1. Lamichhane G, Zignol M, Blades NJ, Geiman DE, Dougherty A, Grosset J, Broman KW, Bishai WR. A postgenomic method for predicting essential genes at subsaturation levels of mutagenesis: application to M. tuberculosis. 2003, Proc Natl Acad Sci USA. 100:7213-8. PMID: 12775759.  
2. Yoder M, Lamichhane G, Bishai WR. Cavitary Pulmonary Tuberculosis: The Holey Grail of Disease Transmission. Current Science, Vol. 86, 2004, 101-108.
3. Karakousis P., Yoshimatsu T., Lamichhane G., Woolwine S. C., Nuermberger E. L., Grosset J., and Bishai, W. R. 2004. Dormancy phenotype displayed by extracellular M. tuberculosis within artificial granulomas in mice. 2004 Journal of Experimental Medicine. 200, 1-12. PMID: 15353557.  
4. Lamichhane G., Tyagi S., and Bishai W. R.. 2005. Designer arrays for defined mutant analysis to detect genes essential for survival of Mycobacterium tuberculosis in mouse lungs. Infect Immun.  Vol 73, 2533-40. PMID:15784600.  
5. Jain S. K., Paul-Satyaseela M., Lamichhane G., Kim K. S., & Bishai W. R. 2006. Mtb invasion and traversal across an in vitro human blood brain barrier as a pathogenic mechanism for CNS TB. J Infect Dis. 193, 1287-95. PMID:16586367.  
6. Lamichhane G., Tirumalai R., Morrison N. E., Woolwine S. C., Tyagi S., Kandavelou K., and Bishai W. R., 2006. Inactivation of mpa leads to growth attenuation and provides protection against virulent M. tuberculosis. J Infect Dis. 194, 1233-1240. PMID:17041849.  
7. Lamichhane G., and Bishai W. R. Defining the Survivasome of Mycobacterium tuberculosis. 2007. Nature Medicine. Vol 13. No. 3. 280-282. PMID: 17342137.  
8. Jain S. K., S. Moises Hernandez-Abanto, Qi-Jian Cheng, Prabhpreet Singh, Lan H. Ly, Lee G. Klinkenberg, Norman E. Morrison, Paul J. Converse, Eric Nuermberger, Jacques Grosset, David N. McMurray, Petros Karakousis, Lamichhane G, and W R. Bishai. 'Accelerated detection of M tuberculosis genes essential for bacterial survival in guinea pigs compared with mice. 2007. J Infect Dis. 195, 1634-42. PMID: 17471433  
9. Jain S. K., Lamichhane G., Nimmagadda S., Pomper M. G., and Bishai W. R. Antibiotic Treatment of Tuberculosis: Old Problems, New Solutions. 2008. Microbe.Vol 3, 285-292.  
10. Be NA, Lamichhane G, Grosset J, Tyagi S, Cheng QJ, Kim KS, Bishai WR, Jain SK. Murine model to study the invasion and survival of M. tuberculosis in the central nervous system. 2008 J Infect Dis. 198:1520-8. PMID: 18956986.  
11. Alahari A, Alibaud L, Trivelli X, Gupta R, Lamichhane G, Reynolds RC, Bishai WR, Guerardel Y, Kremer L. Mycolic acid methyltransferase, MmaA4, is necessary for thiacetazone susceptibility in Mycobacterium tuberculosis. 2009. Mol Microbiol. 71(5):1263-77. PMID:19183278  
12. Converse PJ, Karakousis PC, Klinkenberg LG, Kesavan AK, Ly LH, Allen SS, Grosset JH, Jain SK, Lamichhane G, Manabe YC, McMurray DN, Nuermberger EL, Bishai WR. Role of the dosR-dosS two-component regulatory system in M. tuberculosis virulence in animal models. 2009 Infect Immun. 77(3):1230-7. PMID:19103767  
13. Agarwal N, Lamichhane G, Gupta R, Nolan S, Bishai W. R. cAMP intoxication of macrophages by a  M. tuberculosis adenylate cyclase. 2009. Nature. 460, 98-102. PMID:19516256  
14. Davis SL, Be NA, Lamichhane G, Nimmagadda S, Pomper MG, Bishai WR, Jain SK. Bacterial thymidine kinase as a non-invasive imaging reporter for M. tuberculosis in live animals. 2009. PLoS One, e6297. PMID:19606217  
15. Dutta NK, Mehra S, Didier PJ, Roy CJ, Doyle LA, Alvarez X, Ratterree M, Be NA, Lamichhane G, Jain SK, Lacey MR, Lackner AA, Kaushal D.  M. tb genes required for growth in primates. 2010. J Infect. Dis. PMID: 20394526  
16. Olaleye O, Raghunand TR, Bhat S, He J, Tyagi S, Lamichhane G, Gu P, Zhou J, Zhang Y, Grosset J, Bishai WR, Liu JO. Methionine Aminopeptidases from Mtb as novel antimycobacterial target. 2010. Chem Biol. 17, 86. PMID: 20142044  
17. Gupta R, Lavollay M, Mainardi J, Arthur M, Bishai WR, Lamichhane G. The Mycobacterium tuberculosis gene, ldtMt2, encodes a non-classical transpeptidase required for virulence and resistance to amoxicillin. 2010. Nature Medicine. 16, 466-9. PMID:20305661
18. Converse PJ, Eisenach KD, Theus SA, Nuermberger EL, Tyagi S, Ly LH, Geiman DE, Guo H, Nolan ST, Akar NC, Klinkenberg LG, Gupta R, Lun S, Karakousis PC, Lamichhane G, McMurray DN, Grosset JH, Bishai WR. The impact of mouse passaging of Mtb strains prior to virulence testing in mouse and guinea pig aerosol models. 2010. PLoS One, 5, e10289. PMID: 20422019  
19. Nolan ST, Lamichhane G. Protective efficacy of BCG overexpressing an LD-transpeptidase against M. tuberculosis infection. 2010. PLoS One. 5(10): e13773. PMID: 21048936.  
20. Lamichhane G. Novel targets in M. tuberculosis: search for new drugs. 2010. Trends in Molecular Medicine. PMID: 21071272  
21. Wolschendorf F, Ackart D, Shrestha TB, Hascall-Dove L, Nolan S, Lamichhane G, Wang Y, Bossmann SH, Basaraba RJ, Niederweis M. Copper resistance is essential for virulence of M. tuberculosis. PNAS. 2011. 108(4):1621-6. PMID: 21205886  
22. Lamichhane G, Freundlich JS, Ekins S, Wickramaratne N, Nolan ST, Bishai WR. Essential Metabolites of M. tuberculosis and their Mimics. mBio. 2011. 2(1):e00301-10.  PMID: 21285434.  
23. Lamichhane G. Mycobacterium tuberculosis response to stress from reactive oxygen and nitrogen species. Frontiers in Microbiology. 2011, 2:176. PMID: 21904537  
24. Pelly S, Bishai WR, Lamichhane G. A screen for non-coding RNA in Mycobacterium tuberculosis reveals a cAMP-responsive RNA that is expressed during infection. 2012. Gene. 25;500(1):85-92. PMID 22446041.  
25. Sarker M, Talcott C, Madrid P, Chopra S, Bunin BA, Lamichhane G, Freundlich JS, Ekins S. Combining Cheminformatics Methods and Pathway Analysis To Identify Molecules With Whole-Cell Activity Against Mycobacterium tuberculosis. 2012. PharmRes, 29(8):2115-27 PMID 22477069.
Erdmeli SB, Gupta R, Bishai WR, Lamichhane G, Amzel LM, Bianchet MA. Targeting the Cell Wall of Mycobacterium tuberculosis: Structure and Mechanism of LD-transpeptidase 2. 2012. Structure. 20(12), 2013-15. PMID 23103390.
27. Lamichhane G, Arnvig KB, McDonough KA. Definition and Annotation of (Myco)bacterial Non-coding RNA. 2013. Tuberculosis. S1472. PMID 23291152
28. Schoonmaker MK, Bishai WR, Lamichhane G. Nonclassical Transpeptidases of Mycobacterium tuberculosis Alter Cell Size, Morphology, the Cytosolic Matrix, Protein Localization, Virulence and Resistance to b-lactams. 2014. J Bacteriology. 196(7), 1394-402.  PMID 24464457
29. Dutta NK, Bandyopadhyay N, Veeramani B, Lamichhane G, Karakousis PC, Bader JS. Systems Biology-Based Identification of Mycobacterium tuberculosis Persistence Genes in Mouse Lungs. 2014. mBio. 5(1), e01066-13. PMID 24549847.