A Cas9-based toolkit to program gene expression in Saccharomyces cerevisiae.

abstract：:To successfully infect plants, viruses must counteract small RNA-based host defense responses. During infection of Arabidopsis, Cauliflower mosaic pararetrovirus (CaMV) is transcribed into pregenomic 35S and subgenomic 19S RNAs. The 35S RNA is both reverse transcribed and also used as an mRNA with highly structured 60...

journal_title：Nucleic acids research

authors： Blevins T,Rajeswaran R,Aregger M,Borah BK,Schepetilnikov M,Baerlocher L,Farinelli L,Meins F Jr,Hohn T,Pooggin MM

更新日期：2011-07-01 00:00:00

abstract：:Holliday junctions (four-way DNA junctions), formed during homologous recombination, are bound and resolved by junction-specific endonucleases to yield recombinant duplex DNA products. The junction-resolving enzymes are a structurally diverse class of proteins that nevertheless have many properties in common; in parti...

journal_title：Nucleic acids research

authors： White MF,Lilley DM

更新日期：1998-12-15 00:00:00

abstract：:The nuclear receptor vitamin D receptor (VDR) is known to associate with two vitamin D response element (VDRE) containing chromatin regions of the insulin-like growth factor binding protein 3 (IGFBP3) gene. In non-malignant MCF-10A human mammary cells, we show that the natural VDR ligand 1α,25-dihydroxyvitamin D(3) (1...

journal_title：Nucleic acids research

authors： Malinen M,Ryynänen J,Heinäniemi M,Väisänen S,Carlberg C

更新日期：2011-01-01 00:00:00

abstract：:We have overproduced and purified wild type regA protein, a translational repressor encoded by bacteriophage T4. The repressor activity of the cloned regA protein has been tested on four known regA target genes (T4 genes: 44, 45, rpbA and regA) using in vitro coupled transcription-translation reactions. We have demons...

journal_title：Nucleic acids research

authors： Webster KR,Adari HY,Spicer EK

更新日期：1989-12-11 00:00:00

abstract：:The nucleotide sequence of the celD gene, encoding the previously crystallized endoglucanase D of Clostridium thermocellum, is reported. The enzyme shares a conserved, reiterated domain with the COOH-terminal end of endoglucanases A and B from the same organism. The overexpression in Escherichia coli of celD subcloned...

journal_title：Nucleic acids research

authors： Joliff G,Béguin P,Aubert JP

更新日期：1986-11-11 00:00:00

abstract：:Peptidome similarity analysis enables researchers to gain insights into differential peptide profiles, providing a robust tool to discriminate strain-specific peptides, true intra-species differences among biological replicates or even microorganism-phenotype variations. However, no in silico peptide fingerprinting so...

journal_title：Nucleic acids research

authors： Blanco-Míguez A,Fdez-Riverola F,Lourenço A,Sánchez B

更新日期：2017-07-03 00:00:00

abstract：:Apicoplast, an essential organelle of human malaria parasite Plasmodium falciparum contains a ∼35 kb circular genome and is a possible target for therapy. Proteins required for the replication and maintenance of the apicoplast DNA are not clearly known. Here we report the presence of single-stranded DNA binding protei...

journal_title：Nucleic acids research

authors： Prusty D,Dar A,Priya R,Sharma A,Dana S,Choudhury NR,Rao NS,Dhar SK

更新日期：2010-11-01 00:00:00

abstract：:Escherichia coli has long been regarded as a model organism in the study of codon usage bias (CUB). However, most studies in this organism regarding this topic have been computational or, when experimental, restricted to small datasets; particularly poor attention has been given to genes with low CUB. In this work, co...

journal_title：Nucleic acids research

authors： dos Reis M,Wernisch L,Savva R

更新日期：2003-12-01 00:00:00

abstract：:Several mono-, di-, tetra-, penta- and nonaribozymes were developed. These multitarget-ribozymes were targeted to cleave HIV-1 env RNA at up to nine different conserved sites. Each multitarget-ribozyme consisted of a chain of up to nine hammerhead motifs, each flanked by a different targeting sequence. The multitarget...

journal_title：Nucleic acids research

authors： Chen CJ,Banerjea AC,Harmison GG,Haglund K,Schubert M

更新日期：1992-09-11 00:00:00

abstract：:A lac promotor mutant was constructed by filling in the protruding ends of the HpaII site located within the lac promotor. The mutation, named M42, is a two base pair insertion that changes the distance between the -10 and -35 regions from 18 to 20 residues. The activity of the mutant promotor measured in vivo is 15% ...

journal_title：Nucleic acids research

authors： Mandecki W,Reznikoff WS

更新日期：1982-02-11 00:00:00

abstract：:We present FIGfams, a new collection of over 100,000 protein families that are the product of manual curation and close strain comparison. Using the Subsystem approach the manual curation is carried out, ensuring a previously unattained degree of throughput and consistency. FIGfams are based on over 950,000 manually a...

journal_title：Nucleic acids research

authors： Meyer F,Overbeek R,Rodriguez A

更新日期：2009-11-01 00:00:00

abstract：:In order to examine the nature of the complex formation between the ribosomal protein S1 and nucleic acids three methods were used: Inhibition of the reaction of n-ethyl[2.3 14C]-maleimide with S1 by the addition of oligonucleotides; adsorption of the complexes to nitrocellulose filters; and equilibrium dialysis. The ...

journal_title：Nucleic acids research

authors： Lipecky R,Kohlschein J,Gassen HG

更新日期：1977-10-01 00:00:00

abstract：:The human RAD54B protein is a paralog of the RAD54 protein, which plays important roles in homologous recombination. RAD54B contains an N-terminal region outside the SWI2/SNF2 domain that shares less conservation with the corresponding region in RAD54. The biochemical roles of this region of RAD54B are not known, alth...

journal_title：Nucleic acids research

authors： Sarai N,Kagawa W,Fujikawa N,Saito K,Hikiba J,Tanaka K,Miyagawa K,Kurumizaka H,Yokoyama S

更新日期：2008-10-01 00:00:00

abstract：:Toscana virus (TOSV) is an arthropod-borne human pathogen responsible for seasonal outbreaks of fever and meningoencephalitis in the Mediterranean basin. TOSV is a segmented negative-strand RNA virus (sNSV) that belongs to the genus phlebovirus (family Phenuiviridae, order Bunyavirales), encompassing other important h...

journal_title：Nucleic acids research

authors： Jones R,Lessoued S,Meier K,Devignot S,Barata-García S,Mate M,Bragagnolo G,Weber F,Rosenthal M,Reguera J

更新日期：2019-11-18 00:00:00

abstract：:Splicing of mammalian introns requires that the intron possess at least 80 nucleotides. This length requirement presumably reflects the constraints of accommodating multiple snRNPs simultaneously in the same intron. In the free-living nematode, C. elegans, introns typically are 45 to 55 nucleotides in length. In this ...

journal_title：Nucleic acids research

authors： Ogg SC,Anderson P,Wickens MP

更新日期：1990-01-11 00:00:00

abstract：:YASS is a DNA local alignment tool based on an efficient and sensitive filtering algorithm. It applies transition-constrained seeds to specify the most probable conserved motifs between homologous sequences, combined with a flexible hit criterion used to identify groups of seeds that are likely to exhibit significant ...

journal_title：Nucleic acids research

authors： Noé L,Kucherov G

更新日期：2005-07-01 00:00:00

abstract：:SNiPlay is a web-based tool for detection, management and analysis of genetic variants including both single nucleotide polymorphisms (SNPs) and InDels. Version 3 now extends functionalities in order to easily manage and exploit SNPs derived from next generation sequencing technologies, such as GBS (genotyping by sequ...

journal_title：Nucleic acids research

authors： Dereeper A,Homa F,Andres G,Sempere G,Sarah G,Hueber Y,Dufayard JF,Ruiz M

更新日期：2015-07-01 00:00:00

abstract：:The MPI Bioinformatics Toolkit (http://toolkit.tuebingen.mpg.de) is an open, interactive web service for comprehensive and collaborative protein bioinformatic analysis. It offers a wide array of interconnected, state-of-the-art bioinformatics tools to experts and non-experts alike, developed both externally (e.g. BLAS...

journal_title：Nucleic acids research

authors： Alva V,Nam SZ,Söding J,Lupas AN

更新日期：2016-07-08 00:00:00

abstract：:Binding of the DnaA protein to oriC leads to DNA melting within the DNA unwinding element (DUE) and initiates replication of the bacterial chromosome. Helicobacter pylori oriC was previously identified as a region localized upstream of dnaA and containing a cluster of DnaA boxes bound by DnaA protein with a high affin...

journal_title：Nucleic acids research

authors： Donczew R,Weigel C,Lurz R,Zakrzewska-Czerwinska J,Zawilak-Pawlik A

更新日期：2012-10-01 00:00:00

abstract：:PRED(BALB/c) is a computational system that predicts peptides binding to the major histocompatibility complex-2 (H2(d)) of the BALB/c mouse, an important laboratory model organism. The predictions include the complete set of H2(d) class I (H2-K(d), H2-L(d) and H2-D(d)) and class II (I-E(d) and I-A(d)) molecules. The p...

journal_title：Nucleic acids research

authors： Zhang GL,Srinivasan KN,Veeramani A,August JT,Brusic V

更新日期：2005-07-01 00:00:00

abstract：:Advances in genomic sequencing have enormous potential to revolutionize personalized medicine, however distinguishing disease-causing from benign variants remains a challenge. The increasing number of human genome and exome sequences available has revealed areas where unfavourable variation is removed through purifyin...

journal_title：Nucleic acids research

authors： Silk M,Petrovski S,Ascher DB

更新日期：2019-07-02 00:00:00

abstract：:The CDC16 gene is involved in the process of chromosome segregation in mitosis and a cdc16ts mutant accumulates the predominant microtubule-associated protein at the nonpermissive temperature. We find that the CDC16 gene open reading frame (ORF) is capable of encoding a protein whose calculated molecular weight and pI...

journal_title：Nucleic acids research

authors： Icho T,Wickner RB

更新日期：1987-10-26 00:00:00

abstract：:Current literature describes several methods for the design of efficient siRNAs with 19 perfectly matched base pairs and 2 nt overhangs. Using four independent databases totaling 3336 experimentally verified siRNAs, we compared how well several of these methods predict siRNA cleavage efficiency. According to receiver ...

journal_title：Nucleic acids research

authors： Matveeva O,Nechipurenko Y,Rossi L,Moore B,Saetrom P,Ogurtsov AY,Atkins JF,Shabalina SA

更新日期：2007-01-01 00:00:00

abstract：:We have previously shown that integration of a polyoma vector containing rodent repetitive elements into rat cellular DNA is non-random (Wallenburg et al. J. Virol. 50: 678-683). Junctions between the polyoma vector and the host DNA occur in the repetitive sequences of the vector about ten times more frequently than w...

journal_title：Nucleic acids research

authors： Wallenburg JC,Nepveu A,Chartrand P

更新日期：1987-10-12 00:00:00

abstract：:Two DNA polymerases have been purified from the 105,000 x g supernatant of ungerminated wheat. The purification stages included: high speed centrifugation, salt fractionation, DEAE-cellulose chromatography, Sephadex G-150 filtration and phosphocellulose chromatography. Several properties of the two enzyme (called A an...

journal_title：Nucleic acids research

authors： Castroviejo M,Tarragó-Litvak L,Litvak S

更新日期：1975-11-01 00:00:00

abstract：:Guanine-rich sequences are highly abundant in the human genome, especially in regulatory regions. Because guanine-rich sequences have the unique ability to form G-quadruplexes, these structures may play a role in the regulation of gene transcription. In previous studies, we demonstrated that formation of G-quadruplexe...

journal_title：Nucleic acids research

authors： Onyshchenko MI,Gaynutdinov TI,Englund EA,Appella DH,Neumann RD,Panyutin IG

更新日期：2011-09-01 00:00:00

abstract：:Alternative first exons diversify the transcriptomes of eukaryotes by producing variants of the 5' Untranslated Regions (5'UTRs) and N-terminal coding sequences. Accurate transcriptome-wide detection of alternative first exons typically requires specialized experimental approaches that are designed to identify the 5' ...

journal_title：Nucleic acids research

authors： Qin Z,Stoilov P,Zhang X,Xing Y

更新日期：2018-05-04 00:00:00

abstract：:Ribosome assembly is a process fundamental for all cellular activities. The efficiency and accuracy of the subunit assembly are tightly regulated and closely monitored. In the present work, we characterized, both compositionally and structurally, a set of in vivo 50S subunit precursors (45S), isolated from a mutant ba...

journal_title：Nucleic acids research

authors： Li N,Chen Y,Guo Q,Zhang Y,Yuan Y,Ma C,Deng H,Lei J,Gao N

更新日期：2013-08-01 00:00:00

abstract：:Transcription factors are important gene regulators with distinctive roles in development, cell signaling and cell cycling, and they have been associated with many diseases. The ConTra v3 web server allows easy visualization and exploration of predicted transcription factor binding sites (TFBSs) in any genomic region ...

journal_title：Nucleic acids research

authors： Kreft L,Soete A,Hulpiau P,Botzki A,Saeys Y,De Bleser P

更新日期：2017-07-03 00:00:00

abstract：:The stability of chromosome ends, the telomeres, is dependent on the ribonucleoprotein telomerase. In vitro, telomerase requires at least one RNA molecule and a reverse transcriptase-like protein. However, for telomere homeostasis in vivo, additional proteins are required. Telomerase RNAs of different species vary in ...

journal_title：Nucleic acids research

authors： Laterreur N,Eschbach SH,Lafontaine DA,Wellinger RJ

更新日期：2013-09-01 00:00:00