Models for prediction and recognition of eukaryotic promoters
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[1] R Staden. Computer methods to locate signals in nucleic acid sequences , 1984, Nucleic Acids Res..
[2] Jean-Michel Claverie,et al. Assessing the biological significance of primary structure consensus patterns using sequence databanks. I. Heat-shock and glucocorticoid control elements in eukaryotic promoters , 1985, Comput. Appl. Biosci..
[3] G. Stormo,et al. Identifying protein-binding sites from unaligned DNA fragments. , 1989, Proceedings of the National Academy of Sciences of the United States of America.
[4] H. Stunnenberg,et al. Repression of transcription mediated at a thyroid hormone response element by the v-erb-A oncogene product , 1989, Nature.
[5] P. Bucher. Weight matrix descriptions of four eukaryotic RNA polymerase II promoter elements derived from 502 unrelated promoter sequences. , 1990, Journal of molecular biology.
[6] R. Conaway,et al. Initiation of eukaryotic messenger RNA synthesis. , 1991, The Journal of biological chemistry.
[7] S. McKnight,et al. Anatomy of an enhancer , 1992 .
[8] David Ghosh,et al. Status of the transcription factors database (TFD) , 1993, Nucleic Acids Res..
[9] J. Alwine,et al. Transcriptional activation by simian virus 40 large T antigen: requirements for simple promoter structures containing either TATA or initiator elements with variable upstream factor binding sites , 1993, Journal of virology.
[10] Y. Capetanaki,et al. An E box in the desmin promoter cooperates with the E box and MEF‐2 sites of a distal enhancer to direct muscle‐specific transcription. , 1994, The EMBO journal.
[11] Akinori Yonezawa,et al. RNA secondary structure prediction using highly parallel computers , 1995, Comput. Appl. Biosci..
[12] E. Wingender,et al. A compilation of composite regulatory elements affecting gene transcription in vertebrates. , 1995, Nucleic acids research.
[13] D. Reinberg,et al. Common themes in assembly and function of eukaryotic transcription complexes. , 1995, Annual review of biochemistry.
[14] Gary D. Stormo,et al. MATRIX SEARCH 1.0: a computer program that scans DNA sequences for transcriptional elements using a database of weight matrices , 1995, Comput. Appl. Biosci..
[15] J. Manley,et al. Cooperation between core promoter elements influences transcriptional activity in vivo. , 1995, Proceedings of the National Academy of Sciences of the United States of America.
[16] T. Werner,et al. MatInd and MatInspector: new fast and versatile tools for detection of consensus matches in nucleotide sequence data. , 1995, Nucleic acids research.
[17] A. Ruddell. Transcription regulatory elements of the avian retroviral long terminal repeat. , 1995, Virology.
[18] K Rippe,et al. Action at a distance: DNA-looping and initiation of transcription. , 1995, Trends in biochemical sciences.
[19] G. Stein,et al. Contributions of nuclear architecture to transcriptional control. , 1995, International review of cytology.
[20] J. Roberts,et al. Corticotropin-releasing hormone stimulates proopiomelanocortin transcription by cFos-dependent and -independent pathways: characterization of an AP1 site in exon 1. , 1995, Molecular endocrinology.
[21] D J Shapiro,et al. Intrinsically Bent DNA in a Eukaryotic Transcription Factor Recognition Sequence Potentiates Transcription Activation (*) , 1995, The Journal of Biological Chemistry.
[22] M. Busslinger,et al. Transcriptional activation of the fra-1 gene by AP-1 is mediated by regulatory sequences in the first intron , 1995, Molecular and cellular biology.
[23] D A Nielsen,et al. SSCP primer design based on single-strand DNA structure predicted by a DNA folding program. , 1995, Nucleic acids research.
[24] Thomas Werner,et al. GenomeInspector: a new approach to detect correlation patterns of elements on genomic sequences , 1996, Comput. Appl. Biosci..
[25] A. Usheva,et al. YY1 transcriptional initiator: protein interactions and association with a DNA site containing unpaired strands. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[26] K Frech,et al. Common modular structure of lentivirus LTRs. , 1996, Virology.
[27] M. Shago,et al. Isolation of a novel retinoic acid-responsive gene by selection of genomic fragments derived from CpG-island-enriched DNA , 1996, Molecular and cellular biology.
[28] A. Roy,et al. Core promoters and transcriptional control. , 1996, Trends in genetics : TIG.
[29] J. Fickett. Coordinate positioning of MEF2 and myogenin binding sites. , 1996, Gene.
[30] T. Boulikas,et al. Common structural features of replication origins in all life forms , 1996, Journal of cellular biochemistry.
[31] E. Davidson,et al. Modular cis-regulatory organization of developmentally expressed genes: two genes transcribed territorially in the sea urchin embryo, and additional examples. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[32] L. Freedman,et al. AP-1 regulation of the rat bone sialoprotein gene transcription is mediated through a TPA response element within a glucocorticoid response unit in the gene promoter. , 1996, Matrix biology : journal of the International Society for Matrix Biology.
[33] T. Werner,et al. GenomeInspector: basic software tools for analysis of spatial correlations between genomic structures within megabase sequences. , 1996, Genomics.
[34] R. Kraus,et al. Experimentally determined weight matrix definitions of the initiator and TBP binding site elements of promoters. , 1996, Nucleic acids research.
[35] K. Rhee,et al. Glucocorticoid regulation of a transcription factor that binds an initiator-like element in the murine thymidine kinase (Tk-1) promoter. , 1996, Molecular endocrinology.
[36] M. Montminy. Transcriptional activation: Something new to hang your HAT on , 1997, Nature.
[37] J. Fickett,et al. Eukaryotic promoter recognition. , 1997, Genome research.
[38] M. Garcia-Blanco,et al. TAR RNA decoys inhibit tat-activated HIV-1 transcription after preinitiation complex formation. , 1997, Nucleic acids research.
[39] K Frech,et al. Software for the analysis of DNA sequence elements of transcription , 1997, Comput. Appl. Biosci..
[40] P Cramer,et al. Functional association between promoter structure and transcript alternative splicing. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[41] V. Higgins,et al. Tandemly Repeated 147 bp Elements Cause Structural and Functional Variation in Divergent MAL Promoters of Saccharomyces cerevisiae , 1997, Yeast.
[42] J. Claverie. Computational methods for the identification of genes in vertebrate genomic sequences. , 1997, Human molecular genetics.
[43] N. Nomura,et al. Prediction of the coding sequences of unidentified human genes. VII. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. , 1997, DNA research : an international journal for rapid publication of reports on genes and genomes.
[44] Y. Murakami,et al. Expression Profiles of Transcripts from 126 Open Reading Frames in the Entire Chromosome VI of Saccharomyces cerevisiae by Systematic Northern Analyses , 1997, Yeast.
[45] K Frech,et al. Specific modelling of regulatory units in DNA sequences. , 1997, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.
[46] F. Robert,et al. RAP74 induces promoter contacts by RNA polymerase II upstream and downstream of a DNA bend centered on the TATA box. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[47] A Renner,et al. RNA structures and folding: from conventional to new issues in structure predictions. , 1997, Current opinion in structural biology.
[48] E. Davidson,et al. The hardwiring of development: organization and function of genomic regulatory systems. , 1997, Development.
[49] R. Tjian,et al. Mechanisms of transcriptional activation: differences and similarities between yeast, Drosophila, and man. , 1997, Current opinion in genetics & development.
[50] C Gaspin,et al. ESSA: an integrated and interactive computer tool for analysing RNA secondary structure. , 1997, Nucleic acids research.
[51] E. Olson,et al. Modular regulation of muscle gene transcription: a mechanism for muscle cell diversity. , 1997, Trends in genetics : TIG.
[52] C. Glass,et al. Nuclear integration of JAK/STAT and Ras/AP-1 signaling by CBP and p300. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[53] T. Werner,et al. Finding protein-binding sites in DNA sequences: the next generation. , 1997, Trends in biochemical sciences.
[54] T. Werner,et al. A novel method to develop highly specific models for regulatory units detects a new LTR in GenBank which contains a functional promoter. , 1997, Journal of molecular biology.
[55] Substitution of just five nucleotides at and around the transcription start site of rat β‐actin promoter is sufficient to render the resulting transcript a subject for translational control , 1997, FEBS letters.
[56] J. Stamatoyannopoulos,et al. Sheltering of gamma-globin expression from position effects requires both an upstream locus control region and a regulatory element 3' to the A gamma-globin gene , 1997, Molecular and cellular biology.
[57] R. Zarnegar,et al. A novel transcriptional regulatory region within the core promoter of the hepatocyte growth factor gene is responsible for its inducibility by cytokines via the C/EBP family of transcription factors , 1997, Molecular and cellular biology.
[58] P. Bucher,et al. Searching for regulatory elements in human noncoding sequences. , 1997, Current opinion in structural biology.
[59] N. Nomura,et al. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. , 1998, DNA research : an international journal for rapid publication of reports on genes and genomes.
[60] J. Fickett,et al. Identification of regulatory regions which confer muscle-specific gene expression. , 1998, Journal of molecular biology.
[61] Philipp Bucher,et al. The Eukaryotic Promoter Database EPD , 1998, Nucleic Acids Res..
[62] T. Heinemeyer,et al. Databases on transcriptional regulation: TRANSFAC, TRRD and COMPEL , 1998, Nucleic Acids Res..
[63] Thomas Werner,et al. Muscle actin genes: A first step towards computational classification of tissue specific promoters , 1998, Silico Biol..
[64] G. Lavorgna,et al. Detection of potential target genes in silico? , 1998, Trends in Genetics.
[65] C. Glass,et al. Transcription factor-specific requirements for coactivators and their acetyltransferase functions. , 1998, Science.
[66] G. Crabtree,et al. Architectural DNA binding by a high-mobility-group/kinesin-like subunit in mammalian SWI/SNF-related complexes. , 1998, Proceedings of the National Academy of Sciences of the United States of America.