Associate Professor and Deputy Head of School (Research)
School of Science
Dr. Qasim Ayub has recently joined Monash University Malaysia as Associate Professor in Genomics. He trained as a clinician and subsequently obtained his doctorate from the University of North Texas, Denton, USA. He has worked in USA, Pakistan, Italy and the United Kingdom. In Pakistan he assisted in setting up a state of the art molecular biology research facility, the Biomedical and Genetic Engineering Laboratories, in Islamabad, that became the focal point for the Human Genome Diversity Project. From 2008 until August 2017 he worked at the world renowned Wellcome Trust Sanger Institute in Hinxton, near Cambridge, and was a member of the 1000 Genomes Project Consortiums and the gorilla sequencing team that published several high profile papers.
Qasim’s research focuses on human population and evolutionary genomics and over the past decade he has analyzed DNA variation in worldwide ethnic and linguistic groups in order to understand their origins and relatedness. Several of the novel male specific markers that were identified during his studies of the Pakistani populations are now routinely used in forensic DNA identification. For this work he was awarded the President of Pakistan’s Medal of Excellence for contributions to science in 2006. He continues to maintain his interest in South Asian population genetics and exploring the functional basis for high-altitude adaptation in the Himalayas.
He is currently leading the genomics research platform at Monash University Malaysia and developing projects in evolutionary and disease genomics. The aim is to analyze DNA variations in humans and other species to ascertain their distribution patterns in different parts of the world, so as to learn about their origins and migration patterns, and improve our understanding of genetic factors involved in the host pathogen interactions.
- Doctor of Philosophy in Biological Sciences (Immunology), University of North Texas, USA, 1991
- Bachelor of Medicine; Bachelor of Surgery (MBBS), University of Peshawar, Pakistan, 1985
- Human population and evolutionary genomics.
My research interests are in genome sequencing and human evolutionary and disease genomics. Current projects are examining the aging population in Bandar Sunway and human intestinal parasitic interactions. I am also a co-investigator on the Malaysian Microbiome Project that is studying oral and gut microbiomes and anti-microbial resistance in collaboration with The South East Asia Community Observatory (SEACO - http://www.seaco.asia/)
- GEN2052 (Genomics and Population Genetics)
- BIN3800 (Bioinformatics)
- BIN3890 (Genomics and Big Data - under development)
Ayub Q, M Haber and C Tyler-Smith. Evolutionary and population genetics in forensic science. In Handbook of Forensic Genetics: Biodiversity and Heredity in Civil and Criminal Investigation. A Amorim and B Budowle (eds) Imperial College Press, London, pp. 33-60 (2016).
Tyler-Smith C, T Zerjal, Y Xue, RS Wells, W Bao, S Zhu, R Qamar, Q Ayub, A Mohyuddin, S Fu, P Li, R Du, H Yang, SQ Mehdi, N Yuldasheva, R Ruzibakiev, ME Hurles, E Robinson, T Gerelsaikhan and B Dashnyam. Y-chromosomal DNA variation and human population history. In International Congress Series: Progress in Forensic Genetics 9, Vol. 1239 B. Brinkmann and A. Carracedo (eds) Elsevier Science, Amsterdam, pp. 281-282 (2003).
Mehdi SQ, Q Ayub, R Qamar, A Mohyuddin, A Mansoor, K Mazhar, A Hameed, M Ismail, S Rehman, S Siddiqi, S Khaliq, M Papaioannou, C Tyler-Smith and LL Cavalli-Sforza. Perspectives on human genome diversity within Pakistan using Y chromosomal and autosomal microsatellite markers. In Biodiversity:Biomolecular Aspects of Biodiversity and Innovative Utilization. B. Sener (ed) Kluwer Academic/Plenum Publishers, New York, pp. 35-47 (2002).
Mehdi SQ, R Qamar, Q Ayub, S Khaliq, A Mansoor, M Ismail, MF Hammer, PA Underhill and LL Cavalli-Sforza. The origins of Pakistani populations. In Genomic Diversity:Applications in Human Population Genetics. S. S. Papiha and R. Deka (eds) Kluwer Academic/Plenum Publishing Corp. New York, pp.83-90 (1999).
Mehdi SQ, R Qamar, Q Ayub, S Khaliq, A Mansoor, A Hameed, A Mohyuddin, M Ismail, T Karafet, MF Hammer, PJ Oefner, RW Davis, PA Underhill and LL Cavalli-Sforza. The genetic history of Pakistani ethnic groups in a global context. In Natural Product Chemistry at the Turn of the Century. Atta-ur-Rahman, M. I. Choudhary, K. M. Khan (eds) Gordon Breach Publishers, Amsterdam, pp. 513-520 (1999).
PEER REVIEWED PUBLICATIONS AS CORRESPONDING AUTHOR
Farheena Iqbal, Qasim Ayub, Beng Kah Song, Robyn Wilson, Muhammad Fahim, Sadequr Rahman. 2020. Sequence and phylogeny of the complete mitochondrial genome of the Himalayan jungle crow (Corvidae: Corvus macrorhynchos intermedius) from Pakistan. Mitochondrial DNA Part B, 5(1), 348-350
Thomaz Pinotti, Anders Bergström, Maria Geppert, Matt Bawn, Dominique Ohasi, Wentao Shi, Daniela R Lacerda, Arne Solli, Jakob Norstedt, Kate Reed, Kim Dawtry, Fabricio González-Andrade, Cesar Paz-y-Miño, Susana Revollo, Cinthia Cuellar, Marilza S Jota, José E Santos Jr, Qasim Ayub, Toomas Kivisild, José R Sandoval, Ricardo Fujita, Yali Xue, Lutz Roewer, Fabrício R Santos, Chris Tyler-Smith. 2019. Y chromosome sequences reveal a short beringian standstill, rapid expansion, and early population structure of native American founders. Current Biology, 29(1), 149-157. e3.
Kanagesswari Muniandy, Mun Hua Tan, Beng Kah Song, Qasim Ayub, Sadequr Rahman. 2019. Comparative sequence and methylation analysis of chloroplast and amyloplast genomes from rice. Plant Molecular Biology,-, 1-14.
Roberto Sirica, Marianna Buonaiuto, Valeria Petrella, Lucia Sticco, Donatella Tramontano, Dario Antonini, Caterina Missero, Ombretta Guardiola, Gennaro Andolfi, Heerman Kumar, Qasim Ayub, Yali Xue, Chris Tyler-Smith, Marco Salvemini, Giovanni D’Angelo, Vincenza Colonna. 2019. Positive selection in Europeans and East-Asians at the ABCA12 gene. Scientific Reports, 9(1), 4843.
Wentao Shi, Sandra Louzada, Marina Grigorova, Andrea Massaia, Elena Arciero, Laura Kibena, Xiangyu Jack Ge, Yuan Chen, Qasim Ayub, Olev Poolamets, Chris Tyler-Smith, Margus Punab, Maris Laan, Fengtang Yang, Pille Hallast, Yali Xue. 2019. Evolutionary and functional analysis of RBMY1 gene copy number variation on the human Y chromosome. Human Molecular Genetics,-, 1-14.
M Szpak, Y Xue, Q Ayub, C Tyler‐Smith. 2019. How well do we understand the basis of classic selective sweeps in humans? FEBS letters,-, 1-18.
Chrystine Zou Yi Yan, Christopher M Austin, Qasim Ayub, Sadequr Rahman, Han Ming Gan. 2019. Genomic characterization of Vibrio parahaemolyticus from Pacific white shrimp and rearing water in Malaysia reveals novel sequence types and structural variation in genomic regions containing the Photorhabdus insect-related (Pir) toxin-like genes. FEMS Microbiology Letters, 366(17), fnz211.
Chrystine Zou Yi Yan, Christopher M Austin, Qasim Ayub, Sadequr Rahman, Han Ming Gan. 2019. Genomic characterization of Vibrio parahaemolyticus from Pacific white shrimp and rearing water reveals novel sequence types and multiple introductions of Photorhabdus insect-related (Pir) toxin-like genes into Malaysia. bioRxiv, 714626.
Anders Bergström, Shane A McCarthy, Ruoyun Hui, Mohamed A Almarri, Qasim Ayub, Petr Danecek, Yuan Chen, Sabine Felkel, Pille Hallast, Jack Kamm, Hélène Blanché, Jean-François Deleuze, Howard Cann, Swapan Mallick, David Reich, Manjinder S Sandhu, Pontus Skoglund, Aylwyn Scally, Yali Xue, Richard Durbin, Chris Tyler-Smith. 2019. Insights into human genetic variation and population history from 929 diverse genomes. bioRxiv, 674986.
Michał Szpak, Massimo Mezzavilla, Qasim Ayub, Yuan Chen, Yali Xue, Chris Tyler-Smith. 2018. FineMAV: prioritizing candidate genetic variants driving local adaptations in human populations. Genome Biology, 19(1), 5.
Elena Arciero, Thirsa Kraaijenbrink, Marc Haber, Massimo Mezzavilla, Qasim Ayub, Wei Wang, Zhaxi Pingcuo, Huanming Yang, Jian Wang, Mark A Jobling, George van Driem, Yali Xue, Peter de Knijff, Chris Tyler-Smith. 2018. Demographic history and genetic adaptation in the Himalayan region inferred from genome-wide SNP genotypes of 49 populations. Molecular Biology and Evolution, 35(8), 1916-1933.
Wentao Shi, Andrea Massaia, Sandra Louzada, Ruby Banerjee, Pille Hallast, Yuan Chen, Anders Bergström, Yong Gu, Steven Leonard, Michael A Quail, Qasim Ayub, Fengtang Yang, Chris Tyler-Smith, Yali Xue. 2018. Copy number variation arising from gene conversion on the human Y chromosome. Human Genetics, 137(1), 73-83.
Chaubey G, Q Ayub, N Rai, S Prakash, V Mushrif-Tripathy, M Mezzavilla, AK Pathak, R Tamang, S Firasat, M Reidla, M Karmin, DS Rani, AG Reddy, J Parik, E Metspalu, S Rootsi, K Dalal, S Khaliq, SQ Mehdi, L Singh, M Metspalu, T Kivisild, C Tyler-Smith, R Villems and K Thangaraj. "Like sugar in milk": reconstructing the genetic history of the Parsi population. Genome Biol 18:110 (2017). PMID: 28615043.
Pagani L, V Colonna, C Tyler-Smith and Q Ayub. An ethnolinguistic and genetic perspective on the origins of the Dravidian-speaking Brahui in Pakistan. Man In India 97:267-278 (2017).
Romuald Laso-Jadart, Christine Harmant, Hélène Quach, Nora Zidane, Chris Tyler-Smith, Qasim Mehdi, Qasim Ayub, Lluis Quintana-Murci, Etienne Patin. 2017. The genetic legacy of the Indian Ocean slave trade: recent admixture and post-admixture selection in the Makranis of Pakistan. The American Journal of Human Genetics, 101(6), 977-984.
Hackinger S, T Kraaijenbrink, Y Xue, M Mezzavilla, Asan, G van Driem, MA Jobling, P de Knijff, C Tyler-Smith and Q Ayub. Wide distribution and altitude correlation of an archaic high-altitude-adaptive EPAS1 haplotype in the Himalayas. Hum Genet 135:393-402 (2016). PMID: 26883865.
Ayub Q, M Mezzavilla, L Pagani, M Haber, A Mohyuddin, S Khaliq, SQ Mehdi and C Tyler-Smith. Response to Hellenthal et al. Am J Hum Genet 98:398-399 (2016). PMID: 26849117.
Arciero E, SA Biagini, Y Chen, Y Xue, D Luiselli, C Tyler-Smith, L Pagani and Q Ayub. Genes regulated by vitamin D in bone cells are positively selected in East Asians. PLoS One 10:e0146072 (2015). PMID: 26719974.
Shah SS, A Mohyuddin, V Colonna, SQ Mehdi and Q Ayub. Monoamine oxidase A gene polymorphisms and self reported aggressive behaviour in a Pakistani ethnic group. J Pak Med Assoc 65:818-824 (2015). PMID: 26228323.
Ayub Q, M Mezzavilla, L Pagani, M Haber, A Mohyuddin, S Khaliq, SQ Mehdi and C Tyler-Smith. The Kalash genetic isolate: Ancient divergence, drift, and selection. Am J Hum Genet 96:775-783 (2015). PMID: 25937445.
Ayub Q, B Yngvadottir, Y Chen, Y Xue, M Hu, SC Vernes, SE Fisher and C Tyler-Smith. FOXP2 targets show evidence of positive selection in European populations. Am J Hum Genet 92:696-706 (2013). PMID: 23602712.
Ayub Q. Male lineages in the Himalayan foothills: A commentary on Y-chromosome haplogroup diversity in the sub-Himalayan Terai and Duars populations of East India. J Hum Genet 56:813-814 (2011). PMID: 21975650.
Firasat S, S Khaliq, A Mohyuddin, M Papaioannou, C Tyler-Smith, PA Underhill and Q Ayub. Y-chromosomal evidence for a limited Greek contribution to the Pathan population of Pakistan. Eur J Hum Genet 15:121-126 (2007). PMID: 17047675.
Mansoor A, K Mazhar, S Khaliq, A Hameed, S Rehman, S Siddiqi, M Papaioannou, LL Cavalli-Sforza, SQ Mehdi and Q Ayub. Investigation of the Greek ancestry of populations from northern Pakistan. Hum Genet114:484-490 (2004). PMID: 14986106.
PEER REVIEWED PUBLICATIONS AS FIRST AUTHOR
Ayub Q, L Moutsianas, Y Chen, K Panoutsopoulou, V Colonna, L Pagani, I Prokopenko, GR Ritchie, C Tyler-Smith, MI McCarthy, E Zeggini and Y Xue. Revisiting the thrifty gene hypothesis via 65 loci associated with susceptibility to type 2 diabetes. Am J Hum Genet 94:176-185 (2014). PMID: 24412096.
Ayub Q, Y Xue and C Tyler-Smith. Genomic triumph meets clinical reality. Genome Biol 14:307 (2013). PMID: 23714135.
Ayub Q and C Tyler-Smith. Genetic variation in South Asia: assessing the influences of geography, language and ethnicity for understanding history and disease risk. Brief Funct Genomic Proteomic 8:395-404 (2009). PMID: 19535507.
Shah SS, Q Ayub, S. Firasat, F. Kaiser and SQ Mehdi. Y haplogroups and aggressive behavior in a Pakistani ethnic group. Aggress Behav 35:68-74 (2009). PMID: 18942110.
Mohyuddin A, Q Ayub, PA Underhill, C Tyler-Smith and SQ Mehdi. Detection of novel Y SNPs provides further insights into Y chromosomal variation in Pakistan. J Hum Genet 51:375-378 (2006). PMID: 16470330.
Ayub Q, A Mansoor, M Ismail, S Khaliq, A Mohyuddin, A Hameed, K Mazhar, S Rehman, S Siddiqi, M Papaioannou, A Piazza, LL Cavalli-Sforza and SQ Mehdi. Reconstruction of human evolutionary tree using polymorphic autosomal microsatellites. Am J Phys Anthropol 122:259-268 (2003). PMID: 14533184.
Ayub Q, A Mohyuddin, R Qamar, K Mazhar, T Zerjal, SQ Mehdi and C Tyler-Smith. Identification and characterisation of novel human Y-chromosomal microsatellites from sequence database information. Nucleic Acids Res 28:e8 (2000). PMID: 10606676.
CONTRIBUTING AUTHOR IN CONSORTIUM PAPERS
Jota MS, DR Lacerda, JR Sandoval, PPR Vieira, D Ohasi, JE Santos-Júnior, O Acosta, C Cuellar, S Revollo, C Paz-y-Miño, R Fujita, GA Vallejo, TG Schurr, EM Tarazona-Santos, SDJ Pena, Q Ayub, C Tyler-Smith, FR Santos and Genographic Consortium. New native South American Y chromosome lineages. J Hum Genet61:593-603 (2016). PMID: 27030145 & 27453507.
Poznik GD, Y Xue, FL Mendez, TF Willems, A Massaia, MAW Sayres, Q Ayub, SA McCarthy, A Narechania, S Kashin, Y Chen, R Banerjee, JL Rodriguez-Flores, M Cerezo, H Shao, M Gymrek, A Malhotra, S Louzada,R Desalle, GRS Ritchie, E Cerveira, TW Fitzgerald, E Garrison,A Marcketta,D Mittelman, M Romanovitch,C Zhang, X Zheng-Bradley, GR Abecasis, SA McCarroll, P Flicek, PA Underhill, L Coin, DR Zerbino, F Yang,C Lee, L Clarke, A Auton, Y Erlich, RE Handsaker, The 1000 Genomes Project Consortium, CD Bustamante and C Tyler-Smith. Punctuated bursts in human male demography inferred from 1,244 worldwide Y-chromosome sequences. Nat Genet 48:593-599 (2016). PMID: 27111036.
The 1000 Genomes Project Consortium. A global reference for human genetic variation. Nature 526:68-74 (2015). PMID: 26432245.
Colonna V, Q Ayub, Y Chen, L Pagani, P Luisi, M Pybus, E Garrison, Y Xue, C Tyler-Smith and The 1000 Genomes Project Consortium. Human genomic regions with exceptionally high levels of population differentiation identified from 911 whole-genome sequences. Genome Biol 15:R88 (2014). PMID: 24980144.
The 1000 Genomes Project Consortium. An integrated map of genetic variation from 1,092 human genomes. Nature 491:56-65 (2012). PMID: 23128226.
Xue Y, Y Chen, Q Ayub, N Huang, EV Ball, M Mort, AD Phillips, K Shaw, PD Stenson, DN Cooper, C Tyler-Smith and 1000 Genomes Project Consortium. Deleterious- and disease-allele prevalence in healthy individuals: Insights from current predictions, mutation databases, and population-scale resequencing. Am J Hum Genet 91:1022-1032 (2012). PMID: 23217326.
MacArthur DG, S Balasubramanian, A Frankish, N Huang, J Morris, K Walter, L Jostins, L Habegger, JK Pickrell, SB Montgomery, CA Albers, ZD Zhang, DF Conrad, G Lunter, H Zheng, Q Ayub, MA DePristo, E Banks, M Hu, RE Handsaker, J Rosenfeld, M Fromer, M Jin, XJ Mu, E Khurana, K Ye, M Kay, GI Saunders, M-M Suner, T Hunt, IHA Barnes, C Amid, DR Carvalho-Silva, AH Bignell, C Snow, B Yngvadottir, S Bumpstead, DN Cooper, Y Xue, IG Romero, 1000 Genomes Project Consortium, J Wang, Y Li, RA Gibbs, SA McCarroll, ET Dermitzakis, JK Pritchard, JC Barrett, J Harrow, ME Hurles, MB Gerstein and C Tyler-Smith. A systematic survey of loss-of-function variants in human protein-coding genes. Science 335:823-828 (2012). PMID: 22344438.
The 1000 Genomes Project Consortium. A map of human genome variation from population-scale sequencing. Nature 467:1061-1073 (2010). PMID: 20981092.
CONTRIBUTING AUTHOR IN OTHER PEER REVIEWED PUBLICATIONS
Xue Y, M Mezzavilla, M Haber, S McCarthy, Y Chen, V Narasimhan, A Gilly, Q Ayub, V Colonna, L Southam, C Finan, A Massaia, H Chheda, P Palta, G Ritchie, J Asimit, G Dedoussis, P Gasparini, A Palotie, S Ripatti, N Soranzo, D Toniolo, JF Wilson, R Durbin, C Tyler-Smith and E Zeggini. Enrichment of low-frequency functional variants revealed by whole-genome sequencing of multiple isolated European populations. Nat Commun Jun 23:8:15927 (2017). PMID: 28643794.
Pagani L, DJ Lawson, E Jagoda, A Mörseburg, A Eriksson, M Mitt, F Clemente, G Hudjashov, M DeGiorgio, L Saag, JD Wall, A Cardona, R Mägi, MAW Sayres, S Kaewert, C Inchley, CL Scheib, M Järve, M Karmin, GS Jacobs, T Antao, FM Iliescu, A Kushniarevich, Q Ayub, C Tyler-Smith, Y Xue, B Yunusbayev, K Tambets, CB Mallick, L Saag, E Pocheshkhova, G Andriadze, C Muller, MC Westaway, DM Lambert, G Zoraqi, S Turdikulova, D Dalimova, Z Sabitov, GNN Sultana, J Lachance, S Tishkoff, K Momynaliev, J Isakova, LD Damba, M Gubina, P Nymadawa, I Evseeva, L Atramentova, O Utevska, F-X Ricaut, N Brucato, H Sudoyo, T Letellier, MP Cox, NA Barashkov, V Škaro, L Mulahasanovic´, D Primorac, H Sahakyan, M Mormina, CA Eichstaedt, DV Lichman, S Abdullah, G Chaubey, JTS Wee, E Mihailov, A Karunas, S Litvinov, R Khusainova, N Ekomasova, V Akhmetova, I Khidiyatova, D Marjanović, L Yepiskoposyan, DM Behar, E Balanovska, A Metspalu, M Derenko, B Malyarchuk, M Voevoda, SA Fedorova, LP Osipova, MM Lahr, P Gerbault, M Leavesley, AB Migliano, M Petraglia, O Balanovsky, EK Khusnutdinova, E Metspalu, MG Thomas, A Manica, R Nielsen, R Villems, E Willerslev, T Kivisild and M Metspalu. Genomic analyses inform on migration events during the peopling of Eurasia. Nature 538:238-242 (2016). PMID: 27654910.
Boattini A, S Sarno, C Bini, V Pesci, C Barbieri, S De Fanti, A Quagliariello, L Pagani, Q Ayub, G Ferri, D Pettener, D Luiselli and S Pelotti. Mutation rates and discriminating power for 13 rapidly-mutating Y-STRs between related and unrelated individuals. PLoS One 11:e0165678 (2016). PMID: 27802306.
Bergström A, N Nagle, Y Chen, S McCarthy, MO Pollard, Q Ayub, S Wilcox, L Wilcox, RA van Oorschot, P McAllister, L Williams, Y Xue, RJ Mitchell and C Tyler-Smith C. Deep roots for aboriginal Australian Y chromosomes. Curr Biol 26:809-813 (2016). PMID: 26923783.
Espinosa JRF, Q Ayub, Y Chen, Y Xue and C Tyler-Smith. Structural variation on the human Y chromosome from population-scale resequencing. Croat Med J 56:194-207 (2015). PMID: 26088844.
Wei W, TW Fitzgerald, Q Ayub, A Massaia, BH Smith, AF Dominiczak, AD Morris, DJ Porteous, ME Hurles, C Tyler-Smith, and Y Xue. Copy number variation in the human Y chromosome in the UK population. Hum Genet134:789-801 (2015). PMID: 25957587 & 25986439.
Xue Y, J Prado-Martinez, PH Sudmant, V Narasimhan, Q Ayub, M Szpak, P Frandsen, Y Chen, B Yngvadottir, DN Cooper, M de Manuel, J Hernandez-Rodriguez, I Lobon, HR Siegismund, L Pagani, MA Quail, C Hvilsom, A Mudakikwa, EE Eichler, MR Cranfield, T Marques-Bonet, C Tyler-Smith and A Scally. Mountain gorilla genomes reveal the impact of long-term population decline and inbreeding. Science 348:242-245 (2015). PMID: 25859046.
Karmin M, L Saag, M Vicente, MAW Sayres, M Järve, UG Talas, S Rootsi, A-M Ilumäe, R Mägi, M Mitt, L Pagani, T Puurand, Z Faltyskova, F Clemente, A Cardona, E Metspalu, H Sahakyan, B Yunusbayev, G Hudjashov, M DeGiorgio, E-L Loogväli, C Eichstaedt, M Eelmets, G Chaubey, K Tambets, S Litvinov, M Mormina, Y Xue, Q Ayub, G Zoraqi, TS Korneliussen, F Akhatova, J Lachance, S Tishkoff, K Momynaliev, F-X Ricaut, P Kusuma, H Razafindrazaka, D Pierron, MP Cox, GNN Sultana, R Willerslev, C Muller, M Westaway, D Lambert, V Skaro, L Kovacevic, S Turdikulova, D Dalimova, R Khusainova, N Trofimova, V Akhmetova, I Khidiyatova, DV Lichman, J Isakova, E Pocheshkhova, Z Sabitov, NA Barashkov, P Nymadawa, E Mihailov, JWT Seng, I Evseeva, AB Migliano, S Abdullah, G Andriadze, D Primorac, L Atramentova, O Utevska, L Yepiskoposyan, D Marjanovic, A Kushniarevich, DM Behar, C Gilissen, L Vissers, JA Veltman, E Balanovska, M Derenko, B Malyarchuk, A Metspalu, S Fedorova, A Eriksson, A Manica, FL Mendez, TM Karafet, KR Veeramah, N Bradman, MF Hammer, LP Osipova, O Balanovsky, EK Khusnutdinova, K Johnsen, M Remm, MG Thomas, C Tyler-Smith, PA Underhill, E Willerslev, R Nielsen, M Metspalu, R Villems and T Kivisild. A recent bottleneck of Y chromosome diversity coincides with a global change in culture. Genome Res 25:459-466 (2015). PMID: 25770088.
Geppert M, Q Ayub, Y Xue, S Santos, A Ribeiro-dos-Santos, M Baeta, C Núñez, B Martínez-Jarreta, C Tyler-Smith and L Roewer. Identification of new SNPs in native South American populations by resequencing the Y chromosome. Forensic Sci Int Genet 15:111-114 (2015). PMID: 25303787.
Clemente FJ, A Cardona, CE Inchley, BM Peter, G Jacobs, L Pagani, DJ Lawson, T Antão, M Vicente, M Mitt, M DeGiorgio, Z Faltyskova, Y Xue, Q Ayub, M Szpak, R Mägi, A Eriksson, A Manica, M Raghavan, M Rasmussen, S Rasmussen,E Willerslev, A Vidal-Puig, C Tyler-Smith, R Villems, R Nielsen, M Metspalu, B Malyarchuk, M Derenko and T Kivisild. A Selective sweep on a deleterious mutation in CPT1A in Arctic populations. Am J Hum Genet 95:584-589 (2014). PMID: 25449608.
Ballantyne KN, A Ralf, R Aboukhalid, NM Achakzai, MJ Anjos, Q Ayub, J Balažic, J Ballantyne, DJ Ballard, B Berger, C Bobillo, M Bouabdellah, H Burri, T Capal, S Caratti, J Cárdenas, F Cartault, EF Carvalho, M Carvalho, B Cheng, MD Coble, D Comas, D Corach, ME D'Amato, S Davison, P de Knijff, MCA De Ungria, R Decorte, T Dobosz, BM Dupuy, S Elmrghni, M Gliwinski, SC Gomes, L Grol, C Haas, E Hanson, J Henke, L Henke, F Herrera-Rodríguez, CR Hill, G Holmlund, K Honda, U-D Immel, S Inokuchi, MA Jobling, M Kaddura, JS Kim, SH Kim, W Kim, TE King, E Klausriegler, D Kling, L Kovacevic, L Kovatsi, P Krajewski, S Kravchenko, MHD Larmuseau, EY Lee, R Lessig, LA Livshits, D Marjanovic, M Minarik, N Mizuno, H Moreira, N Morling, M Mukherjee, P Munier, J Nagaraju, F Neuhuber, S Nie, P Nilasitsataporn, T Nishi, HH Oh, J Olofsson, V Onofri, JU Palo, H Pamjav, W Parson, M Petlach, C Phillips, R Ploski, SPR Prasad, D Primorac, GA Purnomo, J Purps, H Rangel-Villalobos, K Rebala, B Rerkamnuaychoke, DR Gonzalez, C Robino, L Roewer, A Rosa, A Sajantila, A Sala, JM Salvador, P Sanz, C Schmitt, AK Sharma, DA Silva, K-J Shin, T Sijen, M Sirker, D Siváková, V Skaro, C Solano-Matamoros, L Souto, V Stenzl, H Sudoyo, D Syndercombe-Court, A Tagliabracci, D Taylor, A Tillmar, IS Tsybovsky, C Tyler-Smith, KJ van der Gaag, D Vanek, A Völgyi, D Ward, P Willemse, EPH Yap, RYY Yong, IZ Pajnic and M Kayser. Toward male individualization with rapidly mutating Y-chromosomal short tandem repeats. Hum Mutat 35:1021-1032 (2014). PMID: 24917567.
Purps J, S Siegert, S Willuweit, M Nagy, C Alves, R Salazar, SMT Angustia, LH Santos, K Anslinger, B Bayer, Q Ayub, W Wei, Y Xue, C Tyler-Smith, MB Bafalluy, B Martínez-Jarreta, B Egyed, B Balitzki, S Tschumi, D Ballard, DS Court, X Barrantes, G Bäßler, T Wiest, B Berger, H Niederstätter, W Parson, C Davis, B Budowle, H Burri, U Borer, C Koller, EF Carvalho, PM Domingues, WT Chamoun, MD Coble, CR Hill, D Corach, M Caputo, ME D'Amato, S Davison, R Decorte, MHD Larmuseau, C Ottoni, O Rickards, D Lu, C Jiang, T Dobosz, A Jonkisz, WE Frank, I Furac, C Gehrig, V Castella, B Grskovic, C Haas, J Wobst, G Hadzic, K Drobnic, K Honda, Y Hou, D Zhou, Y Li, S Hu, S Chen, UD Immel, R Lessig, Z Jakovski, T Ilievska, AE Klann, CC García, P de Knijff, T Kraaijenbrink, A Kondili, P Miniati, M Vouropoulou, L Kovacevic, D Marjanovic, I Lindner, I Mansour, M Al-Azem, AE Andari, M Marino, S Furfuro, L Locarno, P Martín, GM Luque, A Alonso, LS Miranda, H Moreira, N Mizuno, Y Iwashima, RSM Neto, TLS Nogueira, R Silva, M Nastainczyk-Wulf, J Edelmann, M Kohl, S Nie, X Wang, B Cheng, C Núñez, MM de Pancorbo, JK Olofsson, N Morling, V Onofri, A Tagliabracci, H Pamjav, A Volgyi, G Barany, R Pawlowski, A Maciejewska, S Pelotti, W Pepinski, M Abreu-Glowacka, C Phillips, J Cárdenas, D Rey-Gonzalez, A Salas, F Brisighelli, C Capelli, U Toscanini, A Piccinini, M Piglionica, SL Baldassarra, R Ploski, M Konarzewska, E Jastrzebska, C Robino, A Sajantila, JU Palo, E Guevara, J Salvador, MC De Ungria, JJR Rodriguez, U Schmidt, N Schlauderer, P Saukko, PM Schneider, M Sirker, K-J Shin, YN Oh, I Skitsa, A Ampati, T-G Smith, LS de Calvit, V Stenzl, T Capal, A Tillmar, H Nilsson, S Turrina, D De Leo, A Verzeletti, V Cortellini, JH Wetton, GM Gwynne, MA Jobling, MR Whittle, DR Sumita, P Wolanska-Nowak, RYY Yong, M Krawczak, M Nothnagel and L Roewer. A global analysis of Y-chromosomal haplotype diversity for 23 STR loci. Forensic Sci Int Genet 12:12-23 (2014). PMID: 24854874.
Wei W, Q Ayub, Y Xue and C Tyler-Smith. A comparison of Y-chromosomal lineage dating using either resequencing or Y-SNP plus Y-STR genotyping. Forensic Sci Int Genet 7:568-572 (2013). PMID: 23768990.
Scally A, B Yngvadottir, Y Xue, Q Ayub, R Durbin and C Tyler-Smith. A genome-wide survey of genetic variation in gorillas using reduced representation sequencing. PLoS One 8:e65066 (2013). PMID: 23750230.
Wei W, Q Ayub, Y Chen, S McCarthy, Y Hou, I Carbone, Y Xue and C Tyler-Smith. A calibrated human Y-chromosomal phylogeny based on resequencing. Genome Res 23:388-395 (2013). PMID: 23038768.
Pagani L, T Kivisild, A Tarekegn, R Ekong, C Plaster, I Gallego Romero, Q Ayub, SQ Mehdi, MG Thomas, D Luiselli, E Bekele, N Bradman, DJ Balding and C Tyler-Smith. Ethiopian genetic diversity reveals linguistic stratification and complex influences on the Ethiopian gene pool. Am J Hum Genet 91:83-96 (2012). PMID: 22726845.
Scally A, JY Dutheil, LW Hillier, GE Jordan, I Goodhead, J Herrero, A Hobolth, T Lappalainen, T Mailund, T Marques-Bonet, S McCarthy, SH Montgomery, PC Schwalie, YA Tang, MC Ward, Y Xue, B Yngvadottir, C Alkan, LN Andersen, Q Ayub, EV Ball, K Beal, BJ Bradley, Y Chen, CM Clee, S Fitzgerald, TA Graves, Y Gu, P Heath, A Heger, E Karakoc, A Kolb-Kokocinski, GK Laird, G Lunter, S Meader, M Mort, JC Mullikin, K Munch, TD O'Connor, AD Phillips, J Prado-Martinez, AS Rogers, S Sajjadian, D Schmidt, K Shaw, JT Simpson, PD Stenson, DJ Turner, L Vigilant, AJ Vilella, W Whitener, B Zhu, DN Cooper, P de Jong, ET Dermitzakis, EE Eichler, P Flicek, N Goldman, NI Mundy, Z Ning, DT Odom, CP Ponting, M Quail, OA Ryder, SM Searle, WC Warren, RK Wilson, ; MH Schierup, J Rogers, C Tyler-Smith and R Durbin. Insights into hominid evolution from the gorilla genome sequence. Nature 483:169-175 (2012). PMID: 22398555.
Hu M, Q Ayub, JA Guerra-Assunção, Q Long, Z Ning, N Huang, IG Romero, L Mamanova, P Akan, X Liu, AJ Coffey, DJ Turner, H Swerdlow, J Burton, MA Quail, DF Conrad, AJ Enright, C Tyler-Smith and Y Xue. Exploration of signals of positive selection derived from genotype-based human genome scans using re-sequencing data. Hum Genet 131:665-674 (2012). PMID: 22057783.
Pagani L, Q Ayub, DG Macarthur, Y Xue, JK Baillie, Y Chen, I Kozarewa, DJ Turner, S Tofanelli, K Bulayeva, K Kidd, G Paoli and C Tyler-Smith. High altitude adaptation in Daghestani populations from the Caucasus. Hum Genet 131:423-433 (2012). PMID: 21904933.
de Gruijter JM, O Lao, M Vermeulen, Y Xue, C Woodwark, CJ Gillson, AJ Coffey, Q Ayub, SQ Mehdi, M Kayser and C Tyler-Smith.Contrasting signals of positive selection in genes involved in human skin-color variation from tests based on SNP scans and resequencing. Investig Genet 2: 24 (2011). PMID: 22133426.
Zhou X, Y Xu, J Wang, H Zhou, X Liu, Q Ayub, X Wang, C Tyler-Smith, L Wu and Y Xue. Replication of the association of a MET variant with autism in a Chinese Han Population. PLoS One 6:e27428 (2011). PMID: 22110649.
Underhill PA, NM Myres, S Rootsi, M Metspalu, LA, Zhivotovsky, RJ King, AA, Lin, C-ET Chow, O Semino, V Battaglia, I Kutuev, M Järve, G Chaubey, Q Ayub, A, Mohyuddin, SQ Mehdi, S Sengupta, EI Rogaev, EK Khusnutdinova, A Pshenichnov, O Balanovsky, E Balanovska, N Jeran, DH Augustin, M Baldovic, RJ Herrera, K Thangaraj, V Singh, L Singh, P Majumder, P Rudan, D Primorac, R Villems and T Kivisild. Separating the post-glacial coancestry of European and Asian Y chromosomes within haplogroup R1a. Eur J Hum Genet 18:479-484 (2010). PMID: 19888303.
Shi W, Q Ayub, M Vermeulen, RG Shao, S Zuniga, K van der Gaag, P de Knijff, M Kayser, Y Xue and C Tyler-Smith. A worldwide survey of human male demographic history based on Y-SNP and Y-STR data from the HGDP-CEPH populations. Mol Biol Evol 27:385-393 (2010). PMID: 19822636.
Xue Y, X Zhang, N Huang, A Daly, CJ Gillson, DG Macarthur, B Yngvadottir, AC Nica, C Woodwark, Y Chen, DF Conrad, Q Ayub, SQ Mehdi, P Li and C Tyler-Smith. Population differentiation as an indicator of recent positive selection in humans: an empirical evaluation. Genetics 183:1065-1077 (2009). PMID: 19737746.
Dhandapany PS, S Sadayappan, Y Xue, GT Powell, DS Rani, P Nallari, TS Rai, M Khullar, P Soares, A Bahl, JM Tharkan, P Vaideeswar, A Rathinavel, C Narasimhan, DR Ayapati, Q Ayub, SQ Mehdi, S Oppenheimer, MB Richards, AL Price, N Patterson, D Reich, L Singh, C Tyler-Smith and K Thangaraj. A common MYBPC3 (cardiac myosin binding protein C) variant associated with cardiomyopathies in South Asia. Nat Genet 41:187-191 (2009). PMID: 19151713.
Khaliq S, A Abid, DR White, CA Johnson, M Ismail, A Khan, Q Ayub, S Sultana, ER Maher and SQ Mehdi. Mapping of a novel type III variant of Knobloch syndrome (KNO3) to chromosome 17q11.2. Am J Med Genet A143A:2768-2774 (2007). PMID: 17975799.
Rehman S, N Akhtar, W Ahmad, Q Ayub, SQ Mehdi and A Mohyuddin. Human leukocyte antigen (HLA) class II association with rheumatic heart disease in Pakistan. J Heart Valve Dis 16:300-304 (2007). PMID: 17578052.
Ismail M, N Akhtar, M Nasir, S Firasat, Q Ayub and S Khaliq. Association of the angiotensin I-converting enzyme gene insertion/deletion polymorphism with essential hypertension in the Pakistani population. J Biochem Mol Biol 37:552-555 (2004). PMID: 15479618.
Quintana-Murci L, R Chaix, SR Wells, DM Behar, H Sayar, R Scozzari, C Rengo, N Al-Zahery, O Semino, AS Santachiara-Benerecetti, A Coppa, Q Ayub, A Mohyuddin, C Tyler-Smith, SQ Mehdi, A Torroni and K McElreavey. Where West meets East:The complex mtDNA landscape of the Southwest and Central Asian corridor. Am J Hum Genet 74:827-845 (2004). PMID: 15077202.
Mohyuddin A, Q Ayub, S Siddiqi, DR Carvalho-Silva, K Mazhar, S Rehman, S Firasat, A Dar, C Tyler-Smith and SQ Mehdi. Genetic instability in EBV-transformed lymphoblastoid cell lines. Biochim Biophys Acta 1670:81-83 (2004). PMID: 14729144.
Zerjal T, Y Xue, G Bertorelle, RS Wells, W Bao, S Zhu, R Qamar, Q Ayub, A Mohyuddin, S Fu, P Li, N Yuldasheva, R Ruzibakiev, J Xu, Q Shu, R Du, H Yang, ME Hurles, E Robinson, T Gerelsaikhan, B Dashnyam, SQ Mehdi and C Tyler-Smith. The genetic legacy of the Mongols. Am J Hum Genet 72:717-721 (2003). PMID: 12592608.
Mohyuddin A, Q Ayub, S Khaliq, A Mansoor, K Mazhar, S Rehman and SQ Mehdi. HLA polymorphism in six ethnic groups from Pakistan. Tissue Antigens 59:492-501 (2002). PMID: 12445319.
Khaliq S, A Hameed, Q Ayub, K Mazhar, A Mohyuddin, A Mansoor and SQ Mehdi. Frequency of CCR5 gene 32-bp deletion in Pakistani ethnic groups. Genet Test 6:123-127 (2002). PMID: 12215252.
Qamar R, Q Ayub, A Mohyuddin, A Helgason, K Mazhar, A Mansoor, T Zerjal, C Tyler-Smith and SQ Mehdi. Y chromosomal DNA variation in Pakistan. Am J Hum Genet 70:1107-1124 (2002). PMID: 11898125.
Quintana-Murci L, C Krausz, T Zerjal, SH Sayar, MF Hammer, SQ Mehdi, Q Ayub, R Qamar, A Mohyuddin, U Radhakrishna, MA Jobling, C Tyler-Smith and K McElreavey Y-chromosome lineages trace diffusion of people and languages in Southwestern Asia. Am J Hum Genet 68:537-542 (2001). PMID: 11133362.
Mohyuddin A, Q Ayub, R Qamar, T Zerjal, A Helgason, SQ Mehdi and C Tyler Smith. Y-chromosomal STR haplotypes in Pakistani populations. Forensic Sci Int 118:141-146 (2001). PMID: 11311827.
Khaliq S, A Hameed, T Khaliq, Q Ayub, R Qamar, A Mohyuddin, K Mazhar and SQ Mehdi. p53 mutations, polymorphisms and haplotypes in Pakistani ethnic groups and breast cancer patients. Genet Test 4:23-29 (2000). PMID: 10794357.
Mohyuddin A, Q Ayub, R Qamar, S Khaliq, A Mansoor and SQ Mehdi. HLA polymorphisms in ethnic groups from Pakistan. Transplant Proc 31:3350-3351 (1999). PMID: 10616502.
Qamar R, Q Ayub, S Khaliq, A Mansoor, T Karafet, SQ Mehdi and MF Hammer. African and Levantine origins of Pakistani YAP+ Y chromosomes. Hum Biol 71:745-755 (1999). PMID: 10510568.
Pourshafie M, Q Ayub and WW Barrow. Comparative effects of Mycobacterium avium glycopeptidolipid and lipopeptide fragment on the function and ultrastructure of mononuclear cells. Clin Exp Immunol 93:72-79 (1993). PMID: 8324905.
- Wellcome Trust Core Grants to Wellcome Trust Sanger Institute
- Heerman Kumar
- Kasturi Rajandran
Member of Professional Bodies
- The American Society for Human Genetics (ASHG), Member and Contest Judge for ASHG 9th, 10th, 2016 and 2017 DNA Day Essay
- The Human Variome Project, International Scientific Advisory Committee Member
- Global Alliance for Genomics and Health (GA4GH), Member
- Pakistan Medical and Dental Council
- Panel referee for the Organization of Islamic Countries (OIC) Standing Committee on Scientific and Technological Cooperation (COMSTECH) Best Young Researcher Awar.
- Phi Kappa Phi Honor Society
- University of North Texas Alumni Association
Academic/Corporate Community Engagements
2009 – 2017: Contributing writer to the Wellcome Trust Sanger Institute, Hinxton, UK blog.
2009 – 2017: Tour Leader Wellcome Trust Sanger Institute and volunteer at the Wellcome Trust Sanger Institute presentation during the Cambridge Science Festivals (2009, 2012, 2013, 2016 and 2017).
2009: Contributed to an episode of the television series on The History Channel “Ancients Behaving Badly: Genghis Khan”, Blink Films.
- Interacted with artist Katie Paterson during her residency at the Wellcome Trust Sanger Institute as part of ART IN GLOBAL HEALTH, a Wellcome Collection project, that led to the creation of the award winning “Fossil Necklace” (https://www.youtube.com/watch?v=FuFWroMHUd8).
- Presenter at the Wellcome Trust Sanger Institute stall “Beyond the Genome” at the Royal Society Summer Science Exhibition 2013, London. (http://sse.royalsociety.org/2013/exhibits/beyond-the-genome/).
- Tamgha-i-Imtiaz (Medal of Excellence), President of Pakistan