Engineering a robust DNA split proximity circuit with minimized circuit leakage.

abstract：:The growing application of gene expression profiling demands powerful yet user-friendly bioinformatics tools to support systems-level data understanding. NetworkAnalyst was first released in 2014 to address the key need for interpreting gene expression data within the context of protein-protein interaction (PPI) netwo...

journal_title：Nucleic acids research

authors： Zhou G,Soufan O,Ewald J,Hancock REW,Basu N,Xia J

更新日期：2019-07-02 00:00:00

abstract：:The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is Europe's primary resource for nucleotide sequence information. With the growing volume and diversity of public sequencing data comes the need for increased sophistication in data organisation, presentation and search services so as to maximise its disc...

journal_title：Nucleic acids research

authors： Silvester N,Alako B,Amid C,Cerdeño-Tárraga A,Cleland I,Gibson R,Goodgame N,Ten Hoopen P,Kay S,Leinonen R,Li W,Liu X,Lopez R,Pakseresht N,Pallreddy S,Plaister S,Radhakrishnan R,Rossello M,Senf A,Smirnov D,Toribio A

更新日期：2015-01-01 00:00:00

abstract：:A newly discovered group of spherical plant viruses contains a bipartite genome consisting of a single-strand linear RNA molecule (RNA 1, Mr 1.5 x 10(6) ), and a single-strand, covalently closed circular viroid-like RNA molecule (RNA 2, Mr approximately 125,000). The nucleotide sequences of the RNA 2 of two of these, ...

journal_title：Nucleic acids research

authors： Haseloff J,Symons RH

更新日期：1982-06-25 00:00:00

abstract：:CCG repeats are highly over-represented in exons of the human genome. Usually they are located in the 5' UTR but are also abundant in translated sequences. The CCG repeats are associated with three tri-nucleotide repeat disorders: Huntington's disease, myotonic dystrophy type 1 and chromosome X-linked mental retardati...

journal_title：Nucleic acids research

authors： Kiliszek A,Kierzek R,Krzyzosiak WJ,Rypniewski W

更新日期：2012-09-01 00:00:00

abstract：:Positive control of the wild-type Klebsiella pneumoniae nifH promoter by the NifA protein requires that NifA is bound at the upstream activator sequence (UAS). By introducing base substitutions at -15 to -17 in the RNA polymerase recognition sequence of the nifH promoter, positive control by a form of NifA unable to b...

journal_title：Nucleic acids research

authors： Buck M,Cannon W

更新日期：1989-04-11 00:00:00

abstract：:Prokaryotes use primed CRISPR adaptation to update their memory bank of spacers against invading genetic elements that have escaped CRISPR interference through mutations in their protospacer target site. We previously observed a trend that nucleotide-dependent mismatches between crRNA and the protospacer strongly infl...

journal_title：Nucleic acids research

authors： Künne T,Zhu Y,da Silva F,Konstantinides N,McKenzie RE,Jackson RN,Brouns SJ

更新日期：2018-11-02 00:00:00

abstract：:Over the past 10 years, fluorescent end-labeling of DNA fragments has evolved into the preferred method of DNA detection for a wide variety of applications, including DNA sequencing and PCR fragment analysis. One of the advantages inherent in fluorescent detection methods is the ability to perform multi-color analyses...

journal_title：Nucleic acids research

authors： Tu O,Knott T,Marsh M,Bechtol K,Harris D,Barker D,Bashkin J

更新日期：1998-06-01 00:00:00

abstract：:Fourteen P-element insertion mutants at the yellow (y) gene of D. melanogaster have been analysed by restriction mapping and DNA sequencing. The distribution of the insertion sites is nonrandom, with a preferred target site in the 5'-transcribed but non-translated leader of the gene. Transcription analysis indicates t...

journal_title：Nucleic acids research

authors： Howes G,O'Connor M,Chia W

更新日期：1988-04-11 00:00:00

abstract：:The Protein Circular Dichroism Data Bank (PCDDB) has been in operation for more than 5 years as a public repository for archiving circular dichroism spectroscopic data and associated bioinformatics and experimental metadata. Since its inception, many improvements and new developments have been made in data display, se...

journal_title：Nucleic acids research

authors： Whitmore L,Miles AJ,Mavridis L,Janes RW,Wallace BA

更新日期：2017-01-04 00:00:00

abstract：:The tissue-specific expression of the Drosophila beta 2 tubulin gene ( B2t ) is accomplished by the action of a 14-bp activator element (beta2UE1) in combination with certain regulatory elements of the TATA-less, Inr-containing B2t core promoter. We performed an in vivo analysis of the Inr element function in the B2t ...

journal_title：Nucleic acids research

authors： Santel A,Kaufmann J,Hyland R,Renkawitz-Pohl R

更新日期：2000-03-15 00:00:00

abstract：:DNA synthesis is a fundamental requirement for cell proliferation and DNA repair, but no single method can identify the location, direction and speed of replication forks with high resolution. Mammalian cells have the ability to incorporate thymidine analogs along with the natural A, T, G and C bases during DNA synthe...

journal_title：Nucleic acids research

authors： Georgieva D,Liu Q,Wang K,Egli D

更新日期：2020-09-04 00:00:00

abstract：:Elucidating the dynamic organization of nuclear RNA foci is important for understanding and manipulating these functional sites of gene expression in both physiological and pathological states. However, such studies have been difficult to establish in vivo as a result of the absence of suitable RNA imaging methods. He...

journal_title：Nucleic acids research

authors： Oomoto I,Suzuki-Hirano A,Umeshima H,Han YW,Yanagisawa H,Carlton P,Harada Y,Kengaku M,Okamoto A,Shimogori T,Wang DO

更新日期：2015-10-30 00:00:00

abstract：:Nucleotide sequences of three cloned restriction fragments of Tetrahymena mtDNA which showed hybridization with mitochondrial tRNA have been determined. EcoRI fragment 5 (4.1 kbp) contains the tRNAphe gene sequence with anticodon GAA; Hind III fragment 6 (2.0 kbp) the tRNAhis with anticodon GTG; and EcoRI fragment 7 (...

journal_title：Nucleic acids research

authors： Suyama Y

更新日期：1985-05-10 00:00:00

abstract：:Nucleic acid triplexes may regulate many important biological processes. Persistent accumulation of the oncogenic 7-kb long noncoding RNA MALAT1 is dependent on an unusually long intramolecular triple helix. This triplex structure is positioned within a conserved ENE (element for nuclear expression) motif at the lncRN...

journal_title：Nucleic acids research

authors： Ageeli AA,McGovern-Gooch KR,Kaminska MM,Baird NJ

更新日期：2019-02-20 00:00:00

abstract：:Frequencies for each of the 61 amino acid codons have been determined in every published mRNA sequence of 50 or more codons. The frequencies are shown for each kind of genome and for each individual gene. A surprising consistency of choices exists among genes of the same or similar genomes. Thus each genome, or kind o...

journal_title：Nucleic acids research

authors： Grantham R,Gautier C,Gouy M,Mercier R,Pavé A

更新日期：1980-01-11 00:00:00

abstract：:Increasing numbers of proteins, nucleic acids and other molecular entities have been explored as therapeutic targets, hundreds of which are targets of approved and clinical trial drugs. Knowledge of these targets and corresponding drugs, particularly those in clinical uses and trials, is highly useful for facilitating...

journal_title：Nucleic acids research

authors： Zhu F,Han B,Kumar P,Liu X,Ma X,Wei X,Huang L,Guo Y,Han L,Zheng C,Chen Y

更新日期：2010-01-01 00:00:00

abstract：:Besides orthologs of other eukaryotic mismatch-repair (MMR) proteins, plants encode MSH7, a paralog of MSH6. The Arabidopsis thaliana recognition heterodimers AtMSH2*MSH6 (AtMutSalpha) and AtMSH2*MSH3 (AtMutSbeta) were previously found to bind the same subsets of mismatches as their counterparts in other eukaryotes--r...

journal_title：Nucleic acids research

authors： Wu SY,Culligan K,Lamers M,Hays J

更新日期：2003-10-15 00:00:00

abstract：:Transcription is the first step in gene expression, and it is the step at which most of the regulation of expression occurs. Although sequenced prokaryotic genomes provide a wealth of information, transcriptional regulatory networks are still poorly understood using the available genomic information, largely because a...

journal_title：Nucleic acids research

authors： Song K

更新日期：2012-02-01 00:00:00

abstract：:Non-radioactive nucleic acid hybridization probes have been constructed in which the reporter group is long chain biotin chemically linked to a basic macromolecule (histone H1, cytochrome C or polyethyleneimine). The modified basic macromolecule which carries many biotin residues can, in turn, be covalently linked to ...

journal_title：Nucleic acids research

authors： Al-Hakim AH,Hull R

更新日期：1986-12-22 00:00:00

abstract：:Ribosome-inactivating proteins (RIP) are a family of plant enzymes for which a unique activity was determined: rRNAN-glycosidase at a specific universally conserved position, A4324in the case of rat ribosomes. Recently we have shown that the RIP from Saponaria officinalis have a much wider substrate specificity: they ...

journal_title：Nucleic acids research

authors： Barbieri L,Valbonesi P,Bonora E,Gorini P,Bolognesi A,Stirpe F

更新日期：1997-02-01 00:00:00

abstract：:The BRENDA enzyme database (https://www.brenda-enzymes.org), established in 1987, has evolved into the main collection of functional enzyme and metabolism data. In 2018, BRENDA was selected as an ELIXIR Core Data Resource. BRENDA provides reliable data, continuous curation and updates of classified enzymes, and the in...

journal_title：Nucleic acids research

authors： Chang A,Jeske L,Ulbrich S,Hofmann J,Koblitz J,Schomburg I,Neumann-Schaal M,Jahn D,Schomburg D

更新日期：2021-01-08 00:00:00

abstract：:This work describes the organization, at the nucleotide sequence level, of genes flanking the junctions of the large single copy regions and the inverted repeats of Spinacia oleracea (spinach) and Nicotiana debneyi chloroplast DNAs. In both genomes, trnH1, the gene for tRNA-His(GUG) is located at the extremity of the ...

journal_title：Nucleic acids research

authors： Zurawski G,Bottomley W,Whitfeld PR

更新日期：1984-08-24 00:00:00

abstract：:To locate the boundaries of the TATA element in the SV40 early promoter, point mutations have been constructed such as to cover the whole T + A-rich region of the replication origin. The effects of these mutations on the rate of transcription in vivo show that this region actually contains two TATA elements I and II, ...

journal_title：Nucleic acids research

authors： Pauly M,Treger M,Westhof E,Chambon P

更新日期：1992-03-11 00:00:00

abstract：:We have determined the nucleotide sequence of the major species of E. coli tRNASer and of a minor species having the same GGA anticodon. These two tRNAs should recognize the UCC and UCU codons, the most widely used codons for serine in the highly expressed genes of E. coli. The two sequences differ in only one positio...

journal_title：Nucleic acids research

authors： Grosjean H,Nicoghosian K,Haumont E,Söll D,Cedergren R

更新日期：1985-08-12 00:00:00

abstract：:A crucial component of the human mitochondrial DNA replisome is the ring-shaped helicase TWINKLE-a phage T7-gene 4-like protein expressed in the nucleus and localized in the human mitochondria. Our previous studies showed that despite being a helicase, TWINKLE has unique DNA annealing activity. At the time, the implic...

journal_title：Nucleic acids research

authors： Sen D,Patel G,Patel SS

更新日期：2016-05-19 00:00:00

abstract：:The 4.5S rRNA was isolated from the chloroplast ribosomes from Dryopteris acuminata. The complete nucleotide sequence was determined to be: OHUAAGGUCACGGCAAGACGAGCCGUUUAUCACCACGAUAGGUGCUAAGUGGAGGUGCAGUAAUGUAUGCAGCUGAGGC AUCCUAAUAGACCGAGAGGUUUGAACOH. The 4.5S rRNA is composed of 103 nucleotides and shows strong homolog...

journal_title：Nucleic acids research

authors： Takaiwa F,Kusuda M,Sugiura M

更新日期：1982-04-10 00:00:00

abstract：:Eukaryotes produce multiple products from a single gene locus by alternative splicing, translation or promoter usage as mechanisms expanding the complexity of their proteome. Trithorax proteins, including the Arabidopsis Trithorax-like protein ATX1, are histone modifiers regulating gene activity. Here, we report that ...

journal_title：Nucleic acids research

authors： Ndamukong I,Lapko H,Cerny RL,Avramova Z

更新日期：2011-06-01 00:00:00

abstract：:Human immunodeficiency virus type 2 (HIV-2) reverse transcription is initiated from cellular tRNA(Lys3) partially annealed to the RNA viral genome at the primer binding site (PBS). This annealing involves interactions between two highly structured RNA molecules. In contrast to HIV-1, in which the reverse transcription...

journal_title：Nucleic acids research

authors： Freund F,Boulmé F,Litvak S,Tarrago-Litvak L

更新日期：2001-07-01 00:00:00

abstract：:Nucleotide substitution, insertion and deletion (indel) events are the major driving forces that have shaped genomes. Using the recently identified human ribosomal protein (RP) pseudogene sequences, we have thoroughly studied DNA mutation patterns in the human genome. We analyzed a total of 1726 processed RP pseudogen...

journal_title：Nucleic acids research

authors： Zhang Z,Gerstein M

更新日期：2003-09-15 00:00:00

abstract：:A fundamental problem with applying Consensus, Weight-Matrix or hidden Markov models as search tools for biosequences is that there is no way to know, from the model, if the modeled sequences display any dependencies between positional identities. In some instances, these dependencies are crucial in correctly acceptin...

journal_title：Nucleic acids research

authors： Ray WC

更新日期：2005-07-01 00:00:00