Organization of the 3'-boundary of the chicken alpha globin gene domain and characterization of a CR 1-specific protein binding site.

abstract：:Heat shock genes are activated by the binding of the heat shock transcription factor (HSF) to heat shock elements (HSEs), consisting of arrays of the 5-bp unit NGAAN arranged as inverted repeats. Here, we have investigated the interaction of the 5-bp unit with HSFs of Drosophila and Saccharomyces. Mutations within the...

journal_title：Nucleic acids research

authors： Fernandes M,Xiao H,Lis JT

更新日期：1994-01-25 00:00:00

abstract：:THY Pol-2 intein, from Thermococcus hydrothermalis, belongs to the same allelic family as TLI Pol-2 (PI-TLII), Tfu Pol-2 (PI-TFUII) and TspTY Pol-3 mini-intein, all inserted at the pol-c site of archaeal DNA polymerase genes. This new intein was cloned, expressed in Escherichia coli and purified. The intein is a speci...

journal_title：Nucleic acids research

authors： Saves I,Eleaume H,Dietrich J,Masson JM

更新日期：2000-11-01 00:00:00

abstract：:We have constructed a complete, five-enzyme restriction map of the genome of the archaeon Halobacterium sp. GRB, based on a set of 84 overlapping cosmid clones. Fewer than 30 kbp, in three gaps, remain uncloned. The genome consists of five replicons: a chromosome (2038 kbp) and four plasmids (305, 90, 37, and 1.8 kbp)...

journal_title：Nucleic acids research

authors： St Jean A,Trieselmann BA,Charlebois RL

更新日期：1994-04-25 00:00:00

abstract：:The heterodimeric subunit, SRP9/14, of the signal recognition particle (SRP) has previously been found to bind to scAlu and scB1 RNAs in vitro and to exist in large excess over SRP in anthropoid cells. Here we show that human and mouse SRP9/14 bind with high affinities to other Alu-like RNAs of different evolutionary ...

journal_title：Nucleic acids research

authors： Bovia F,Wolff N,Ryser S,Strub K

更新日期：1997-01-15 00:00:00

abstract：:Differential expression analysis of RNA sequencing (RNA-seq) data typically relies on reconstructing transcripts or counting reads that overlap known gene structures. We previously introduced an intermediate statistical approach called differentially expressed region (DER) finder that seeks to identify contiguous regi...

journal_title：Nucleic acids research

authors： Collado-Torres L,Nellore A,Frazee AC,Wilks C,Love MI,Langmead B,Irizarry RA,Leek JT,Jaffe AE

更新日期：2017-01-25 00:00:00

abstract：:Wild type p53 assembles into a latent multiprotein complex which can be activated for sequence-specific DNA binding in vitro by proteins targeting the carboxy-terminal domain. Using an optimized system coupling the post-translational modification of wild type p53 to activation of sequence specific DNA binding, we exam...

journal_title：Nucleic acids research

authors： Hupp TR,Meek DW,Midgley CA,Lane DP

更新日期：1993-07-11 00:00:00

abstract：:The frequency occurrences of K-tuple (overlapping sequences of defined length, K) were computed from the known human genome sequences. The significance of these frequencies for the whole human genome was tested by polymerase chain reaction (PCR). A computer programs based on these results was written to choose primers...

journal_title：Nucleic acids research

authors： Griffais R,André PM,Thibon M

更新日期：1991-07-25 00:00:00

abstract：:Dlx homeobox genes are first expressed in embryonic retina at E11.5. The Dlx1/Dlx2 null retina has a reduced ganglion cell layer (GCL), with loss of late-born differentiated retinal ganglion cells (RGCs) due to increased apoptosis. TrkB signaling is proposed to regulate the dynamics of RGC apoptosis throughout develop...

journal_title：Nucleic acids research

authors： de Melo J,Zhou QP,Zhang Q,Zhang S,Fonseca M,Wigle JT,Eisenstat DD

更新日期：2008-02-01 00:00:00

abstract：:We have isolated the gene coding for the U2 analogue in trypanosomes. The 148 nucleotide long U2 RNA is capped and transcribed from a single copy gene. The 5' half of the molecule is highly homologous to mammalian U2 RNA, while the 3' half does not show any significant sequence homology with the mammalian counterpart....

journal_title：Nucleic acids research

authors： Tschudi C,Richards FF,Ullu E

更新日期：1986-11-25 00:00:00

abstract：:Linear motifs are short, evolutionarily plastic components of regulatory proteins and provide low-affinity interaction interfaces. These compact modules play central roles in mediating every aspect of the regulatory functionality of the cell. They are particularly prominent in mediating cell signaling, controlling pro...

journal_title：Nucleic acids research

authors： Dinkel H,Michael S,Weatheritt RJ,Davey NE,Van Roey K,Altenberg B,Toedt G,Uyar B,Seiler M,Budd A,Jödicke L,Dammert MA,Schroeter C,Hammer M,Schmidt T,Jehl P,McGuigan C,Dymecka M,Chica C,Luck K,Via A,Chatr-Aryamont

更新日期：2012-01-01 00:00:00

abstract：:The sequences coding for DNA[cytosine-N4]methyltransferases MvaI (from Micrococcus varians RFL19) and Cfr9I (from Citrobacter freundii RFL9) have been determined. The predicted methylases are proteins of 454 and 300 amino acids, respectively. Primary structure comparison of M.Cfr9I and another m4C-forming methylase, M...

journal_title：Nucleic acids research

authors： Klimasauskas S,Timinskas A,Menkevicius S,Butkienè D,Butkus V,Janulaitis A

更新日期：1989-12-11 00:00:00

abstract：:A cDNA that encodes a transcription factor able to recognize the thyroglobulin gene promoter in vitro was isolated from a dog thyroid cDNA expression library in lambda gt11. The library was screened with a multimerized 20 bp-oligonucleotide probe corresponding to the -126 to -107 bp region of the bovine thyroglobulin ...

journal_title：Nucleic acids research

authors： Javaux F,Donda A,Vassart G,Christophe D

更新日期：1991-03-11 00:00:00

abstract：:By in vivo DMS footprint and reporter gene analyses we identified two transcription factor binding sites in the human c-sis/PDGF B gene promoter. The low basal activity of the PDGF B promoter in HeLa and undifferentiated K562 cells, which express low PDGF B mRNA levels, and in PC3 cells, which express a high PDGF B mR...

journal_title：Nucleic acids research

authors： Dirks RP,Jansen HJ,van Gerven B,Onnekink C,Bloemers HP

更新日期：1995-04-11 00:00:00

abstract：:The transcription activator-like effectors (TALEs) and the RNA-guided clustered regularly interspaced short palindromic repeat (CRISPR) associated protein (Cas9) utlilize distinct molecular mechanisms in targeting site recognition. The two proteins can be modified to carry additional functional domains to regulate exp...

journal_title：Nucleic acids research

authors： Gao X,Tsang JC,Gaba F,Wu D,Lu L,Liu P

更新日期：2014-11-10 00:00:00

abstract：:Basic region-leucine zipper (B-ZIP) proteins are a class of dimeric sequence-specific DNA-binding proteins unique to eukaryotes. We have identified 67 B-ZIP proteins in the Arabidopsis thaliana genome. No A.thaliana B-ZIP domains are homologous with any Homo sapiens B-ZIP domains. Here, we predict the dimerization spe...

journal_title：Nucleic acids research

authors： Deppmann CD,Acharya A,Rishi V,Wobbes B,Smeekens S,Taparowsky EJ,Vinson C

更新日期：2004-06-29 00:00:00

abstract：:NELF and DSIF act together to inhibit transcription elongation in vitro, and are implicated in causing promoter proximal pausing on the hsp70 gene in Drosophila. Here, further characterization of Drosophila NELF is provided. Drosophila NELF has four subunits similar to subunits of human NELF. The amino acid sequences ...

journal_title：Nucleic acids research

authors： Wu CH,Lee C,Fan R,Smith MJ,Yamaguchi Y,Handa H,Gilmour DS

更新日期：2005-03-01 00:00:00

abstract：:Primer design is a fundamental technique that is widely used for polymerase chain reaction (PCR). Although many methods have been proposed for primer design, they require a great deal of manual effort to generate feasible and valid primers, including homology tests on off-target sequences using BLAST-like tools. That ...

journal_title：Nucleic acids research

authors： Kim H,Kang N,Chon KW,Kim S,Lee N,Koo J,Kim MS

更新日期：2015-11-16 00:00:00

abstract：:African trypanosomes are extracellular protozoan parasites that are transmitted from one mammalian host to the next by tsetse flies. Bloodstream forms express variant surface glycoprotein (VSG); the tsetse fly (procyclic) forms express instead the procyclic acidic repetitive protein (PARP). PARP mRNA is abundant in pr...

journal_title：Nucleic acids research

authors： Biebinger S,Rettenmaier S,Flaspohler J,Hartmann C,Peña-Diaz J,Wirtz LE,Hotz HR,Barry JD,Clayton C

更新日期：1996-04-01 00:00:00

abstract：:Nuclear factor I (NFI) is a site-specific DNA binding protein required for the replication of adenovirus type 2 DNA in vitro and in vivo. To study sequence requirements for the interaction of NFI with DNA, we have measured the binding of the protein to a variety of synthetic sites. Binding sites for NFI (FIB sites) we...

journal_title：Nucleic acids research

authors： Gronostajski RM

更新日期：1987-07-24 00:00:00

abstract：:The design and synthesis of metal complexes that can specifically target DNA secondary structure has attracted considerable attention. Chiral metallosupramolecular complexes (e.g. helicates) in particular display unique DNA-binding behavior, however until recently few examples which are both water-compatible and enant...

journal_title：Nucleic acids research

authors： Zhao A,Howson SE,Zhao C,Ren J,Scott P,Wang C,Qu X

更新日期：2017-05-19 00:00:00

abstract：:The crystal structure of the RNA/DNA hybrid r(GAAGAGAAGC). d(GCTTCTCTTC) has been solved and refined at 2.5 A resolution. The refinement procedure converged at R = 0.181 for all reflections in the range 20.0-2.5 A. In the crystal, the RNA/DNA hybrid duplex has an A' conformation with all but one of the nucleotide suga...

journal_title：Nucleic acids research

authors： Conn GL,Brown T,Leonard GA

更新日期：1999-01-15 00:00:00

abstract：:Melting of DNA in a segment bounded at both ends by regions of greater stability during electrophoresis in denaturing gradient gels show complex properties, not accommodated with standard melting theory. Compact bands of some DNA molecules become anomalously broadened at the retardation level in a denaturing gradient,...

journal_title：Nucleic acids research

authors： Abrams ES,Murdaugh SE,Lerman LS

更新日期：1995-07-25 00:00:00

abstract：:The dynamic topological structure of telomeric DNA is closely related to its biological function; however, no such structural information on full-length telomeric DNA has been reported due to difficulties synthesizing long double-stranded telomeric DNA. Herein, we developed an EM-PCR and TA cloning-based approach to s...

journal_title：Nucleic acids research

authors： Zhang X,Zhang Y,Zhang W

更新日期：2020-07-09 00:00:00

abstract：:RNA polymerase (RNAP) is a major target of gene regulation. Thermus thermophilus bacteriophage P23-45 encodes two RNAP binding proteins, gp39 and gp76, which shut off host gene transcription while allowing orderly transcription of phage genes. We previously reported the structure of the T. thermophilus RNAP•σA holoenz...

journal_title：Nucleic acids research

authors： Ooi WY,Murayama Y,Mekler V,Minakhin L,Severinov K,Yokoyama S,Sekine SI

更新日期：2018-01-09 00:00:00

abstract：:For sophisticated gene targeting procedures requiring two sequential selective steps to operate efficiently it is essential that the marker genes used are not prone to position effects. The double replacement gene targeting procedure, to produce mice with subtle gene alterations, is based on the use of hypoxanthine ph...

journal_title：Nucleic acids research

authors： Melton DW,Ketchen AM,Selfridge J

更新日期：1997-10-01 00:00:00

abstract：:Alternative splicing constitutes a major mechanism creating protein diversity in humans. This diversity can result from the alternative skipping of entire exons or by alternative selection of the 5' or 3' splice sites that define the exon boundaries. In this study, we analyze the sequence and evolutionary characterist...

journal_title：Nucleic acids research

authors： Akerman M,Mandel-Gutfreund Y

更新日期：2007-01-01 00:00:00

abstract：:Here, with the aim of obtaining insight into the intriguing selectivity of G-quadruplex (G4) ligands toward cancer compared to normal cells, a genetically controlled system of progressive transformation in human BJ fibroblasts was analyzed. Among the different comparative evaluations, we found a progressive increase o...

journal_title：Nucleic acids research

authors： Salvati E,Rizzo A,Iachettini S,Zizza P,Cingolani C,D'Angelo C,Porru M,Mondello C,Aiello A,Farsetti A,Gilson E,Leonetti C,Biroccio A

更新日期：2015-02-18 00:00:00

abstract：:The cDNA of human DNA polymerase delta was cloned. The cDNA had a length of 3.5 kb and encoded a protein of 1107 amino acid residues with a calculated molecular mass of 124 kDa. Northern blot analysis showed that the cDNA hybridized to a mRNA of 3.4 kb. Monoclonal and polyclonal antibodies to the C-terminal 20 residue...

journal_title：Nucleic acids research

authors： Yang CL,Chang LS,Zhang P,Hao H,Zhu L,Toomey NL,Lee MY

更新日期：1992-02-25 00:00:00

abstract：:A straightforward enzymatic protocol for converting regular DNA into pseudo-complementary DNA could improve the performance of oligonucleotide microarrays by generating readily hybridizable structure-free targets. Here we screened several highly destabilizing analogs of G and C for one that could be used with 2-aminoa...

journal_title：Nucleic acids research

authors： Lahoud G,Timoshchuk V,Lebedev A,Arar K,Hou YM,Gamper H

更新日期：2008-12-01 00:00:00

abstract：:G-quadruplex (G4) DNA structures can form physical barriers within the genome that must be unwound to ensure cellular genomic integrity. Here, we report unanticipated roles for the Escherichia coli Rep helicase and RecA recombinase in tolerating toxicity induced by G4-stabilizing ligands in vivo. We demonstrate that R...

journal_title：Nucleic acids research

authors： Paul T,Voter AF,Cueny RR,Gavrilov M,Ha T,Keck JL,Myong S

更新日期：2020-07-09 00:00:00