Saved on 7/10/2007

 1.  Pennacchio LA, Loots GG, Nobrega MA, et al.
Predicting tissue-specific enhancers in the human genome 
GENOME RESEARCH 17 (2): 201-211 FEB 2007 
    

 2.  Loots G, Ovcharenko I
ECRbase: database of evolutionary conserved regions, promoters, and transcription factor binding sites in vertebrate genomes 
BIOINFORMATICS 23 (1): 122-124 JAN 1 2007 
    

 3.  Loots GG, Chain PSG, Mabery S, et al.
Array2BIO: from microarray expression data to functional annotation of co-regulated genes 
BMC BIOINFORMATICS 7: Art. No. 307 JUN 16 2006 
    

 4.  Do Kim J, Hinz AK, Bergmann A, et al.
Identification of clustered YY1 binding sites in imprinting control regions 
GENOME RESEARCH 16 (7): 901-911 JUL 2006 
    

 5.  Shin JT, Priest JR, Ovcharenko I, et al.
Human-zebrafish non-coding conserved elements act in vivo to regulate transcription 
NUCLEIC ACIDS RESEARCH 33 (17): 5437-5445 2005 
    

 6.  Loots GG, Ovcharenko I
Dcode.org anthology of comparative genomic tools 
NUCLEIC ACIDS RESEARCH 33: W56-W64 Suppl. S JUL 1 2005 
    

 7.  Ovcharenko I, Nobrega MA
Identifying synonymous regulatory elements in vertebrate genomes 
NUCLEIC ACIDS RESEARCH 33: W403-W407 Suppl. S JUL 1 2005 
    

 8.  Loots GG, Ovcharenko I
Dcode.org anthology of comparative genomic tools 
NUCLEIC ACIDS RESEARCH 33: W56-W64 Suppl. 2 JUL 1 2005 
    

 9.  Ovcharenko I, Nobrega MA
Identifying synonymous regulatory elements in vertebrate genomes 
NUCLEIC ACIDS RESEARCH 33: W403-W407 Suppl. 2 JUL 1 2005 
    

 10.  Hillier LW, Graves TA, Fulton RS, et al.
Generation and annotation of the DNA sequences of human chromosomes 2 and 4 
NATURE 434 (7034): 724-731 APR 7 2005 
    

 11.  Ovcharenko I, Loots GG, Nobrega MA, et al.
Evolution and functional classification of vertebrate gene deserts 
GENOME RESEARCH 15 (1): 137-145 JAN 2005 
    

 12.  Ovcharenko I, Loots GG, Giardine BM, et al.
Mulan: Multiple-sequence local alignment and visualization for studying function and evolution 
GENOME RESEARCH 15 (1): 184-194 JAN 2005 
    

 13.  Hillier LW, Miller W, Birney E, et al.
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution 
NATURE 432 (7018): 695-716 DEC 9 2004 
    

 14.  Wong GKS, Liu B, Wang J, et al.
A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms 
NATURE 432 (7018): 717-722 DEC 9 2004 
    

 15.  Ovcharenko I, Stubbs L, Loots GG
Interpreting mammalian evolution using Fugu genome comparisons 
GENOMICS 84 (5): 890-895 NOV 2004 
    

 16.  Ovcharenko I, Loots GG
Comparative genomic tools for exploring the human genome 
COLD SPRING HARBOR SYMPOSIA ON QUANTITATIVE BIOLOGY 68: 283-291 2003 
    

 17.  Loots GG, Ovcharenko I
rVISTA 2.0: evolutionary analysis of transcription factor binding sites 
NUCLEIC ACIDS RESEARCH 32: W217-W221 Suppl. 2 JUL 1 2004 
    

 18.  Sharan R, Ben-Hur A, Loots GG, et al.
CREME: Cis-Regulatory Module Explorer for the human genome 
NUCLEIC ACIDS RESEARCH 32: W253-W256 Suppl. 2 JUL 1 2004 
    

 19.  Ovcharenko I, Nobrega MA, Loots GG, et al.
ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes 
NUCLEIC ACIDS RESEARCH 32: W280-W286 Suppl. 2 JUL 1 2004 
    

 20.  Ovcharenko I, Boffelli D, Loots GG
EShadow: A tool for comparing closely related sequences 
GENOME RESEARCH 14 (6): 1191-1198 JUN 2004 
    

 21.  Grimwood J, Gordon LA, Olsen A, et al.
The DNA sequence and biology of human chromosome 19 
NATURE 428 (6982): 529-535 APR 1 2004 
    

 22.  Ovcharenko I, Loots GG, Hardison RC, et al.
zPicture: Dynamic alignment and visualization tool for analyzing conservation profiles 
GENOME RESEARCH 14 (3): 472-477 MAR 2004 
    

 23.  Nobrega MA, Ovcharenko I, Afzal V, et al.
Scanning human gene deserts for long-range enhancers 
SCIENCE 302 (5644): 413-413 OCT 17 2003 
    

 24.  Boffelli D, McAuliffe J, Ovcharenko D, et al.
Phylogenetic shadowing of primate sequences to find functional regions of the human genome 
SCIENCE 299 (5611): 1391-1394 FEB 28 2003 
    

 25.  Loots GG, Ovcharenko I, Pachter L, et al.
rVista for comparative sequence-based discovery of functional transcription factor binding sites 
GENOME RESEARCH 12 (5): 832-839 MAY 2002 
    
   
 26.  Xiao C, Hagelberg F, Ovcharenko I, et al.
Geometric structures and stabilities of CuSin clusters (n=8, 10, 12) 
JOURNAL OF MOLECULAR STRUCTURE-THEOCHEM 549: 181-192 Sp. Iss. SI AUG 6 2001 
    

 27.  Ovcharenko I, Lester WA, Xiao CY, et al.
Fixed node diffusion monte carlo characterization of Cu-doped Si clusters. 
ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY 221: 271-PHYS Part 2 APR 1 2001 
    

 28.  Aspuru-Guzik A, Couronne O, Ovcharenko I, et al.
Limited fixed sample optimization in quantum Monte Carlo: The challenge of optimizing correlated wavefunctions for large chemical systems. 
ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY 221: 275-PHYS Part 2 APR 1 2001 
    

 29.  Ovcharenko IV, Lester WA, Xiao C, et al.
Quantum Monte Carlo characterization of small Cu-doped silicon clusters: CuSi4 and CuSi6 
JOURNAL OF CHEMICAL PHYSICS 114 (20): 9028-9032 MAY 22 2001 
    

 30.  Ovcharenko I, Aspuru-Guzik A, Lester WA
Soft pseudopotentials for efficient quantum Monte Carlo calculations: From Be to Ne and Al to Ar 
JOURNAL OF CHEMICAL PHYSICS 114 (18): 7790-7794 MAY 8 2001 
    

 31.  Taraban MB, Kruppa AI, Volkova OS, et al.
Origin of magnetic field effect in the photolysis of 7-silanorbornadiene derivatives in solution 
JOURNAL OF PHYSICAL CHEMISTRY A 104 (9): 1811-1816 MAR 9 2000 
    

 32.  Ovcharenko IV, Shvedenkov YG, Musin RN, et al.
Determination of exchange interaction parameters in heterospin exchange clusters 
JOURNAL OF STRUCTURAL CHEMISTRY 40 (1): 29-34 JAN-FEB 1999 
    

 33.  Ovcharenko VI, Romanenko GV, Korobkov IV, et al.
Crystal structure and magnetic properties of the octahedral complexes of Ni(II) with 3-imidazoline nitroxides 
JOURNAL OF STRUCTURAL CHEMISTRY 39 (5): 734-746 SEP-OCT 1998 
    

 34.  Reznikov VA, Ovcharenko IV, Pervukhina NV, et al.
Persistent vinylnitroxides 
CHEMICAL COMMUNICATIONS (6): 539-540 MAR 21 1999 
    

 35.  Musin RN, Ovcharenko IV, Ohrstrom L, et al.
Magnetic properties of Cu(II) bischelate complexes with 3-imidazoline nitroxides. 1. An ab initio analysis of spin density delocalization channels 
JOURNAL OF STRUCTURAL CHEMISTRY 38 (5): 703-710 SEP-OCT 1997 
    

 36.  Musin RN, Ovcharenko IV, Ohrstrom L, et al.
Magnetic properties of Cu(II) bischelate complexes with 3-imidazoline nitroxides. 2. An ab initio analysis of exchange interaction mechanisms 
JOURNAL OF STRUCTURAL CHEMISTRY 38 (5): 711-715 SEP-OCT 1997 
    

 37.  Krupa AA, Gorodov VS, Zyatkevich DP, et al.
Stepping up the sintering rate of China through the use of firing wastes treated by a plasma-chemical method 
GLASS AND CERAMICS 54 (1-2): 63-65 JAN-FEB 1997