN. Prehistoric human colonization of India. J Biosci. 2001;26(4 Suppl):491–531.
Article
CAS
PubMed
Google Scholar
Singh S, Singh A, Rajkumar R, Sampath Kumar K, Kadarkarai Samy S, Nizamuddin S, Singh A, Ahmed Sheikh S, Peddada V, Khanna V, et al. Dissecting the influence of Neolithic demic diffusion on Indian Y-chromosome pool through J2-M172 haplogroup. Sci Rep. 2016;6:19157.
Article
CAS
PubMed
PubMed Central
Google Scholar
Thangaraj K, Chaubey G, Singh VK, Vanniarajan A, Thanseem I, Reddy AG, Singh L. In situ origin of deep rooting lineages of mitochondrial Macrohaplogroup ‘M’ in India. BMC Genomics. 2006;7:151.
Article
PubMed
PubMed Central
CAS
Google Scholar
Mellars P. Going east: new genetic and archaeological perspectives on the modern human colonization of Eurasia. Science. 2006;313(5788):796–800.
Article
CAS
PubMed
Google Scholar
Macaulay V, Hill C, Achilli A, Rengo C, Clarke D, Meehan W, Blackburn J, Semino O, Scozzari R, Cruciani F, et al. Single, rapid coastal settlement of Asia revealed by analysis of complete mitochondrial genomes. Science. 2005;308(5724):1034–6.
Article
CAS
PubMed
Google Scholar
Quintana-Murci L, Semino O, Bandelt HJ, Passarino G, McElreavey K, Santachiara-Benerecetti AS. Genetic evidence of an early exit of Homo sapiens sapiens from Africa through eastern Africa. Nat Genet. 1999;23(4):437–41.
Article
CAS
PubMed
Google Scholar
Sengupta S, Zhivotovsky LA, King R, Mehdi SQ, Edmonds CA, Chow CE, Lin AA, Mitra M, Sil SK, Ramesh A, et al. Polarity and temporality of high-resolution y-chromosome distributions in India identify both indigenous and exogenous expansions and reveal minor genetic influence of central Asian pastoralists. Am J Hum Genet. 2006;78(2):202–21.
Article
CAS
PubMed
Google Scholar
Basu A, Mukherjee N, Roy S, Sengupta S, Banerjee S, Chakraborty M, Dey B, Roy M, Roy B, Bhattacharyya NP, et al. Ethnic India: a genomic view, with special reference to peopling and structure. Genome Res. 2003;13(10):2277–90.
Article
CAS
PubMed
PubMed Central
Google Scholar
Bamshad M, Kivisild T, Watkins WS, Dixon ME, Ricker CE, Rao BB, Naidu JM, Prasad BV, Reddy PG, Rasanayagam A, et al. Genetic evidence on the origins of Indian caste populations. Genome Res. 2001;11(6):994–1004.
Article
CAS
PubMed
PubMed Central
Google Scholar
Consortium HP-AS, Abdulla MA, Ahmed I, Assawamakin A, Bhak J, Brahmachari SK, Calacal GC, Chaurasia A, Chen CH, Chen J, et al. Mapping human genetic diversity in Asia. Science. 2009;326(5959):1541–5.
Article
CAS
Google Scholar
Basu A, Sarkar-Roy N, Majumder PP. Genomic reconstruction of the history of extant populations of India reveals five distinct ancestral components and a complex structure. Proc Natl Acad Sci U S A. 2016;113(6):1594–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Reich D, Thangaraj K, Patterson N, Price AL, Singh L. Reconstructing Indian population history. Nature. 2009;461(7263):489–94.
Article
CAS
PubMed
PubMed Central
Google Scholar
Moorjani P, Thangaraj K, Patterson N, Lipson M, Loh PR, Govindaraj P, Berger B, Reich D, Singh L. Genetic evidence for recent population mixture in India. Am J Hum Genet. 2013;93(3):422–38.
Article
CAS
PubMed
PubMed Central
Google Scholar
Narasimhan VM, Patterson NJ, Moorjani P, Lazaridis I, Mark L, Mallick S, Rohland N, Bernardos R, Kim AM, Nakatsuka N, et al. The Genomic Formation of South and Central Asia. bioRxiv. 2018:292581.
Mallick S, Li H, Lipson M, Mathieson I, Gymrek M, Racimo F, Zhao M, Chennagiri N, Nordenfelt S, Tandon A, et al. The Simons genome diversity project: 300 genomes from 142 diverse populations. Nature. 2016;538(7624):201–6.
Article
CAS
PubMed
PubMed Central
Google Scholar
Kathayat G, Cheng H, Sinha A, Yi L, Li X, Zhang H, Li H, Ning Y, Edwards RL. The Indian monsoon variability and civilization changes in the Indian subcontinent. Sci Adv. 2017;3(12):e1701296.
Article
PubMed
PubMed Central
Google Scholar
Underhill PA, Poznik GD, Rootsi S, Jarve M, Lin AA, Wang J, Passarelli B, Kanbar J, Myres NM, King RJ, et al. The phylogenetic and geographic structure of Y-chromosome haplogroup R1a. Eur J Hum Genet. 2015;23(1):124–31.
Article
PubMed
Google Scholar
Mathieson I, Alpaslan-Roodenberg S, Posth C, Szecsenyi-Nagy A, Rohland N, Mallick S, Olalde I, Broomandkhoshbacht N, Candilio F, Cheronet O, et al. The genomic history of southeastern Europe. Nature. 2018;555(7695):197–203.
Article
CAS
PubMed
PubMed Central
Google Scholar
Silva M, Oliveira M, Vieira D, Brandao A, Rito T, Pereira JB, Fraser RM, Hudson B, Gandini F, Edwards C, et al. A genetic chronology for the Indian subcontinent points to heavily sex-biased dispersals. BMC Evol Biol. 2017;17(1):88.
Article
PubMed
PubMed Central
Google Scholar
Nakatsuka N, Moorjani P, Rai N, Sarkar B, Tandon A, Patterson N, Bhavani GS, Girisha KM, Mustak MS, Srinivasan S, et al. The promise of discovering population-specific disease-associated genes in South Asia. Nat Genet. 2017;49(9):1403–7.
Article
CAS
PubMed
PubMed Central
Google Scholar
Mandal SK: Kumhar/Kumbhar. In: People of India: Rajasthan. Edited by Singh SK: Popular Prakashan; 1998: 565–566.
Saraswati B. Pottery-making cultures and Indian civilization: Abhinav publications; 1979.
Google Scholar
Das R, Upadhyai P. An ancestry informative marker set which recapitulates the known fine structure of populations in South Asia. Genome Biol Evol. 2018;10(9):2408–16.
Article
PubMed
PubMed Central
Google Scholar
Weir BS, Cockerham CC. Estimating F-statistics for the analysis of population structure. Evolution. 1984;38(6):1358–70.
CAS
PubMed
Google Scholar
Alexander DH, Novembre J, Lange K. Fast model-based estimation of ancestry in unrelated individuals. Genome Res. 2009;19(9):1655–64.
Article
CAS
PubMed
PubMed Central
Google Scholar
Pickrell JK, Pritchard JK. Inference of population splits and mixtures from genome-wide allele frequency data. PLoS Genet. 2012;8(11):e1002967.
Article
CAS
PubMed
PubMed Central
Google Scholar
Loh PR, Lipson M, Patterson N, Moorjani P, Pickrell JK, Reich D, Berger B. Inferring admixture histories of human populations using linkage disequilibrium. Genetics. 2013;193(4):1233–54.
Article
PubMed
PubMed Central
Google Scholar
Brooke JL. Climate change and the course of global history: a rough journey: Cambridge University press; 2014.
Book
Google Scholar
Haak W, Lazaridis I, Patterson N, Rohland N, Mallick S, Llamas B, Brandt G, Nordenfelt S, Harney E, Stewardson K, et al. Massive migration from the steppe was a source for indo-European languages in Europe. Nature. 2015;522(7555):207–11.
Article
CAS
PubMed
PubMed Central
Google Scholar
Patterson N, Moorjani P, Luo Y, Mallick S, Rohland N, Zhan Y, Genschoreck T, Webster T, Reich D. Ancient admixture in human history. Genetics. 2012;192(3):1065–93.
Article
PubMed
PubMed Central
Google Scholar
Majumder PP. Ethnic populations of India as seen from an evolutionary perspective. J Biosci. 2001;26(4 Suppl):533–45.
Article
CAS
PubMed
Google Scholar
Majumder PP. The human genetic history of South Asia. Curr Biol. 2010;20(4):R184–7.
Article
CAS
PubMed
Google Scholar
Sun C, Kong QP, Palanichamy MG, Agrawal S, Bandelt HJ, Yao YG, Khan F, Zhu CL, Chaudhuri TK, Zhang YP. The dazzling array of basal branches in the mtDNA macrohaplogroup M from India as inferred from complete genomes. Mol Biol Evol. 2006;23(3):683–90.
Article
CAS
PubMed
Google Scholar
Cahille MA. Paradise rediscovered: the roots of civilisation: interactive publications; 2012.
Google Scholar
Langer WL. An encyclopedia of world history. Boston: Houghton Mifflin Company; 1972.
Google Scholar
Southworth F. Linguistic archaeology of South Asia Routledge; 2005.
Google Scholar
Kenoyer JM. Ancient cities of the Indus Valley civilization. Karachi: Oxford University Press; 1998.
Google Scholar
Sachdev R, Haldiya KR, Dixit AK. Acute intermittent Porphyria in a Kumhar community of Western Rajasthan. J Assoc Physicians India. 2005;53:101–4.
CAS
PubMed
Google Scholar
Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet. 2006;38(8):904–9.
Article
CAS
PubMed
Google Scholar
Lazaridis I, Nadel D, Rollefson G, Merrett DC, Rohland N, Mallick S, Fernandes D, Novak M, Gamarra B, Sirak K, et al. Genomic insights into the origin of farming in the ancient near east. Nature. 2016;536(7617):419–24.
Article
CAS
PubMed
PubMed Central
Google Scholar
Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MA, Bender D, Maller J, Sklar P, de Bakker PI, Daly MJ, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007;81(3):559–75.
Article
CAS
PubMed
PubMed Central
Google Scholar
Elhaik E, Tatarinova T, Chebotarev D, Piras IS, Maria Calo C, De Montis A, Atzori M, Marini M, Tofanelli S, Francalacci P, et al. Geographic population structure analysis of worldwide human populations infers their biogeographical origins. Nat Commun. 2014;5:3513.
Article
CAS
PubMed
Google Scholar
Marshall S, Das R, Pirooznia M, Elhaik E. Reconstructing Druze population history. Sci Rep. 2016;6:35837.
Article
CAS
PubMed
PubMed Central
Google Scholar
Das R, Wexler P, Pirooznia M, Elhaik E. The origins of Ashkenaz, Ashkenazic Jews, and Yiddish. Front Genet. 2017;8:87.
Article
PubMed
PubMed Central
Google Scholar
Das R, Upadhyai P. Application of geographic population structure (GPS) algorithm for biogeographical analyses of populations with complex ancestries: a case study of south Asians from 1000 genomes project. BMC Genet. 2017;18(Suppl 1):109.
Article
PubMed
PubMed Central
Google Scholar
Das R, Upadhyai P. Adaptation of the Geographic Population Structure (GPS) algorithm for biogeographical analyses of wild and captive Gorillas. BMC Bioinformatics (In Press). 2019;20:35.
Article
Google Scholar
Das R, Wexler P, Pirooznia M, Elhaik E. Localizing Ashkenazic Jews to primeval villages in the ancient Iranian lands of Ashkenaz. Genome Biol Evol. 2016;8(4):1132–49.
Article
CAS
PubMed
PubMed Central
Google Scholar
Aberg KA, Chan RF, Shabalin AA, Zhao M, Turecki G, Staunstrup NH, Starnawska A, Mors O, Xie LY, van den Oord EJ. A MBD-seq protocol for large-scale methylome-wide studies with (very) low amounts of DNA. Epigenetics. 2017;12(9):743–50.
Article
PubMed
PubMed Central
Google Scholar
Flegontov P, Changmai P, Zidkova A, Logacheva MD, Altinisik NE, Flegontova O, Gelfand MS, Gerasimov ES, Khrameeva EE, Konovalova OP, et al. Genomic study of the Ket: a Paleo-Eskimo-related ethnic group with significant ancient north Eurasian ancestry. Sci Rep. 2016;6:20768.
Article
CAS
PubMed
PubMed Central
Google Scholar
Triska P, Chekanov N, Stepanov V, Khusnutdinova EK, Kumar GPA, Akhmetova V, Babalyan K, Boulygina E, Kharkov V, Gubina M, et al. Between Lake Baikal and the Baltic Sea: genomic history of the gateway to Europe. BMC Genet. 2017;18(Suppl 1):110.
Article
PubMed
PubMed Central
CAS
Google Scholar