Bioinformatics classification and functional analysis of PhoH homologs. Kazakov AE, Vassieva O, Gelfand MS, Osterman A, Overbeek R. In Silico Biol. 2002 Dec 30;3(1).

The genome of Brucella melitensis. DelVecchio VG, Kapatral V, Elzer P, Patra G, Mujer CV. Vet Microbiol. 2002 Dec 20; 90(1-4): 587-92.

Genes for the cytoskeletal protein tubulin in the bacterial genus Prosthecobacter. Jenkins C, Samudrala R, Anderson I, Hedlund BP, Petroni G, Michailova N, Pinel N, Overbeek R, Rosati G, Staley JT. Proc Natl Acad Sci USA. 2002 Dec 24; 99(26): 17049-54.

Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms. Rodionov DA, Vitreschak AG, Mironov AA, Gelfand MS. J Biol Chem. 2002 Dec 13; 27(50): 48949-59.

Ribosylnicotinamide Kinase Domain of NadR Protein: Identification and Implications in NAD Biosynthesis. Kurnasov OV, Polanuyer BM, Ananta S, Sloutsky R, Tam A, Gerdes SY, Osterman AL. J Bacteriol. 2002 Dec; 184(24): 6906-17.

Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria. Mironov AS, Gusarov I, Rafikov R, Lopez LE, Shatalin K, Kreneva RA, Perumov DA, Nudler E. Cell. 2002 Nov 27; 111(5): 747-56.

Whole-genome analysis of photosynthetic prokaryotes. Raymond J, Zhaxybayeva O, Gogarten JP, Gerdes SY, Blankenship RE. Science. 2002 Nov 22; 298(5598): 1616-20.

Draft Sequencing and Comparative Genomics of Xylella fastidiosa Strains Reveal Novel Biological Insights. Bhattacharyya A, Stilwagen S, Reznik G, Feil H, Feil WS, Anderson I, Bernal A, D'Souza M, Ivanova N, Kapatral V, Larsen N, Los T, Lykidis A, Selkov E Jr, Walunas TL, Purcell A, Edwards RA, Hawkins T, Haselkorn R, Overbeek R, Kyrpides NC, Predki PF. Genome Res. 2002 Oct; 12(10): 1556-63.

Conservation of the Biotin Regulon and the BirA Regulatory Signal in Eubacteria and Archaea. Rodionov DA, Mironov AA, Gelfand MS. Genome Res. 2002 Oct; 12(10): 1507-16.

Crystal structure of Haemophilus influenzae NadR protein. A bifunctional enzyme endowed with NMN adenylyltransferase and ribosylnicotinamide kinase activities. Singh SK, Kurnasov OV, Chen B, Robinson H, Grishin NV, Osterman AL, Zhang H. J Biol Chem. 2002 Sep 6; 277(36): 33291-9.

Whole-genome comparative analysis of three phytopathogenic Xylella fastidiosa strains. Bhattacharyya A, Stilwagen S, Ivanova N, D'Souza M, Bernal A, Lykidis A, Kapatral V, Anderson I, Larsen N, Los T, Reznik G, Selkov E Jr, Walunas TL, Feil H, Feil WS, Purcell A, Lassez JL, Hawkins TL, Haselkorn R, Overbeek R, Predki PF, Kyrpides NC. Proc Natl Acad Sci USA. 2002 Sep; 99(19): 12403-8.

Discovering lactic acid bacteria by genomics. Klaenhammer T, Altermann E, Arigoni F, Bolotin A, Breidt F, Broadbent J, Cano R, Chaillou S, Deutscher J, Gasson M, van de Guchte M, Guzzo J, Hartke A, Hawkins T, Hols P, Hutkins R, Kleerebezem M, Kok J, Kuipers O, Lubbers M, Maguin E, McKay L, Mills D, Nauta A, Overbeek R, Pel H, Pridmore D, Saier M, van Sinderen D, Sorokin A, Steele J, O'Sullivan D, de Vos W, Weimer B, Zagorec M, Siezen R. Antonie Van Leeuwenhoek. 2002 Aug; 82(1-4): 29-58.

Microarray Analysis of Gene Expression during Bacteriophage T4 Infection. Luke K, Radek A, Liu X, Campbell J, Uzan M, Haselkorn R, Kogan Y. Virology. 2002 Aug 1; 299(2): 182.

From genetic footprinting to antimicrobial drug targets: examples in cofactor biosynthetic pathways. Gerdes SY, Scholle MD, D'Souza M, Bernal A, Baev MV, Farrell M, Kurnasov OV, Daugherty MD, Mseeh F, Polanuyer BM, Campbell JW, Anantha S, Shatalin KY, Chowdhury SA, Fonstein MY, Osterman AL. J Bacteriol. 2002 Aug; 184(16): 4555-72.

Using orthologous and paralogous proteins to identify specificity-determining residues in bacterial transcription factors. Mirny LA, Gelfand MS. J Mol Biol. 2002 Aug 2;321(1):7-20.

Regulation of riboflavin biosynthesis and transport genes in bacteria by transcriptional and translational attenuation. Vitreschak AG, Rodionov DA, Mironov AA, Gelfand MS. Nucleic Acids Res. 2002 Jul 15; 30(14): 3141-51.

Damage-repair error-prone polymerases of eubacteria: association with mobile genome elements. Permina EA, Mironov AA, Gelfand MS. Gene. 2002 Jun 26;293(1-2):133-40.

Exact mapping of prokaryotic gene starts. Baytaluk MV, Gelfand MS, Mironov AA. Brief Bioinform. 2002 Jun; 3(2): 181-94

Complete Reconstitution of the Human Coenzyme A Biosynthetic Pathway via Comparative Genomics. Daugherty M, Polanuyer B, Farrell M, Scholle M, Lykidis A, De Crecy-Lagard V, Osterman A. J Biol Chem. 2002 Jun 14; 277(24): 21431-9.

The Genome of Methanosarcina mazei: Evidence for Lateral Gene Transfer Between Bacteria and Archaea. Uwe Deppenmeier, Andre Johann, Thomas Hartsch, Rainer Merkl, Ruth A. Schmitz, Rosa Martinez-Arias, Anke Henne, Arnim Wiezer, Sebastian Bäumer, Carsten Jacobi, Holger Brüggemann, Tanja Lienard, Andreas Christmann, Mechthild Bömeke, Silke Steckel, Anamitra Bhattacharyya, Athanasios Lykidis, Ross Overbeek, Hans-Peter Klenk, Robert P. Gunsalus, Hans-Joachim Fritz, Gerhard Gottschalk. J Mol Micro Biotechnol. 2002; May 4: 453-461.

Structure of human NMN/NaMN adenylyltransferase. Basis for the dual substrate specificity and activation of the oncolytic agent tiazofurin. Zhou T, Kurnasov O, Tomchick DR, Derk BD, Grishin NV, Marquez VE, Osterman AL, Zhang H. J Biol Chem. 2002 Apr 12; 277(15): 13148-54.

Genome Sequence and Analysis of the Oral Bacterium Fusobacterium nucleatum Strain ATCC 25586. Kapatral V, Anderson I, Ivanova N, Reznik G, Los T, Lykidis A, Bhattacharyya A, Bartman A, Gardner W, Grechkin G, Zhu L, Vasieva O, Chu L, Kogan Y, Chaga O, Goltsman E, Bernal A, Larsen N, D'Souza M, Walunas T, Pusch G, Haselkorn R, Fonstein M, Kyrpides N, Overbeek R. J Bacteriol. 2002 Apr; 184(7): 2005-18.

Structural analysis of conserved base pairs in protein-DNA complexes. Mirny LA, Gelfand MS. Nucleic Acids Res. 2002 Apr 1;30(7):1704-11.

SELEX_DB: a database on in vitro selected oligomers adapted for recognizing natural sites and for analyzing both SNPs and site-directed mutagenesis data. Ponomarenko JV, Orlova GV, Frolov AS, Gelfand MS, Ponomarenko MP. Nucleic Acids Res. 2002 Jan 1; 30(1): 195-9.

Crystal Structures of E. coli Nicotinate Mononucleotide Adenylyltransferase and Its Complex with Deamido-NAD. Zhang H, Zhou T, Kurnasov O, Cheek S, Grishin NV, Osterman A. Structure (Camb). 2002 Jan; 10(1): 69-79.

The genome sequence of the facultative intracellular pathogen Brucella melitensis. Vito G. DelVecchio, Vinayak Kapatral, Rajendra J. Redkar, Guy Patra, Cesar Mujer, Tamara Los, Natalia Ivanova, Iain Anderson, Anamitra Bhattacharyya, Athanasios Lykidis, Gary Reznik, Lynn Jablonski, Niels Larsen, Mark D'Souza, Axel Bernal, Mikhail Mazur, Eugene Goltsman, Eugene Selkov, Philip H. Elzer, Sue Hagius, David O'Callaghan, Jean-Jacques Letesson, Robert Haselkorn, Nikos Kyrpides, and Ross Overbeek. Proc Natl Acad Sci USA. 2002 Jan 8; Vol. 99, Issue 1, 443-8.

Finding weak motifs in DNA sequences. Sze SH, Gelfand MS, Pevzner PA. Pac Symp Biocomput. 2002; 235-46.