Username

Password

Forgot Password?

Preview

Sign-in free and Explore the Exciting World of BiomedExperts:

Over 1.500.000 Profiles
More than 1.800 Organizations worldwide
State of the Art Network Visualizations

Manage your own Profile
Locate Experts in your Country/Region
Locate Experts in your 1. and 2. Level Network
Connect to Experts Worldwide

NetworkView

L Aravind

This is a preview profile on BiomedExperts - the first literature-based scientific social network. It brings the right researchers together and allows them to collaborate online. Collexis and Dell provide the BiomedExperts network of +1.5 Million pre-calculated profiles free of charge to researchers worldwide.

Research Profile (preview)

Genes & Molecular Sequences

Phenomena

Molecular Evolution

Concepts & Ideas

Procedures

Sequence Alignment

Anatomy

Eukaryotic Cells

Chemicals & Drugs

Occupations

Computational Biology

Living Beings

Physiology

Sign-in to see full Profile

Network (preview)

Co-Publications
Name
82
Koonin, Eugene
50
Iyer, Lakshminarayan
30
Anantharaman, Vivek
13
Balaji, Santhanam
13
Wolf, Yuri
12
Babu, Madan
11
Makarova, Kira
9
Burroughs, Maxwell
9
Leipe, Detlef
5
Galperin, Michael
4
Grishin, Nick
4
Kumar, Sanjai
4
Tatusov, Roman
4
Zheng, Hong
3
Saraswathi, Abhiman

Sign-in to see all Coauthors

Publications

TOP 3
Aravind L; Anantharaman Vivek; Venancio Thiago M
Apprehending multicellularity: regulatory networks, genomics, and evolution.
Iyer Lakshminarayan M; Tahiliani Mamta; Rao Anjana; Aravind L
Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids.
Burroughs A Maxwell; Iyer Lakshminarayan M; Aravind L
Natural history of the E1-like superfamily: implication for adenylation, sulfur transfer, and ubiquitin conjugation.

Sign-in to see all Publications

Sign in free and see...

Visualized networks:

See your personal network in
sophisticated graphical views

GeoTargeted Searches:

Locate experts around the world
and connect with global collaborators

Research Profiles:

See the visualized research activity
of experts around the globe

Sign-in to see more

Geonetwork of L Aravind (preview)

Cities where this author has publications
Cities where co-authors of this author have publications

Flash Player Required

Sign-in to see more

All Publications

2009: Aravind L; Anantharaman Vivek; Venancio Thiago M
Apprehending multicellularity: regulatory networks, genomics, and evolution.
Birth defects research. Part C, Embryo today : reviews 2009;87(2):143-64.
2009: Iyer Lakshminarayan M; Tahiliani Mamta; Rao Anjana; Aravind L
Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids.
Cell cycle (Georgetown, Tex.) 2009;8(11):1698-710.
2009: Burroughs A Maxwell; Iyer Lakshminarayan M; Aravind L
Natural history of the E1-like superfamily: implication for adenylation, sulfur transfer, and ubiquitin conjugation.
Proteins 2009;75(4):895-910.
2009: Oakley Miranda S; Majam Victoria; Mahajan Babita; Gerald Noel; Anantharaman Vivek; Ward Jerrold M; Faucette Lawrence J; McCutchan Thomas F; Zheng Hong; Terabe Masaki; Berzofsky Jay A; Aravind L; Kumar Sanjai
Pathogenic roles of CD14, galectin-3, and OX40 during experimental cerebral malaria in mice.
PloS one 2009;4(8):e6793.
2009: De Souza Robson F; Iyer Lakshminarayan M; Aravind L
The Anabaena sensory rhodopsin transducer defines a novel superfamily of prokaryotic small-molecule binding domains.
Biology direct 2009;4():25; discussion 25.
2009: Venancio Thiago M; Balaji S; Iyer Lakshminarayan M; Aravind L
Reconstructing the ubiquitin network: cross-talk with other systems and identification of novel functions.
Genome biology 2009;10(3):R33.
2008: Mahajan Babita; Selvapandiyan Angamuthu; Gerald Noel J; Majam Victoria; Zheng Hong; Wickramarachchi Thilan; Tiwari Jawahar; Fujioka Hisashi; Moch J Kathleen; Kumar Nirbhay; Aravind L; Nakhasi Hira L; Kumar Sanjai
Centrins, cell cycle regulation proteins in human malaria parasite Plasmodium falciparum.
The Journal of biological chemistry 2008;283(46):31871-83.
2008: Oakley Miranda S; McCutchan Thomas F; Anantharaman Vivek; Ward Jerrold M; Faucette Laurence; Erexson Cindy; Mahajan Babita; Zheng Hong; Majam Victoria; Aravind L; Kumar Sanjai
Host biomarkers and biological pathways that are associated with the expression of experimental cerebral malaria in mice.
Infection and immunity 2008;76(10):4518-29.
2008: Balaji S; Iyer Lakshminarayan M; Babu M Madan; Aravind L
Comparison of transcription regulatory interactions inferred from high-throughput methods: what do they reveal?
Trends in genetics : TIG 2008;24(7):319-23.
2008: Anantharaman Vivek; Aravind L
Analysis of DBC1 and its homologs suggests a potential mechanism for regulation of sirtuin domain deacetylases by NAD metabolites.
Cell cycle (Georgetown, Tex.) 2008;7(10):1467-72.
2008: Burroughs A Maxwell; Jaffee Marcie; Iyer Lakshminarayan M; Aravind L
Anatomy of the E2 ligase fold: implications for enzymology and evolution of ubiquitin/Ub-like protein conjugation.
Journal of structural biology 2008;162(2):205-18.
2008: Abhiman Saraswathi; Iyer Lakshminarayan M; Aravind L
BEN: a novel domain in chromatin factors and DNA viral proteins.
Bioinformatics (Oxford, England) 2008;24(4):458-61.
2008: Peisach Ezra; Wang Liangbing; Burroughs A Maxwell; Aravind L; Dunaway-Mariano Debra; Allen Karen N
The X-ray crystallographic structure and activity analysis of a Pseudomonas-specific subfamily of the HAD enzyme superfamily evidences a novel biochemical function.
Proteins 2008;70(1):197-207.
2008: Iyer Lakshminarayan M; Burroughs A M; Aravind L
Unraveling the biochemistry and provenance of pupylation: a prokaryotic analog of ubiquitination.
Biology direct 2008;3():45.
2008: Iyer Lakshminarayan M; Abhiman Saraswathi; Aravind L
A new family of polymerases related to superfamily A DNA polymerases and T7-like DNA-dependent RNA polymerases.
Biology direct 2008;3():39.
2008: Przytycka Teresa M; Jothi Raja; Aravind L; Lipman David J
Differences in evolutionary pressure acting within highly conserved ortholog groups.
BMC evolutionary biology 2008;8():208.
2008: Iyer Lakshminarayan M; Abhiman Saraswathi; Aravind L
MutL homologs in restriction-modification systems and the origin of eukaryotic MORC ATPases.
Biology direct 2008;3():8.
2007: Iyer Lakshminarayan M; Anantharaman Vivek; Aravind L
The DOMON domains are involved in heme and sugar recognition.
Bioinformatics (Oxford, England) 2007;23(20):2660-4.
2007: Aravind L; Iyer Lakshminarayan M; Wu Carl
Domain architectures of the Scm3p protein provide insights into centromere function and evolution.
Cell cycle (Georgetown, Tex.) 2007;6(20):2511-5.
2007: Balaji S; Babu M Madan; Aravind L
Interplay between network structures, regulatory modes and sensing mechanisms of transcription factors in the transcriptional regulatory network of E. coli.
Journal of molecular biology 2007;372(4):1108-22.
2007: Balaji S; Aravind L
The two faces of short-range evolutionary dynamics of regulatory modes in bacterial transcriptional regulatory networks.
BioEssays : news and reviews in molecular, cellular and developmental biology 2007;29(7):625-9.
2007: Oakley Miranda S M; Kumar Sanjai; Anantharaman Vivek; Zheng Hong; Mahajan Babita; Haynes J David; Moch J Kathleen; Fairhurst Rick; McCutchan Thomas F; Aravind L
Molecular factors and biochemical pathways induced by febrile temperature in intraerythrocytic Plasmodium falciparum parasites.
Infection and immunity 2007;75(4):2012-25.
2007: Madan Babu M; Balaji S; Aravind L
General trends in the evolution of prokaryotic transcriptional regulatory networks.
Genome dynamics 2007;3():66-80.
2007: Burroughs A M; Iyer L M; Aravind L
Comparative genomics and evolutionary trajectories of viral ATP dependent DNA-packaging systems.
Genome dynamics 2007;3():48-65.
2007: Aravind L
Opening Pandora's Box: making biological discoveries through computational data exploration.
Biology direct 2007;2():29.
2007: Balaji S; Aravind L
The RAGNYA fold: a novel fold with multiple topological variants found in functionally diverse nucleic acid, nucleotide and peptide-binding proteins.
Nucleic acids research 2007;35(17):5658-71.
2007: Anantharaman Vivek; Iyer Lakshminarayan M; Balaji S; Aravind L
Adhesion molecules and other secreted host-interaction determinants in Apicomplexa: insights from comparative genomics.
International review of cytology 2007;262():1-74.
2007: Burroughs A Maxwell; Balaji S; Iyer Lakshminarayan M; Aravind L
Small but versatile: the extraordinary functional and structural diversity of the beta-grasp fold.
Biology direct 2007;2():18.
2007: Anantharaman Vivek; Iyer Lakshminarayan M; Aravind L
Comparative genomics of protists: new insights into the evolution of eukaryotic signal transduction and gene regulation.
Annual review of microbiology 2007;61():453-75.
2007: Burroughs A Maxwell; Balaji S; Iyer Lakshminarayan M; Aravind L
A novel superfamily containing the beta-grasp fold involved in binding diverse soluble ligands.
Biology direct 2007;2():4.
2006: Babu M Madan; Balaji S; Iyer Lakshminarayan M; Aravind L
Estimating the prevalence and regulatory potential of the telomere looping effect in yeast transcription regulation.
Cell cycle (Georgetown, Tex.) 2006;5(20):2354-63.
2006: Burroughs A Maxwell; Allen Karen N; Dunaway-Mariano Debra; Aravind L
Evolutionary genomics of the HAD superfamily: understanding the structural adaptations and catalytic diversity in a superfamily of phosphoesterases and allied enzymes.
Journal of molecular biology 2006;361(5):1003-34.
2006: Balaji S; Babu M Madan; Iyer Lakshminarayan M; Luscombe Nicholas M; Aravind L
Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast.
Journal of molecular biology 2006;360(1):213-27.
2006: Balaji S; Iyer Lakshminarayan M; Aravind L; Babu M Madan
Uncovering a hidden distributed architecture behind scale-free transcriptional regulatory networks.
Journal of molecular biology 2006;360(1):204-12.
2006: Aravind L; Iyer Lakshminarayan M; Koonin Eugene V
Comparative genomics and structural biology of the molecular innovations of eukaryotes.
Current opinion in structural biology 2006;16(3):409-19.
2006: Iyer Lakshminarayan M; Babu M Madan; Aravind L
The HIRAN domain and recruitment of chromatin remodeling and repair activities to damaged DNA.
Cell cycle (Georgetown, Tex.) 2006;5(7):775-82.
2006: Babu M Madan; Priya M Leena; Selvan A Tamil; Madera Martin; Gough Julian; Aravind L; Sankaran K
A database of bacterial lipoproteins (DOLOP) with functional assignments to predicted lipoproteins.
Journal of bacteriology 2006;188(8):2761-73.
2006: Madan Babu M; Teichmann Sarah A; Aravind L
Evolutionary dynamics of prokaryotic transcriptional regulatory networks.
Journal of molecular biology 2006;358(2):614-33.
2006: Iyer Lakshminarayan M; Balaji S; Koonin Eugene V; Aravind L
Evolutionary genomics of nucleo-cytoplasmic large DNA viruses.
Virus research 2006;117(1):156-84.
2006: Anantharaman Vivek; Aravind L
Diversification of catalytic activities and ligand interactions in the protein fold shared by the sugar isomerases, eIF2B, DeoR transcription factors, acyl-CoA transferases and methenyltetrahydrofolate synthetase.
Journal of molecular biology 2006;356(3):823-42.
2006: Iyer Lakshminarayan M; Burroughs A Maxwell; Aravind L
The ASCH superfamily: novel domains with a fold related to the PUA domain and a potential role in RNA metabolism.
Bioinformatics (Oxford, England) 2006;22(3):257-63.
2006: Anantharaman Vivek; Aravind L
The NYN domains: novel predicted RNAses with a PIN domain-like fold.
RNA biology 2006;3(1):18-27.
2006: Babu M Madan; Aravind L
Adaptive evolution by optimizing expression levels in different environments.
Trends in microbiology 2006;14(1):11-4.
2006: Babu M Madan; Iyer Lakshminarayan M; Balaji S; Aravind L
The natural history of the WRKY-GCM1 zinc fingers and the relationship between transcription factors and transposons.
Nucleic acids research 2006;34(22):6505-20.
2006: Anantharaman Vivek; Balaji S; Aravind L
The signaling helix: a common functional theme in diverse signaling proteins.
Biology direct 2006;1():25.
2006: Iyer Lakshminarayan M; Burroughs A Maxwell; Aravind L
The prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like beta-grasp domains.
Genome biology 2006;7(7):R60.
2005: Seydel Karl B; Gaur Deepak; Aravind L; Subramanian G; Miller Louis H
Plasmodium falciparum: characterization of a late asexual stage golgi protein containing both ankyrin and DHHC domains.
Experimental parasitology 2005;110(4):389-93.
2005: Anantharaman Vivek; Aravind L
MEDS and PocR are novel domains with a predicted role in sensing simple hydrocarbon derivatives in prokaryotic signal transduction systems.
Bioinformatics (Oxford, England) 2005;21(12):2805-11.
2005: Aravind L; Anantharaman Vivek; Balaji Santhanam; Babu M Mohan; Iyer Lakshminarayan M
The many faces of the helix-turn-helix domain: transcription regulation and beyond.
FEMS microbiology reviews 2005;29(2):231-62.
2005: Balaji S; Babu M Madan; Iyer Lakshminarayan M; Aravind L
Discovery of the principal specific transcription factors of Apicomplexa and their implication for the evolution of the AP2-integrase DNA binding domains.
Nucleic acids research 2005;33(13):3994-4006.
2005: Iyer Lakshminarayan M; Koonin Eugene V; Leipe Detlef D; Aravind L
Origin and evolution of the archaeo-eukaryotic primase superfamily and related palm-domain proteins: structural insights and new members.
Nucleic acids research 2005;33(12):3875-96.
2004: Mans Ben J; Anantharaman Vivek; Aravind L; Koonin Eugene V
Comparative genomics, evolution and origins of the nuclear envelope and nuclear pore complex.
Cell cycle (Georgetown, Tex.) 2004;3(12):1612-37.
2004: Iyer Lakshminarayan M; Koonin Eugene V; Aravind L
Novel predicted peptidases with a potential role in the ubiquitin signaling pathway.
Cell cycle (Georgetown, Tex.) 2004;3(11):1440-50.
2004: Leipe Detlef D; Koonin Eugene V; Aravind L
STAND, a class of P-loop NTPases including animal and plant regulators of programmed cell death: multiple, complex domain architectures, unusual phyletic patterns, and evolution by horizontal gene transfer.
Journal of molecular biology 2004;343(1):1-28.
2004: Anantharaman V; Aravind L
The SHS2 module is a common structural theme in functionally diverse protein groups, like Rpb7p, FtsA, GyrI, and MTH1598/TM1083 superfamilies.
Proteins 2004;56(4):795-807.
2004: Anantharaman Vivek; Aravind L
Novel conserved domains in proteins with predicted roles in eukaryotic cell-cycle regulation, decapping and RNA stability.
BMC genomics 2004;5(1):45.
2004: Iyer Lakshminarayan M; Aravind L; Coon Steven L; Klein David C; Koonin Eugene V
Evolution of cell-cell signaling in animals: did late horizontal gene transfer from bacteria have a role?
Trends in genetics : TIG 2004;20(7):292-9.
2004: Iyer Lakshminarayan M; Koonin Eugene V; Aravind L
Evolution of bacterial RNA polymerase: implications for large-scale bacterial phylogeny, domain accretion, and horizontal gene transfer.
Gene 2004;335():73-88.
2004: Babu M Madan; Luscombe Nicholas M; Aravind L; Gerstein Mark; Teichmann Sarah A
Structure and evolution of transcriptional regulatory networks.
Current opinion in structural biology 2004;14(3):283-91.
2004: Iyer Lakshminarayan M; Aravind L
The emergence of catalytic and structural diversity within the beta-clip fold.
Proteins 2004;55(4):977-91.
2004: Iyer Lakshminarayan M; Leipe Detlef D; Koonin Eugene V; Aravind L
Evolutionary history and higher order classification of AAA+ ATPases.
Journal of structural biology 2004;146(1-2):11-31.
2004: Iyer Lakshminarayan M; Makarova Kira S; Koonin Eugene V; Aravind L
Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: implications for the origins of chromosome segregation, cell division and viral capsid packaging.
Nucleic acids research 2004;32(17):5260-79.
2004: Aravind L; Iyer Lakshminarayan M; Leipe Detlef D; Koonin Eugene V
A novel family of P-loop NTPases with an unusual phyletic distribution and transmembrane segments inserted within the NTPase domain.
Genome biology 2004;5(5):R30.
2003: Leipe Detlef D; Koonin Eugene V; Aravind L
Evolution and classification of P-loop kinases and related proteins.
Journal of molecular biology 2003;333(4):781-815.
2003: Anantharaman Vivek; Aravind L
Application of comparative genomics in the identification and analysis of novel families of membrane-associated receptors in bacteria.
BMC genomics 2003;4(1):34.
2003: Mu Jianbing; Ferdig Michael T; Feng Xiaorong; Joy Deirdre A; Duan Junhui; Furuya Tetsuya; Subramanian G; Aravind L; Cooper Roland A; Wootton John C; Xiong Momiao; Su Xin-zhuan
Multiple transporters associated with malaria parasite responses to chloroquine and quinine.
Molecular microbiology 2003;49(4):977-89.
2003: Aravind L; Iyer Lakshminarayan M
Provenance of SET-domain histone methyltransferases through duplication of a simple structural unit.
Cell cycle (Georgetown, Tex.) 2003;2(4):369-76.
2003: Aravind L; Anantharaman Vivek
HutC/FarR-like bacterial transcription factors of the GntR family contain a small molecule-binding domain of the chorismate lyase fold.
FEMS microbiology letters 2003;222(1):17-23.
2003: Aravind L; Iyer L M; Koonin E V
Scores of RINGS but no PHDs in ubiquitin signaling.
Cell cycle (Georgetown, Tex.) 2003;2(2):123-6.
2003: Rogozin Igor B; Aravind L; Koonin Eugene V
Differential action of natural selection on the N and C-terminal domains of 2'-5' oligoadenylate synthetases and the potential nuclease function of the C-terminal domain.
Journal of molecular biology 2003;326(5):1449-61.
2003: Anantharaman Vivek; Aravind L; Koonin Eugene V
Emergence of diverse biochemical activities in evolutionarily conserved structural scaffolds of proteins.
Current opinion in chemical biology 2003;7(1):12-20.
2003: Iyer Lakshminarayan M; Koonin Eugene V; Aravind L
Evolutionary connection between the catalytic subunits of DNA-dependent RNA polymerases and eukaryotic RNA-dependent RNA polymerases and the origin of RNA polymerases.
BMC structural biology 2003;3():1.
2003: Anantharaman Vivek; Aravind L
New connections in the prokaryotic toxin-antitoxin network: relationship with the eukaryotic nonsense-mediated RNA decay system.
Genome biology 2003;4(12):R81.
2003: Aravind L; Iyer Lakshminarayan M; Anantharaman Vivek
The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism.
Genome biology 2003;4(10):R64.
2003: Ponomarev Vladimir A; Makarova Kira S; Aravind L; Koonin Eugene V
Gene duplication with displacement and rearrangement: origin of the bacterial replication protein PriB from the single-stranded DNA-binding protein Ssb.
Journal of molecular microbiology and biotechnology 2003;5(4):225-9.
2003: Anantharaman Vivek; Aravind L
Evolutionary history, structural features and biochemical diversity of the NlpC/P60 superfamily of enzymes.
Genome biology 2003;4(2):R11.
2003: Iyer Lakshminarayan M; Anantharaman Vivek; Aravind L
Ancient conserved domains shared by animal soluble guanylyl cyclases and bacterial signaling proteins.
BMC genomics 2003;4(1):5.
2002: Mazumder Raja; Iyer Lakshminarayan M; Vasudevan Sona; Aravind L
Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily.
Nucleic acids research 2002;30(23):5229-43.
2002: Iyer Lakshminarayan M; Aravind L
The catalytic domains of thiamine triphosphatase and CyaB-like adenylyl cyclase define a novel superfamily of domains that bind organic phosphates.
BMC genomics 2002;3(1):33.
2002: Anantharaman Vivek; Aravind L
The PRC-barrel: a widespread, conserved domain shared by photosynthetic reaction center subunits and proteins of RNA metabolism.
Genome biology 2002;3(11):RESEARCH0061.
2002: Aravind L; Iyer Lakshminarayan M
Intraproteomic networks: new forays into predicting interaction partners.
Genome research 2002;12(8):1156-8.
2002: Makarova Kira S; Aravind L; Koonin Eugene V
SWIM, a novel Zn-chelating domain present in bacteria, archaea and eukaryotes.
Trends in biochemical sciences 2002;27(8):384-6.
2002: Aravind L; Iyer Lakshminarayan M
The SWIRM domain: a conserved module found in chromosomal proteins points to novel chromatin-modifying activities.
Genome biology 2002;3(8):RESEARCH0039.
2002: Lespinet Olivier; Wolf Yuri I; Koonin Eugene V; Aravind L
The role of lineage-specific gene family expansion in the evolution of eukaryotes.
Genome research 2002;12(7):1048-59.
2002: Aravind L; Anantharaman Vivek; Koonin Eugene V
Monophyly of class I aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP-ATPase nucleotide-binding domains: implications for protein evolution in the RNA.
Proteins 2002;48(1):1-14.
2002: Aravind L; Mazumder Raja; Vasudevan Sona; Koonin Eugene V
Trends in protein evolution inferred from sequence and structure analysis.
Current opinion in structural biology 2002;12(3):392-9.
2002: Koonin E V; Aravind L
Origin and evolution of eukaryotic apoptosis: the bacterial connection.
Cell death and differentiation 2002;9(4):394-404.
2002: Slesarev Alexei I; Mezhevaya Katja V; Makarova Kira S; Polushin Nikolai N; Shcherbinina Olga V; Shakhova Vera V; Belova Galina I; Aravind L; Natale Darren A; Rogozin Igor B; Tatusov Roman L; Wolf Yuri I; Stetter Karl O; Malykh Andrei G; Koonin Eugene V; Kozyavkin Sergei A
The complete genome of hyperthermophile Methanopyrus kandleri AV19 and monophyly of archaeal methanogens.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(7):4644-9.
2002: Anantharaman Vivek; Koonin Eugene V; Aravind L
Comparative genomics and evolution of proteins involved in RNA metabolism.
Nucleic acids research 2002;30(7):1427-64.
2002: Leipe Detlef D; Wolf Yuri I; Koonin Eugene V; Aravind L
Classification and evolution of P-loop GTPases and related ATPases.
Journal of molecular biology 2002;317(1):41-72.
2002: Iyer Lakshminarayan M; Koonin Eugene V; Aravind L
Classification and evolutionary history of the single-strand annealing proteins, RecT, Redbeta, ERF and RAD52.
BMC genomics 2002;3(1):8.
2002: Aravind L; Koonin Eugene V
Classification of the caspase-hemoglobinase fold: detection of new families and implications for the origin of the eukaryotic separins.
Proteins 2002;46(4):355-67.
2002: Anantharaman Vivek; Aravind L
MOSC domains: ancient, predicted sulfur-carrier domains, present in diverse metal-sulfur cluster biosynthesis proteins including Molybdenum cofactor sulfurases.
FEMS microbiology letters 2002;207(1):55-61.
2002: Makarova Kira S; Aravind L; Grishin Nick V; Rogozin Igor B; Koonin Eugene V
A DNA repair system specific for thermophilic Archaea and bacteria predicted by genomic context analysis.
Nucleic acids research 2002;30(2):482-96.
2002: Anantharaman Vivek; Koonin Eugene V; Aravind L
SPOUT: a class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases.
Journal of molecular microbiology and biotechnology 2002;4(1):71-5.
2002: Anantharaman Vivek; Aravind L
The GOLD domain, a novel protein module involved in Golgi function and secretion.
Genome biology 2002;3(5):research0023.
2002: Iyer Lakshminarayan M; Koonin Eugene V; Aravind L
Extensive domain shuffling in transcription regulators of DNA viruses and implications for the origin of fungal APSES transcription factors.
Genome biology 2002;3(3):RESEARCH0012.
2001: Iyer L M; Aravind L; Koonin E V
Common origin of four diverse families of large eukaryotic DNA viruses.
Journal of virology 2001;75(23):11720-34.
2001: Anantharaman V; Aravind L
The CHASE domain: a predicted ligand-binding module in plant cytokinin receptors and other eukaryotic and bacterial receptors.
Trends in biochemical sciences 2001;26(10):579-82.
2001: Aravind L
DOMON: an ancient extracellular domain in dopamine beta-monooxygenase and other proteins.
Trends in biochemical sciences 2001;26(9):524-6.
2001: Anantharaman V; Koonin E V; Aravind L
Peptide-N-glycanases and DNA repair proteins, Xp-C/Rad4, are, respectively, active and inactivated enzymes sharing a common transglutaminase fold.
Human molecular genetics 2001;10(16):1627-30.
2001: Aravind L; Koonin E V
Prokaryotic homologs of the eukaryotic DNA-end-binding protein Ku, novel domains in the Ku protein and prediction of a prokaryotic double-strand break repair system.
Genome research 2001;11(8):1365-74.
2001: Schäffer A A; Aravind L; Madden T L; Shavirin S; Spouge J L; Wolf Y I; Koonin E V; Altschul S F
Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements.
Nucleic acids research 2001;29(14):2994-3005.
2001: Aravind L
The WWE domain: a common interaction module in protein ubiquitination and ADP ribosylation.
Trends in biochemical sciences 2001;26(5):273-5.
2001: Iyer L M; Koonin E V; Aravind L
Adaptations of the helix-grip fold for ligand binding and catalysis in the START domain superfamily.
Proteins 2001;43(2):134-44.
2001: Anantharaman V; Koonin E V; Aravind L
TRAM, a predicted RNA-binding domain, common to tRNA uracil methylation and adenine thiolation enzymes.
FEMS microbiology letters 2001;197(2):215-21.
2001: Aravind L; Koonin E V
THUMP--a predicted RNA-binding domain shared by 4-thiouridine, pseudouridine synthases and RNA methylases.
Trends in biochemical sciences 2001;26(4):215-7.
2001: Anantharaman V; Koonin E V; Aravind L
Regulatory potential, phyletic distribution and evolution of ancient, intracellular small-molecule-binding domains.
Journal of molecular biology 2001;307(5):1271-92.
2001: Makarova K S; Aravind L; Wolf Y I; Tatusov R L; Minton K W; Koonin E V; Daly M J
Genome of the extremely radiation-resistant bacterium Deinococcus radiodurans viewed from the perspective of comparative genomics.
Microbiology and molecular biology reviews : MMBR 2001;65(1):44-79.
2001: Aravind L; Dixit V M; Koonin E V
Apoptotic molecular machinery: vastly increased complexity in vertebrates revealed by genome comparisons.
Science (New York, N.Y.) 2001;291(5507):1279-84.
2001: Koonin E V; Wolf Y I; Aravind L
Prediction of the archaeal exosome and its connections with the proteasome and the translation and transcription machineries by a comparative-genomic approach.
Genome research 2001;11(2):240-52.
2001: Iyer L M; Aravind L; Bork P; Hofmann K; Mushegian A R; Zhulin I B; Koonin E V
Quoderat demonstrandum? The mystery of experimental validation of apparently erroneous computational analyses of protein sequences.
Genome biology 2001;2(12):RESEARCH0051.
2001: Koonin E V; Makarova K S; Aravind L
Horizontal gene transfer in prokaryotes: quantification and classification.
Annual review of microbiology 2001;55():709-42.
2001: Aravind L; Koonin E V
The DNA-repair protein AlkB, EGL-9, and leprecan define new families of 2-oxoglutarate- and iron-dependent dioxygenases.
Genome biology 2001;2(3):RESEARCH0007.
2000: Aravind L
Exploring histones and their relatives with the Histone Sequence Database.
Trends in genetics : TIG 2000;16(11):517-8.
2000: Anantharaman V; Aravind L
Cache - a signaling domain common to animal Ca(2+)-channel subunits and a class of prokaryotic chemotaxis receptors.
Trends in biochemical sciences 2000;25(11):535-7.
2000: Koonin E V; Aravind L
Dynein light chains of the Roadblock/LC7 group belong to an ancient protein superfamily implicated in NTPase regulation.
Current biology : CB 2000;10(21):R774-6.
2000: Koonin E V; Wolf Y I; Kondrashov A S; Aravind L
Bacterial homologs of the small subunit of eukaryotic DNA primase.
Journal of molecular microbiology and biotechnology 2000;2(4):509-12.
2000: Aravind L; Watanabe H; Lipman D J; Koonin E V
Lineage-specific loss and divergence of functionally linked genes in eukaryotes.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(21):11319-24.
2000: Aravind L; Makarova K S; Koonin E V
SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories.
Nucleic acids research 2000;28(18):3417-32.
2000: Aravind L
The BED finger, a novel DNA-binding domain in chromatin-boundary-element-binding proteins and transposases.
Trends in biochemical sciences 2000;25(9):421-3.
2000: Aravind L; Koonin E V
Eukaryote-specific domains in translation initiation factors: implications for translation regulation and evolution of the translation system.
Genome research 2000;10(8):1172-84.
2000: Aravind L
Guilt by association: contextual information in genome analysis.
Genome research 2000;10(8):1074-7.
2000: Garcia A D; Aravind L; Koonin E V; Moss B
Bacterial-type DNA holliday junction resolvases in eukaryotic viruses.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(16):8926-31.
2000: Aravind L; Koonin E V
SAP - a putative DNA-binding motif involved in chromosomal organization.
Trends in biochemical sciences 2000;25(3):112-4.
2000: Subramanian G; Koonin E V; Aravind L
Comparative genome analysis of the pathogenic spirochetes Borrelia burgdorferi and Treponema pallidum.
Infection and immunity 2000;68(3):1633-48.
2000: Galperin M Y; Aravind L; Koonin E V
Aldolases of the DhnA family: a possible solution to the problem of pentose and hexose biosynthesis in archaea.
FEMS microbiology letters 2000;183(2):259-64.
2000: Makarova K S; Aravind L; Koonin E V
A novel superfamily of predicted cysteine proteases from eukaryotes, viruses and Chlamydia pneumoniae.
Trends in biochemical sciences 2000;25(2):50-2.
2000: Leipe D D; Aravind L; Grishin N V; Koonin E V
The bacterial replicative helicase DnaB evolved from a RecA duplication.
Genome research 2000;10(1):5-16.
2000: Sullivan S A; Aravind L; Makalowska I; Baxevanis A D; Landsman D
The histone database: a comprehensive WWW resource for histones and histone fold-containing proteins.
Nucleic acids research 2000;28(1):320-2.
2000: Natale D A; Shankavaram U T; Galperin M Y; Wolf Y I; Aravind L; Koonin E V
Towards understanding the first genome sequence of a crenarchaeon by genome annotation using clusters of orthologous groups of proteins (COGs).
Genome biology 2000;1(5):RESEARCH0009.
2000: Aravind L; Koonin E V
The alpha/beta fold uracil DNA glycosylases: a common origin with diverse fates.
Genome biology 2000;1(4):RESEARCH0007.
2000: Koonin E V; Wolf Y I; Aravind L
Protein fold recognition using sequence profiles and its application in structural genomics.
Advances in protein chemistry 2000;54():245-75.
1999: Schäffer A A; Wolf Y I; Ponting C P; Koonin E V; Aravind L; Altschul S F
IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices.
Bioinformatics (Oxford, England) 1999;15(12):1000-11.
1999: Aravind L; Subramanian G
Origin of multicellular eukaryotes - insights from proteome comparisons.
Current opinion in genetics & development 1999;9(6):688-94.
1999: Aravind L; Koonin E V
DNA-binding proteins and evolution of transcription regulation in the archaea.
Nucleic acids research 1999;27(23):4658-70.
1999: Galperin M Y; Natale D A; Aravind L; Koonin E V
A specialized version of the HD hydrolase domain implicated in signal transduction.
Journal of molecular microbiology and biotechnology 1999;1(2):303-5.
1999: Koonin E V; Aravind L; Hofmann K; Tschopp J; Dixit V M
Apoptosis. Searching for FLASH domains.
Nature 1999;401(6754):662; discussion 662-3.
1999: Aravind L; Koonin E V
G-patch: a new conserved domain in eukaryotic RNA-processing proteins and type D retroviral polyproteins.
Trends in biochemical sciences 1999;24(9):342-4.
1999: Leipe D D; Aravind L; Koonin E V
Did DNA replication evolve twice independently?
Nucleic acids research 1999;27(17):3389-401.
1999: Makarova K S; Aravind L; Koonin E V
A superfamily of archaeal, bacterial, and eukaryotic proteins homologous to animal transglutaminases.
Protein science : a publication of the Protein Society 1999;8(8):1714-9.
1999: Wolf Y I; Aravind L; Grishin N V; Koonin E V
Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events.
Genome research 1999;9(8):689-710.
1999: Aravind L; Ponting C P
The cytoplasmic helical linker domain of receptor histidine kinase and methyl-accepting proteins is common to many prokaryotic signalling proteins.
FEMS microbiology letters 1999;176(1):111-6.
1999: Makarova K S; Aravind L; Galperin M Y; Grishin N V; Tatusov R L; Wolf Y I; Koonin E V
Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell.
Genome research 1999;9(7):608-28.
1999: Ponting C P; Aravind L; Schultz J; Bork P; Koonin E V
Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer.
Journal of molecular biology 1999;289(4):729-45.
1999: Wolf Y I; Aravind L; Koonin E V
Rickettsiae and Chlamydiae: evidence of horizontal gene transfer and gene exchange.
Trends in genetics : TIG 1999;15(5):173-5.
1999: Ponting C P; Bork P; Schultz J; Aravind L
No Sec7-homology domain in guanine-nucleotide-exchange factors that act on Ras and Rho.
Trends in biochemical sciences 1999;24(5):177-8.
1999: Ponting C P; Aravind L
START: a lipid-binding domain in StAR, HD-ZIP and signalling proteins.
Trends in biochemical sciences 1999;24(4):130-2.
1999: Aravind L; Koonin E V
Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches.
Journal of molecular biology 1999;287(5):1023-40.
1999: Aravind L; Koonin E V
DNA polymerase beta-like nucleotidyltransferase superfamily: identification of three new families, classification and evolutionary history.
Nucleic acids research 1999;27(7):1609-18.
1999: Aravind L; Neuwald A F; Ponting C P
Sec14p-like domains in NF1 and Dbl-like proteins indicate lipid regulation of Ras and Rho signaling.
Current biology : CB 1999;9(6):R195-7.
1999: Aravind L; Koonin E V
Novel predicted RNA-binding domains associated with the translation machinery.
Journal of molecular evolution 1999;48(3):291-302.
1999: Aravind L; Walker D R; Koonin E V
Conserved domains in DNA repair proteins and evolution of repair systems.
Nucleic acids research 1999;27(5):1223-42.
1999: Aravind L; Dixit V M; Koonin E V
The domains of death: evolution of the apoptosis machinery.
Trends in biochemical sciences 1999;24(2):47-53.
1999: Aravind L; Koonin E V
Fold prediction and evolutionary analysis of the POZ domain: structural and evolutionary relationship with the potassium channel tetramerization domain.
Journal of molecular biology 1999;285(4):1353-61.
1999: Aravind L
An evolutionary classification of the metallo-beta-lactamase fold proteins.
In silico biology 1999;1(2):69-91.
1998: Aravind L; Koonin E V
The HD domain defines a new superfamily of metal-dependent phosphohydrolases.
Trends in biochemical sciences 1998;23(12):469-72.
1998: Aravind L; Tatusov R L; Wolf Y I; Walker D R; Koonin E V
Evidence for massive gene exchange between archaeal and bacterial hyperthermophiles.
Trends in genetics : TIG 1998;14(11):442-4.
1998: Leonard C J; Aravind L; Koonin E V
Novel families of putative protein kinases in bacteria and archaea: evolution of the "eukaryotic" protein kinase superfamily.
Genome research 1998;8(10):1038-47.
1998: Aravind L; Landsman D
AT-hook motifs identified in a wide variety of DNA-binding proteins.
Nucleic acids research 1998;26(19):4413-21.
1998: Aravind L; Leipe D D; Koonin E V
Toprim--a conserved catalytic domain in type IA and II topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Nucleic acids research 1998;26(18):4205-13.
1998: Aravind L; Koonin E V
The HORMA domain: a common structural denominator in mitotic checkpoints, chromosome synapsis and DNA repair.
Trends in biochemical sciences 1998;23(8):284-6.
1998: Aravind L; Koonin E V
Phosphoesterase domains associated with DNA polymerases of diverse origins.
Nucleic acids research 1998;26(16):3746-52.
1998: Aravind L; Ponting C P
Homologues of 26S proteasome subunits are regulators of transcription and translation.
Protein science : a publication of the Protein Society 1998;7(5):1250-4.
1998: Aravind L; Galperin M Y; Koonin E V
The catalytic domain of the P-type ATPase has the haloacid dehalogenase fold.
Trends in biochemical sciences 1998;23(4):127-9.
1998: Koonin E V; Aravind L
Genomics: re-evaluation of translation machinery evolution.
Current biology : CB 1998;8(8):R266-9.
1998: Aravind L; Koonin E V
A novel family of predicted phosphoesterases includes Drosophila prune protein and bacterial RecJ exonuclease.
Trends in biochemical sciences 1998;23(1):17-9.
1997: Aravind L; Ponting C P
The GAF domain: an evolutionary link between diverse phototransducing proteins.
Trends in biochemical sciences 1997;22(12):458-9.
1997: Ponting C P; Aravind L
PAS: a multifunctional domain family comes to light.
Current biology : CB 1997;7(11):R674-7.

Sign-in to see more