Lakshmi Kumar Matukumalli
Research Assistant Professor
Bovine Functional Genomics

Bioinformatics and Computational Biology
Occoquan Building
10900 University Blvd,
Manassas VA 20110
Telephone: 301-504-5979
Fax: 301-504-8414
Email:

Education

Ph.D Bioinformatics (2004)
George Mason University, VA, US

M.Tech Biochemical Engg & Biotechnology (1993)
Indian Institute of Technology, Delhi, INDIA

M.S Biotechnology (1991)
Banaras Hindu University, Varanasi, INDIA

B.S Mathematics Physics and Chemistry (1989)
Osmania University, Hyderabad, INDIA

Research Interests

• Annotation of the Bovine (Cow) genome
• Algorithms for SNP Discovery from EST and genome sequence data:
• Bovine Gene Atlas
• MicroRNA in Cattle
• Prediction of genetic merit from Cattle genotype data
• Copy Number Variation in Cattle

1. Curtis P Van Tassell, Timothy P L Smith, Lakshmi K Matukumalli, Jeremy F Taylor, Robert D Schnabel, Cinthia Taylor Lawley, Christian D Haudenschild, Stephen S Moore, Wesley C Warren and Tad S Sonstegard SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries Nature Methods (Adv pub) 2008
2. David L. Hyten · Qijian Song · Ik-Young Choi · Mun-Sup Yoon · James E. Specht · Lakshmi K. Matukumalli · Randall L. Nelson · Randy C. Shoemaker ·
   Nevin D. Young · Perry B. Cregan High-throughput genotyping with the GoldenGate assay in the complex genome of soybean. Theor Appl Genet (Adv. Pub) 2008
3. Choi,I.Y., Hyten,D.L., Matukumalli,L.K., Song,Q., Chaky,J.M., Quigley,C.V., Chase,K., Lark,K.G., Reiter,R.S., Yoon,M.S., Hwang,E.Y., Yi,S.I., Young,N.D., Shoemaker,R.C., van Tassell,C.P., Specht,J.E., & Cregan,P.B. A Soybean Transcript Map: Gene Distribution, Haplotype and SNP Analysis. Genetics (2007).
4. McKay,S.D., Schnabel,R.D., Murdoch,B.M., Aerts,J., Gill,C.A., Gao,C., Li,C., Matukumalli,L.K., Stothard,P., Wang,Z., van Tassell,C.P., Williams,J.L., Taylor,J.F., & Moore,S.S. Construction of bovine whole-genome radiation hybrid and linkage maps using high-throughput genotyping. Anim Genet38, 120-125 (2007).
5. Coutinho,L.L., Matukumalli,L.K., Sonstegard,T.S., van Tassell,C.P., Gasbarre,L.C., Capuco,A.V., & Smith,T.P. Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues. Physiol Genomics29, 35-43 (2007).
6. Sonstegard,T.S, G.Liu, Matukumalli,L.K., and Van Tassell,C.P. (2007) SNPs to Chips: Changing the paradigm of mapping and selection in cattle. Journal of Animal Genetics, 35, 205-217.
7. Snelling, W. M.; Chiu, R.; Schein, J. E.; Hobbs, M.; Abbey, C. A.; Adelson, D. L.; Aerts, J.; Bennett, G. L.; Bosdet, I. E.; Boussaha, M.; Brauning, R.; Caetano, A. R.; Costa, M. M.; Crawford, A. M.; Dalrymple, B. P.; Eggen, A.; Everts-van der Wind, A.; Floriot, S.; Gautier, M.; Gill, C. A.; Green, R. D.; Holt, R.; Jann, O.; Jones, S. J.; Kappes, S. M.; Keele, J. W.; de Jong, P. J.; Larkin, D. M.; Lewin, H. A.; McEwan, J. C.; McKay, S.; Marra, M. A.; Mathewson, C. A.; Matukumalli, L. K.; Moore, S. S.; Murdoch, B.; Nicholas, F. W.; Osoegawa, K.; Roy, A.; Salih, H.; Schibler, L.; Schnabel, R. D.; Silveri, L.; Skow, L. C.; Smith, T. P.; Sonstegard, T. S.; Taylor, J. F.; Tellam, R.; Van Tassell, C. P.; Williams, J. L.; Womack, J. E.; Wye, N. H.; Yang, G.; Zhao, S. A physical map of the bovine genome Genome Biol. 2007, 8, R165
   
8. Matukumalli,L.K., Grefenstette,J.J., Hyten,D.L., Choi,I.Y., Cregan,P.B., & van Tassell,C.P. SNP-PHAGE--High throughput SNP discovery pipeline. BMC Bioinformatics.7, 468 (2006).
9. Liu,G.E., Matukumalli,L.K., Sonstegard,T.S., Shade,L.L., & van Tassell,C.P. Genomic divergences among cattle, dog and human estimated from large-scale alignments of genomic sequences. BMC Genomics7, 140 (2006).
10. Matukumalli,L.K., Grefenstette,J.J., Hyten,D.L., Choi,I.Y., Cregan,P.B., & van Tassell,C.P. Application of machine learning in SNP discovery. BMC Bioinformatics.7, 4 (2006).
11. Baumann,R.G., Baldwin,R.L., van Tassell,C.P., Sonstegard,T.S., & Matukumalli,L.K. Characterization of a normalized cDNA library from bovine intestinal muscle and epithelial tissues. Anim Biotechnol.16, 17-29 (2005).
12. Min,W., Lillehoj,H.S., Ashwell,C.M., van Tassell,C.P., Dalloul,R.A., Matukumalli,L.K., Han,J.Y., & Lillehoj,E.P. Expressed sequence tag analysis of Eimeria-stimulated intestinal intraepithelial lymphocytes in chickens. Mol. Biotechnol.30, 143-150 (2005).
13. da Mota,A.F., Sonstegard,T.S., van Tassell,C.P., Shade,L.L., Matukumalli,L.K., Wood,D.L., Capuco,A.V., Brito,M.A., Connor,E.E., Martinez,M.L., & Coutinho,L.L. Characterization of open reading frame-expressed sequence tags generated from Bos indicus and B. taurus mammary gland cDNA libraries. Anim Genet35, 213-219 (2004).
14. Matukumalli,L.K., Grefenstette,J.J., Sonstegard,T.S., & van Tassell,C.P. EST-PAGE--managing and analyzing EST data. Bioinformatics.20, 286-288 (2004).
15. Zhu,Y.L., Song,Q.J., Hyten,D.L., van Tassell,C.P., Matukumalli,L.K., Grimm,D.R., Hyatt,S.M., Fickus,E.W., Young,N.D., & Cregan,P.B. Single-nucleotide polymorphisms in soybean. Genetics163, 1123-1134 (2003)