Bioinformatics Vol. 16 no. 11 2000
Pages 1046-1047
© 2000 Oxford University Press
Applications Note |
VISTA : visualizing global DNA sequence alignments of arbitrary length
1 National Energy Research Scientific
Computing Center
2 Genome Sciences Department, Lawrence
Berkeley National Laboratory, Berkeley, CA 94720, USA
3 Department of Mathematics University of
California at Berkeley, Berkeley, CA 94720, USA
Received on June 1, 2000
; revised on July 19, 2000
; accepted on August 2, 2000
Summary: VISTA is a program for visualizing global DNA sequence alignments of arbitrary length. It has a clean output, allowing for easy identification of similarity, and is easily configurable, enabling the visualization of alignments of various lengths at different levels of resolution. It is currently available on the web, thus allowing for easy access by all researchers.
Availability: VISTA server is available on the web at http://www-gsd.lbl.gov/vista. The source code is available upon request.
Contact: vista{at}lbl.gov
To whom correspondence should be addressed.
![]()
CiteULike
Connotea
Del.icio.us What's this?
This article has been cited by other articles:
![]() |
K. Yun, J.-S. So, A. Jash, and S.-H. Im Lymphoid Enhancer Binding Factor 1 Regulates Transcription through Gene Looping J. Immunol., October 15, 2009; 183(8): 5129 - 5137. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. A. Kronmiller and R. P. Wise Computational Finishing of Large Sequence Contigs Reveals Interspersed Nested Repeats and Gene Islands in the rf1-Associated Region of Maize Plant Physiology, October 1, 2009; 151(2): 483 - 495. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. G. Nagarajan, G. Karnam, A. Lahiri, U. S. Allam, and D. Chakravortty Reliable Means of Diagnosis and Serovar Determination of Blood-Borne Salmonella Strains: Quick PCR Amplification of Unique Genomic Loci by Novel Primer Sets J. Clin. Microbiol., August 1, 2009; 47(8): 2435 - 2441. [Abstract] [Full Text] [PDF] |
||||
![]() |
E. V. Laz, A. Sugathan, and D. J. Waxman Dynamic in Vivo Binding of STAT5 to Growth Hormone-Regulated Genes in Intact Rat Liver. Sex-Specific Binding at Low- But Not High-Affinity STAT5 Sites Mol. Endocrinol., August 1, 2009; 23(8): 1242 - 1254. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. Kubo, K. S. Imai, and Y. Satou Gene-regulatory networks in the Ciona embryos Brief Funct Genomic Proteomic, July 1, 2009; 8(4): 250 - 255. [Abstract] [Full Text] [PDF] |
||||
![]() |
J.-R. Landry, N. Bonadies, S. Kinston, K. Knezevic, N. K. Wilson, S. H. Oram, M. Janes, S. Piltz, M. Hammett, J. Carter, et al. Expression of the leukemia oncogene Lmo2 is controlled by an array of tissue-specific elements dispersed over 100 kb and bound by Tal1/Lmo2, Ets, and Gata factors Blood, June 4, 2009; 113(23): 5783 - 5792. [Abstract] [Full Text] [PDF] |
||||
![]() |
F. Colecchia, D. Kottwitz, M. Wagner, C. V. Pfenninger, G. Thiel, I. Tamm, C. Peterson, and U. A. Nuber Tissue-specific regulatory network extractor (TS-REX): a database and software resource for the tissue and cell type-specific investigation of transcription factor-gene networks Nucleic Acids Res., June 1, 2009; 37(11): e82 - e82. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. T. Garnett, T. M. Han, M. J. Gilchrist, J. C. Smith, M. B. Eisen, F. C. Wardle, and S. L. Amacher Identification of direct T-box target genes in the developing zebrafish mesoderm Development, March 1, 2009; 136(5): 749 - 760. [Abstract] [Full Text] [PDF] |
||||
![]() |
K. Zhang, F. Rao, B. K. Rana, J. R. Gayen, F. Calegari, A. King, P. Rosa, W. B. Huttner, M. Stridsberg, M. Mahata, et al. Autonomic Function in Hypertension: Role of Genetic Variation at the Catecholamine Storage Vesicle Protein Chromogranin B Circ Cardiovasc Genet, February 1, 2009; 2(1): 46 - 56. [Abstract] [Full Text] [PDF] |
||||
![]() |
R. W. Innes, C. Ameline-Torregrosa, T. Ashfield, E. Cannon, S. B. Cannon, B. Chacko, N. W.G. Chen, A. Couloux, A. Dalwani, R. Denny, et al. Differential Accumulation of Retroelements and Diversification of NB-LRR Disease Resistance Genes in Duplicated Regions following Polyploidy in the Ancestor of Soybean Plant Physiology, December 1, 2008; 148(4): 1740 - 1759. [Abstract] [Full Text] [PDF] |
||||
![]() |
R. Cronn, A. Liston, M. Parks, D. S. Gernandt, R. Shen, and T. Mockler Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology Nucleic Acids Res., November 1, 2008; 36(19): e122 - e122. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. R. Scherzer, J. A. Grass, Z. Liao, I. Pepivani, B. Zheng, A. C. Eklund, P. A. Ney, J. Ng, M. McGoldrick, B. Mollenhauer, et al. GATA transcription factors directly regulate the Parkinson's disease-linked gene {alpha}-synuclein PNAS, August 5, 2008; 105(31): 10907 - 10912. [Abstract] [Full Text] [PDF] |
||||
![]() |
C.-L. Chen, C.-J. Chen, O. Vallon, Z.-P. Huang, H. Zhou, and L.-H. Qu Genomewide Analysis of Box C/D and Box H/ACA snoRNAs in Chlamydomonas reinhardtii Reveals an Extensive Organization Into Intronic Gene Clusters Genetics, May 1, 2008; 179(1): 21 - 30. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. Pantalacci, A. Chaumot, G. Benoit, A. Sadier, F. Delsuc, E. J. P. Douzery, and V. Laudet Conserved Features and Evolutionary Shifts of the EDA Signaling Pathway Involved in Vertebrate Skin Appendage Development Mol. Biol. Evol., May 1, 2008; 25(5): 912 - 928. [Abstract] [Full Text] [PDF] |
||||
![]() |
W. Huang, C. Zhu, H. Wang, E. Horvath, and E. A. Eklund The Interferon Consensus Sequence-binding Protein (ICSBP/IRF8) Represses PTPN13 Gene Transcription in Differentiating Myeloid Cells J. Biol. Chem., March 21, 2008; 283(12): 7921 - 7935. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. Fukamachi, M. Kinoshita, T. Tsujimura, A. Shimada, S. Oda, A. Shima, A. Meyer, S. Kawamura, and H. Mitani Rescue From Oculocutaneous Albinism Type 4 Using Medaka slc45a2 cDNA Driven by Its Own Promoter Genetics, February 1, 2008; 178(2): 761 - 769. [Abstract] [Full Text] [PDF] |
||||
![]() |
R. Alvarez-Medina, J. Cayuso, T. Okubo, S. Takada, and E. Marti Wnt canonical pathway restricts graded Shh/Gli patterning activity through the regulation of Gli3 expression Development, January 15, 2008; 135(2): 237 - 247. [Abstract] [Full Text] [PDF] |
||||
![]() |
Y. Wang, B. P. Flemming, C. C. Martin, S. R. Allen, J. Walters, J. K. Oeser, J. C. Hutton, and R. M. O'Brien Long-Range Enhancers Are Required to Maintain Expression of the Autoantigen Islet-Specific Glucose-6-Phosphatase Catalytic Subunit Related Protein in Adult Mouse Islets In Vivo Diabetes, January 1, 2008; 57(1): 133 - 141. [Abstract] [Full Text] [PDF] |
||||
![]() |
J.-W. Cui, Y.-J. Li, A. Sarkar, J. Brown, Y.-H. Tan, M. Premyslova, C. Michaud, N. Iscove, G.-J. Wang, and Y. Ben-David Retroviral insertional activation of the Fli-3 locus in erythroleukemias encoding a cluster of microRNAs that convert Epo-induced differentiation to proliferation Blood, October 1, 2007; 110(7): 2631 - 2640. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. Tang, C. Toomajian, S. Sherman-Broyles, V. Plagnol, Y.-L. Guo, T. T. Hu, R. M. Clark, J. B. Nasrallah, D. Weigel, and M. Nordborg The Evolution of Selfing in Arabidopsis thaliana Science, August 24, 2007; 317(5841): 1070 - 1072. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. Brudno, A. Poliakov, S. Minovitsky, I. Ratnere, and I. Dubchak Multiple whole genome alignments and novel biomedical applications at the VISTA portal Nucleic Acids Res., July 13, 2007; 35(suppl_2): W669 - W674. [Abstract] [Full Text] [PDF] |
||||
![]() |
Y. F. F. Medel and P. D. Gardner Transcriptional Repression by a Conserved Intronic Sequence in the Nicotinic Receptor {alpha}3 Subunit Gene J. Biol. Chem., June 29, 2007; 282(26): 19062 - 19070. [Abstract] [Full Text] [PDF] |
||||
![]() |
I. Cleynen, C. Huysmans, T. Sasazuki, S. Shirasawa, W. Van de Ven, and K. Peeters Transcriptional Control of the Human High Mobility Group A1 Gene: Basal and Oncogenic Ras-Regulated Expression Cancer Res., May 15, 2007; 67(10): 4620 - 4629. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. G. Pezzolesi, K. M. Zbuk, K. A. Waite, and C. Eng Comparative genomic and functional analyses reveal a novel cis-acting PTEN regulatory element as a highly conserved functional E-box motif deleted in Cowden syndrome Hum. Mol. Genet., May 1, 2007; 16(9): 1058 - 1071. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. M. Alfieri, H. J. Evans-Anderson, and K. E. Yutzey Developmental regulation of the mouse IGF-I exon 1 promoter region by calcineurin activation of NFAT in skeletal muscle Am J Physiol Cell Physiol, May 1, 2007; 292(5): C1887 - C1894. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. Freeling, L. Rapaka, E. Lyons, B. Pedersen, and B. C. Thomas G-Boxes, Bigfoot Genes, and Environmental Response: Characterization of Intragenomic Conserved Noncoding Sequences in Arabidopsis PLANT CELL, May 1, 2007; 19(5): 1441 - 1457. [Abstract] [Full Text] [PDF] |
||||
![]() |
W. M. Knosp, C. Saneyoshi, S. Shou, H. P. Bachinger, and H. S. Stadler Elucidation, Quantitative Refinement, and in Vivo Utilization of the HOXA13 DNA Binding Site J. Biol. Chem., March 2, 2007; 282(9): 6843 - 6853. [Abstract] [Full Text] [PDF] |
||||
![]() |
G. R. Howell, M. Shindo, S. Murray, T. Gridley, L. A. Wilson, and J. C. Schimenti Mutation of a Ubiquitously Expressed Mouse Transmembrane Protein (Tapt1) Causes Specific Skeletal Homeotic Transformations Genetics, February 1, 2007; 175(2): 699 - 707. [Abstract] [Full Text] [PDF] |
||||
![]() |
T.-y. Roh, G. Wei, C. M. Farrell, and K. Zhao Genome-wide prediction of conserved and nonconserved enhancers by histone acetylation patterns Genome Res., January 1, 2007; 17(1): 74 - 81. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. Ribich, B. Tasic, and T. Maniatis Identification of long-range regulatory elements in the protocadherin-{alpha} gene cluster PNAS, December 26, 2006; 103(52): 19719 - 19724. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. E. Pandorf, F. Haddad, R. R. Roy, A. X. Qin, V. R. Edgerton, and K. M. Baldwin Dynamics of Myosin Heavy Chain Gene Regulation in Slow Skeletal Muscle: ROLE OF NATURAL ANTISENSE RNA J. Biol. Chem., December 15, 2006; 281(50): 38330 - 38342. [Abstract] [Full Text] [PDF] |
||||
![]() |
Q. Wang, S. C. Hunt, Q. Xu, Y. E. Chen, M. A. Province, J. H. Eckfeldt, J. S. Pankow, and Q. Song Association study of CRP gene polymorphisms with serum CRP level and cardiovascular risk in the NHLBI Family Heart Study Am J Physiol Heart Circ Physiol, December 1, 2006; 291(6): H2752 - H2757. [Abstract] [Full Text] [PDF] |
||||
![]() |
P. Bhatti, D. M. Church, J. L. Rutter, J. P. Struewing, and A. J. Sigurdson Candidate Single Nucleotide Polymorphism Selection using Publicly Available Tools: A Guide for Epidemiologists Am. J. Epidemiol., October 15, 2006; 164(8): 794 - 804. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. B. Kaelin, L. Gong, A. W. Xu, F. Yao, K. Hockman, G. J. Morton, M. W. Schwartz, G. S. Barsh, and R. G. MacKenzie Signal Transducer and Activator of Transcription (Stat) Binding Sites But Not Stat3 Are Required for Fasting-Induced Transcription of Agouti-Related Protein Messenger Ribonucleic Acid Mol. Endocrinol., October 1, 2006; 20(10): 2591 - 2602. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. L. Federico, F. L. Iniguez-Luy, R. W. Skadsen, and H. F. Kaeppler Spatial and Temporal Divergence of Expression in Duplicated Barley Germin-Like Protein-Encoding Genes Genetics, September 1, 2006; 174(1): 179 - 190. [Abstract] [Full Text] [PDF] |
||||
![]() |
Q. Song, J. W. Cole, J. R. O'Connell, O. C. Stine, M. Gallagher, W. H. Giles, B. D. Mitchell, M. A. Wozniak, B. J. Stern, J. D. Sorkin, et al. Phosphodiesterase 4D polymorphisms and the risk of cerebral infarction in a biracial population: the Stroke Prevention in Young Women Study Hum. Mol. Genet., August 15, 2006; 15(16): 2468 - 2478. [Abstract] [Full Text] [PDF] |
||||
![]() |
J. C. Raum, K. Gerrish, I. Artner, E. Henderson, M. Guo, L. Sussel, J. C. Schisler, C. B. Newgard, and R. Stein FoxA2, Nkx2.2, and PDX-1 Regulate Islet {beta}-Cell-Specific mafA Expression through Conserved Sequences Located between Base Pairs -8118 and -7750 Upstream from the Transcription Start Site Mol. Cell. Biol., August 1, 2006; 26(15): 5735 - 5743. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. Dorus, J. R. Anderson, E. J. Vallender, S. L. Gilbert, L. Zhang, L. G. Chemnick, O. A. Ryder, W. Li, and B. T. Lahn Sonic Hedgehog, a key development gene, experienced intensified molecular evolution in primates Hum. Mol. Genet., July 1, 2006; 15(13): 2031 - 2037. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. J. F. de Wolf, R. M. J. Cupers, R. M. Bertina, and H. L. Vos The Constitutive Expression of Anticoagulant Protein S Is Regulated through Multiple Binding Sites for Sp1 and Sp3 Transcription Factors in the Protein S Gene Promoter J. Biol. Chem., June 30, 2006; 281(26): 17635 - 17643. [Abstract] [Full Text] [PDF] |
||||
![]() |
H. D. Dufour, Z. Chettouh, C. Deyts, R. de Rosa, C. Goridis, J.-S. Joly, and J.-F. Brunet Precraniate origin of cranial motoneurons PNAS, June 6, 2006; 103(23): 8727 - 8732. [Abstract] [Full Text] [PDF] |
||||
![]() |
J. R. Purdue, T. K. Oleksyk, and M. H. Smith Independent Occurrences of Multiple Repeats in the Control Region of Mitochondrial DNA of White-Tailed Deer J. Hered., May 1, 2006; 97(3): 235 - 243. [Abstract] [Full Text] [PDF] |
||||
![]() |
J. H. Thomas Concerted Evolution of Two Novel Protein Families in Caenorhabditis Species Genetics, April 1, 2006; 172(4): 2269 - 2281. [Abstract] [Full Text] [PDF] |
||||
![]() |
P.-Y. Mantel, N. Ouaked, B. Ruckert, C. Karagiannidis, R. Welz, K. Blaser, and C. B. Schmidt-Weber Molecular Mechanisms Underlying FOXP3 Induction in Human T Cells J. Immunol., March 15, 2006; 176(6): 3593 - 3602. [Abstract] [Full Text] [PDF] |
||||
![]() |
W. Huang, D. M. Umbach, and L. Li Accurate anchoring alignment of divergent sequences Bioinformatics, January 1, 2006; 22(1): 29 - 34. [Abstract] [Full Text] [PDF] |
||||
![]() |
E. A. Grice, E. S. Rochelle, E. D. Green, A. Chakravarti, and A. S. McCallion Evaluation of the RET regulatory landscape reveals the biological relevance of a HSCR-implicated enhancer Hum. Mol. Genet., December 15, 2005; 14(24): 3837 - 3845. [Abstract] [Full Text] [PDF] |
||||
![]() |
J.-R. Landry, S. Kinston, K. Knezevic, I. J. Donaldson, A. R. Green, and B. Gottgens Fli1, Elf1, and Ets1 regulate the proximal promoter of the LMO2 gene in endothelial cells Blood, October 15, 2005; 106(8): 2680 - 2687. [Abstract] [Full Text] [PDF] |
||||
![]() |
H.-P. Kim, B.-G. Kim, J. Letterio, and W. J. Leonard Smad-dependent Cooperative Regulation of Interleukin 2 Receptor {alpha} Chain Gene Expression by T Cell Receptor and Transforming Growth Factor-{beta} J. Biol. Chem., October 7, 2005; 280(40): 34042 - 34047. [Abstract] [Full Text] [PDF] |
||||
![]() |
F. M. Pauler, S. H. Stricker, K. E. Warczok, and D. P. Barlow Long-range DNase I hypersensitivity mapping reveals the imprinted Igf2r and Air promoters share cis-regulatory elements Genome Res., October 1, 2005; 15(10): 1379 - 1387. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. L. Sabol, H. B. Brewer Jr., and S. Santamarina-Fojo The human ABCG1 gene: identification of LXR response elements that modulate expression in macrophages and liver J. Lipid Res., October 1, 2005; 46(10): 2151 - 2167. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. Siepel, G. Bejerano, J. S. Pedersen, A. S. Hinrichs, M. Hou, K. Rosenbloom, H. Clawson, J. Spieth, L. W. Hillier, S. Richards, et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes Genome Res., August 1, 2005; 15(8): 1034 - 1050. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. Rojas, S. De Val, A. B. Heidt, S.-M. Xu, J. Bristow, and B. L. Black Gata4 expression in lateral mesoderm is downstream of BMP4 and is activated directly by Forkhead and GATA transcription factors through a distal enhancer element Development, August 1, 2005; 132(15): 3405 - 3417. [Abstract] [Full Text] [PDF] |
||||
![]() |
H. Diekmann, M. Klinger, T. Oertle, D. Heinz, H.-M. Pogoda, M. E. Schwab, and C. A. O. Stuermer Analysis of the Reticulon Gene Family Demonstrates the Absence of the Neurite Growth Inhibitor Nogo-A in Fish Mol. Biol. Evol., August 1, 2005; 22(8): 1635 - 1648. [Abstract] [Full Text] [PDF] |
||||
![]() |
G. M. Cooper, E. A. Stone, G. Asimenos, NISC Comparative Sequencing Program, E. D. Green, S. Batzoglou, and A. Sidow Distribution and intensity of constraint in mammalian genomic sequence Genome Res., July 1, 2005; 15(7): 901 - 913. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. J. Rodda, J.-L. Chew, L.-H. Lim, Y.-H. Loh, B. Wang, H.-H. Ng, and P. Robson Transcriptional Regulation of Nanog by OCT4 and SOX2 J. Biol. Chem., July 1, 2005; 280(26): 24731 - 24737. [Abstract] [Full Text] [PDF] |
||||
![]() |
K. S. Pappu, E. J. Ostrin, B. W. Middlebrooks, B. T. Sili, R. Chen, M. R. Atkins, R. Gibbs, and G. Mardon Dual regulation and redundant function of two eye-specific enhancers of the Drosophila retinal determination gene dachshund Development, June 15, 2005; 132(12): 2895 - 2905. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. Negre, S. Casillas, M. Suzanne, E. Sanchez-Herrero, M. Akam, M. Nefedov, A. Barbadilla, P. de Jong, and A. Ruiz Conservation of regulatory sequences and gene expression patterns in the disintegrating Drosophila Hox gene complex Genome Res., May 1, 2005; 15(5): 692 - 700. [Abstract] [Full Text] [PDF] |
||||
![]() |
K. E. Plant, M. J. Dye, C. Lafaille, and N. J. Proudfoot Strong Polyadenylation and Weak Pausing Combine To Cause Efficient Termination of Transcription in the Human G{gamma}-Globin Gene Mol. Cell. Biol., April 15, 2005; 25(8): 3276 - 3285. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. M. Lehman, D.-J. Fu, A. B. Freeman, K. J. Hunt, R. J. Leach, T. Johnson-Pais, J. Hamlington, T. D. Dyer, R. Arya, H. Abboud, et al. A Single Nucleotide Polymorphism in MGEA5 Encoding O-GlcNAc-selective N-Acetyl-{beta}-D Glucosaminidase Is Associated With Type 2 Diabetes in Mexican Americans Diabetes, April 1, 2005; 54(4): 1214 - 1221. [Abstract] [Full Text] [PDF] |
||||
![]() |
E. H. Margulies, J. P. Vinson, NISC Comparative Sequencing Program, W. Miller, D. B. Jaffe, K. Lindblad-Toh, J. L. Chang, E. D. Green, E. S. Lander, J. C. Mullikin, et al. An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing PNAS, March 29, 2005; 102(13): 4795 - 4800. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. A. Hutcheson, M. I. Hanson, K. B. Moore, T. T. Le, N. L. Brown, and M. L. Vetter bHLH-dependent and -independent modes of Ath5 gene regulation during retinal development Development, February 15, 2005; 132(4): 829 - 839. [Abstract] [Full Text] [PDF] |
||||
![]() |
Z.-Y. Wang, H. Sato, S. Kusam, S. Sehra, L. M. Toney, and A. L. Dent Regulation of IL-10 Gene Expression in Th2 Cells by Jun Proteins J. Immunol., February 15, 2005; 174(4): 2098 - 2105. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. L. Martowicz, J. A. Grass, M. E. Boyer, H. Guend, and E. H. Bresnick Dynamic GATA Factor Interplay at a Multicomponent Regulatory Region of the GATA-2 Locus J. Biol. Chem., January 21, 2005; 280(3): 1724 - 1732. [Abstract] [Full Text] [PDF] |
||||
![]() |
I. Ovcharenko, G. G. Loots, B. M. Giardine, M. Hou, J. Ma, R. C. Hardison, L. Stubbs, and W. Miller Mulan: Multiple-sequence local alignment and visualization for studying function and evolution Genome Res., January 1, 2005; 15(1): 184 - 194. [Abstract] [Full Text] [PDF] |
||||
![]() |
J.-Y. Lee, S. F. Baum, J. Alvarez, A. Patel, D. H. Chitwood, and J. L. Bowman Activation of CRABS CLAW in the Nectaries and Carpels of Arabidopsis PLANT CELL, January 1, 2005; 17(1): 25 - 36. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. Bielinska, J. Lu, D. Sturgill, and B. Oliver Core Promoter Sequences Contribute to ovo-B Regulation in the Drosophila melanogaster Germline Genetics, January 1, 2005; 169(1): 161 - 172. [Abstract] [Full Text] [PDF] |
||||
![]() |
J. W. Streb, C. M. Kitchen, I. H. Gelman, and J. M. Miano Multiple Promoters Direct Expression of Three AKAP12 Isoforms with Distinct Subcellular and Tissue Distribution Profiles J. Biol. Chem., December 31, 2004; 279(53): 56014 - 56023. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. L. PHILIPPS, J. W. PARK, and B. R. GRAVELEY A computational and experimental approach toward a priori identification of alternatively spliced exons RNA, December 1, 2004; 10(12): 1838 - 1844. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. B. Kaelin, A. W. Xu, X.-Y. Lu, and G. S. Barsh Transcriptional Regulation of Agouti-Related Protein (Agrp) in Transgenic Mice Endocrinology, December 1, 2004; 145(12): 5798 - 5806. [Abstract] [Full Text] [PDF] |
||||
![]() |
J. P. Noonan, J. Grimwood, J. Danke, J. Schmutz, M. Dickson, C. T. Amemiya, and R. M. Myers Coelacanth genome sequence reveals the evolutionary history of vertebrate genes Genome Res., December 1, 2004; 14(12): 2397 - 2405. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. Premzl, J. E. Gready, L. S. Jermiin, T. Simonic, and J. A. Marshall Graves Evolution of Vertebrate Genes Related to Prion and Shadoo Proteins--Clues from Comparative Genomic Analysis Mol. Biol. Evol., December 1, 2004; 21(12): 2210 - 2231. [Abstract] [Full Text] [PDF] |
||||
![]() |
V. Valverde-Garduno, B. Guyot, E. Anguita, I. Hamlett, C. Porcher, and P. Vyas Differences in the chromatin structure and cis-element organization of the human and mouse GATA1 loci: implications for cis-element identification Blood, November 15, 2004; 104(10): 3106 - 3116. [Abstract] [Full Text] [PDF] |
||||
![]() |
S.-H. Im, A. Hueber, S. Monticelli, K.-H. Kang, and A. Rao Chromatin-level Regulation of the IL10 Gene in T Cells J. Biol. Chem., November 5, 2004; 279(45): 46818 - 46825. [Abstract] [Full Text] [PDF] |
||||
![]() |
E. Dodou, M. P. Verzi, J. P. Anderson, S.-M. Xu, and B. L. Black Mef2c is a direct transcriptional target of ISL1 and GATA factors in the anterior heart field during mouse embryonic development Development, August 15, 2004; 131(16): 3931 - 3942. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. Pal, M. J. Nemeth, D. Bodine, J. L. Miller, J. Svaren, S. L. Thein, P. J. Lowry, and E. H. Bresnick Neurokinin-B Transcription in Erythroid Cells: DIRECT ACTIVATION BY THE HEMATOPOIETIC TRANSCRIPTION FACTOR GATA-1 J. Biol. Chem., July 23, 2004; 279(30): 31348 - 31356. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. Kurokawa, N. Takasaki, H. Kiyonari, R. Nakayama, C. Kimura-Yoshida, I. Matsuo, and S. Aizawa Regulation of Otx2 expression and its functions in mouse epiblast and anterior neuroectoderm Development, July 15, 2004; 131(14): 3307 - 3317. [Abstract] [Full Text] [PDF] |
||||
![]() |
C. J. Hatcher, N. Y.S.-G. Diman, M.-S. Kim, D. Pennisi, Y. Song, M. M. Goldstein, T. Mikawa, and C. T. Basson A role for Tbx5 in proepicardial cell migration during cardiogenesis Physiol Genomics, July 8, 2004; 18(2): 129 - 140. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. Palsson, A. Rouse, R. Riley-Berger, I. Dworkin, and G. Gibson Nucleotide Variation in the Egfr Locus of Drosophila melanogaster Genetics, July 1, 2004; 167(3): 1199 - 1212. [Abstract] [Full Text] [PDF] |
||||
![]() |
K. A. Frazer, L. Pachter, A. Poliakov, E. M. Rubin, and I. Dubchak VISTA: computational tools for comparative genomics Nucleic Acids Res., July 1, 2004; 32(suppl_2): W273 - W279. [Abstract] [Full Text] [PDF] |
||||
![]() |
I. Ovcharenko, M. A. Nobrega, G. G. Loots, and L. Stubbs ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes Nucleic Acids Res., July 1, 2004; 32(suppl_2): W280 - W286. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. Zuniga, O. Michos, F. Spitz, A.-P. G. Haramis, L. Panman, A. Galli, K. Vintersten, C. Klasen, W. Mansfield, S. Kuc, et al. Mouse limb deformity mutations disrupt a global control region within the large regulatory landscape required for Gremlin expression Genes & Dev., July 1, 2004; 18(13): 1553 - 1564. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. P. Hardy and L. A. J. O'Neill The Murine Irak2 Gene Encodes Four Alternatively Spliced Isoforms, Two of Which Are Inhibitory J. Biol. Chem., June 25, 2004; 279(26): 27699 - 27708. [Abstract] [Full Text] [PDF] |
||||
![]() |
I. Ovcharenko, D. Boffelli, and G. G. Loots eShadow: A Tool for Comparing Closely Related Sequences Genome Res., June 1, 2004; 14(6): 1191 - 1198. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. T. MacDonald, M. Adamska, and M. H. Meisler Hypomorphic expression of Dkk1 in the doubleridge mouse: dose dependence and compensatory interactions with Lrp6 Development, June 1, 2004; 131(11): 2543 - 2552. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. B. Montgomery, T. Astakhova, M. Bilenky, E. Birney, T. Fu, M. Hassel, C. Melsopp, M. Rak, A. G. Robertson, M. Sleumer, et al. Sockeye: A 3D Environment for Comparative Genomics Genome Res., May 1, 2004; 14(5): 956 - 962. [Abstract] [Full Text] [PDF] |
||||
![]() |
Y. Wang, B. Jones Voy, S. Urs, S. Kim, M. Soltani-Bejnood, N. Quigley, Y.-R. Heo, M. Standridge, B. Andersen, M. Dhar, et al. The Human Fatty Acid Synthase Gene and De Novo Lipogenesis Are Coordinately Regulated in Human Adipose Tissue J. Nutr., May 1, 2004; 134(5): 1032 - 1038. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. Hou, M. Eren, C. A. Painter, J. W. Covington, J. D. Dixon, J. A. Schoenhard, and D. E. Vaughan Tumor Necrosis Factor {alpha} Activates the Human Plasminogen Activator Inhibitor-1 Gene through a Distal Nuclear Factor {kappa}B Site J. Biol. Chem., April 30, 2004; 279(18): 18127 - 18136. [Abstract] [Full Text] [PDF] |
||||
![]() |
T. J. Nelson, S. A. Duncan, and R. P. Misra Conserved Enhancer in the Serum Response Factor Promoter Controls Expression During Early Coronary Vasculogenesis Circ. Res., April 30, 2004; 94(8): 1059 - 1066. [Abstract] [Full Text] [PDF] |
||||
![]() |
K. L. Abrams, J. Xu, C. Nativelle-Serpentini, S. Dabirshahsahebi, and M. B. Rogers An Evolutionary and Molecular Analysis of Bmp2 Expression J. Biol. Chem., April 16, 2004; 279(16): 15916 - 15928. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. Sevetson, S. Taylor, and Y. Pan Cbfa1/RUNX2 Directs Specific Expression of the Sclerosteosis Gene (SOST) J. Biol. Chem., April 2, 2004; 279(14): 13849 - 13858. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. Brudno, A. Poliakov, A. Salamov, G. M. Cooper, A. Sidow, E. M. Rubin, V. Solovyev, S. Batzoglou, and I. Dubchak Automated Whole-Genome Multiple Alignment of Rat, Mouse, and Human Genome Res., April 1, 2004; 14(4): 685 - 692. [Abstract] [Full Text] [PDF] |
||||
![]() |
I. Ovcharenko, G. G. Loots, R. C. Hardison, W. Miller, and L. Stubbs zPicture: Dynamic Alignment and Visualization Tool for Analyzing Conservation Profiles Genome Res., March 1, 2004; 14(3): 472 - 477. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. U. Lee, O. Avni, L. Chen, and A. Rao A Distal Enhancer in the Interferon-{gamma} (IFN-{gamma}) Locus Revealed by Genome Sequence Comparison J. Biol. Chem., February 6, 2004; 279(6): 4802 - 4810. [Abstract] [Full Text] [PDF] |
||||
![]() |
I. A. Barash, L. Mathew, A. F. Ryan, J. Chen, and R. L. Lieber Rapid muscle-specific gene expression changes after a single bout of eccentric contractions in the mouse Am J Physiol Cell Physiol, February 1, 2004; 286(2): C355 - C364. [Abstract] [Full Text] |
||||
![]() |
R. M. Clark, E. Linton, J. Messing, and J. F. Doebley Inaugural Article: Pattern of diversity in the genomic region near the maize domestication gene tb1 PNAS, January 20, 2004; 101(3): 700 - 707. [Abstract] [Full Text] [PDF] |
||||
![]() |
P. Castronuevo, M. A. Thornton, L. E. McCarthy, J. Klimas, and B. P. Schick DNase I Hypersensitivity Patterns of the Serglycin Proteoglycan Gene in Resting and Phorbol 12-Myristate 13-Acetate-stimulated Human Erythroleukemia (HEL), CHRF 288-11, and HL-60 Cells Compared with Neutrophils and Human Umbilical Vein Endothelial Cells J. Biol. Chem., December 5, 2003; 278(49): 48704 - 48712. [Abstract] [Full Text] [PDF] |
||||































