MERAV: a tool for comparing gene expression across human tissues and cell types.

abstract：:Underlying higher order chromatin organization are Structural Maintenance of Chromosomes (SMC) complexes, large protein rings that entrap DNA. The molecular mechanism by which SMC complexes organize chromatin is as yet incompletely understood. Two prominent models posit that SMC complexes actively extrude DNA loops (l...

journal_title：Nucleic acids research

authors： Gerguri T,Fu X,Kakui Y,Khatri BS,Barrington C,Bates PA,Uhlmann F

更新日期：2021-01-12 00:00:00

abstract：:A cDNA library was constructed from the mRNA of the Ig lambda producing Burkitt's lymphoma cell line, EB4. Overlapping clones encompassing the coding sequence of the Ig lambda mRNA were isolated and sequenced. The predicted amino acid sequence shows a short hydrophobic leader peptide and a mature polypeptide of 217 re...

journal_title：Nucleic acids research

authors： Anderson ML,Brown L,McKenzie E,Kellow JE,Young BD

更新日期：1985-04-25 00:00:00

abstract：:TAP/hNXF1 is a key factor that mediates general cellular mRNA export from the nucleus, and its orthologs are structurally and functionally conserved from yeast to humans. Metazoans encode additional proteins that share homology and domain organization with TAP/hNXF1, suggesting their participation in mRNA metabolism; ...

journal_title：Nucleic acids research

authors： Tan W,Zolotukhin AS,Tretyakova I,Bear J,Lindtner S,Smulevitch SV,Felber BK

更新日期：2005-07-13 00:00:00

abstract：:Numerous potential ligand-binding sites are available today, along with hundreds of thousands of known binding sites observed in the PDB. Exhaustive similarity search for such vastly numerous binding site pairs is useful to predict protein functions and to enable rapid screening of target proteins for drug design. Exi...

journal_title：Nucleic acids research

authors： Ito J,Tabei Y,Shimizu K,Tsuda K,Tomii K

更新日期：2012-01-01 00:00:00

abstract：:The strand displacement activity of DNA polymerase δ is strongly stimulated by its interaction with proliferating cell nuclear antigen (PCNA). However, inactivation of the 3'-5' exonuclease activity is sufficient to allow the polymerase to carry out strand displacement even in the absence of PCNA. We have examined in ...

journal_title：Nucleic acids research

authors： Koc KN,Stodola JL,Burgers PM,Galletto R

更新日期：2015-04-30 00:00:00

abstract：:Termination of DNA replication in Bacillus subtilis involves the polar arrest of replication forks by a specific complex formed between the replication terminator protein (RTP) and DNA terminator sites. While determination of the crystal structure of RTP has facilitated our understanding of how a single RTP dimer inte...

journal_title：Nucleic acids research

authors： Kralicek AV,Wilson PK,Ralston GB,Wake RG,King GF

更新日期：1997-02-01 00:00:00

abstract：:Several proteins that have substantially diverged during evolution retain similar three-dimensional structures and biological function inspite of poor sequence identity. The database on Genomic Distribution of protein structural domain Superfamilies (GenDiS) provides record for the distribution of 4001 protein domains...

journal_title：Nucleic acids research

authors： Pugalenthi G,Bhaduri A,Sowdhamini R

更新日期：2005-01-01 00:00:00

abstract：:Mitochondrial proteins remain the subject of intense research interest due to their implication in an increasing number of different conditions including mitochondrial and metabolic disease, cancer, and neuromuscular degenerative and age-related disorders. However, the mitochondrial proteome has yet to be accurately a...

journal_title：Nucleic acids research

authors： Smith AC,Robinson AJ

更新日期：2016-01-04 00:00:00

abstract：:For the analysis of protein-DNA interactions by coupled gel-shift/footprinting, DNA fragments need to be extracted from polyacrylamide gels and subsequently separated on high resolution gels. Due to impurities in the extracted DNA, single nucleotide resolution is frequently not achieved. We now describe an improved ex...

journal_title：Nucleic acids research

authors： Ragnhildstveit E,Fjose A,Becker PB,Quivy JP

更新日期：1997-01-15 00:00:00

abstract：:The aminoacylation kinetics of T7 transcripts representing defined regions of Escherichia coli serine tRNAs were determined using purified E.coli seryl-tRNA synthetase (SerRS) and the kinetic values were used to estimate the relative contribution of various tRNA(Ser) domains to recognition by SerRS. The analysis revea...

journal_title：Nucleic acids research

authors： Sampson JR,Saks ME

更新日期：1993-09-25 00:00:00

abstract：:An updated compilation of 300 E. coli mRNA promoter sequences is presented. For each sequence the most recent relevant paper was checked, to verify the location of the transcriptional start position as identified experimentally. We comment on the reliability of the sequence databanks and analyze the conservation of kn...

journal_title：Nucleic acids research

authors： Lisser S,Margalit H

更新日期：1993-04-11 00:00:00

abstract：:The process of strand exchange is considered to be the hallmark of DNA recombination. Proteins known to carry out such exchange are believed to operate via one or the other of two mechanisms. RecA-like proteins promote the formation of a three-stranded or triplex synaptic intermediate in which strand exchange occurs, ...

journal_title：Nucleic acids research

authors： Jean D,Gendron D,Delbecchi L,Bourgaux P

更新日期：1997-10-15 00:00:00

abstract：:The Functional Single Nucleotide Polymorphism (F-SNP) database integrates information obtained from 16 bioinformatics tools and databases about the functional effects of SNPs. These effects are predicted and indicated at the splicing, transcriptional, translational and post-translational level. As such, the database h...

journal_title：Nucleic acids research

authors： Lee PH,Shatkay H

更新日期：2008-01-01 00:00:00

abstract：:Regulation of mRNA translation is an important mechanism determining the level of expression of proteins in eukaryotic cells. Translation is most commonly initiated by cap-dependent scanning, but many eukaryotic mRNAs contain internal ribosome entry segments (IRESs), providing an alternative means of initiation capabl...

journal_title：Nucleic acids research

authors： Spriggs KA,Cobbold LC,Ridley SH,Coldwell M,Bottley A,Bushell M,Willis AE,Siddle K

更新日期：2009-09-01 00:00:00

abstract：:A successful application is reported of the multivariate curve resolution alternating least-squares method (MCR-ALS) for the analysis of nucleic acid melting and salt-induced transitions. Under conditions where several structures co-exist in a conformational equilibrium, MCR-ALS analysis of the UV and circular dichroi...

journal_title：Nucleic acids research

authors： Jaumot J,Escaja N,Gargallo R,González C,Pedroso E,Tauler R

更新日期：2002-09-01 00:00:00

abstract：:Complex carbohydrates of plants are the main food sources of animals and microbes, and serve as promising renewable feedstock for biofuel and biomaterial production. Carbohydrate active enzymes (CAZymes) are the most important enzymes for complex carbohydrate metabolism. With an increasing number of plant and plant-as...

journal_title：Nucleic acids research

authors： Zhang H,Yohe T,Huang L,Entwistle S,Wu P,Yang Z,Busk PK,Xu Y,Yin Y

更新日期：2018-07-02 00:00:00

abstract：:Long non-coding RNAs (lncRNAs) play critical roles in diverse cellular processes; however, their involvement in many critical aspects of the immune response including the interferon (IFN) response remains poorly understood. To address this gap, we compared the global gene expression pattern of primary human hepatocyte...

journal_title：Nucleic acids research

authors： Kambara H,Niazi F,Kostadinova L,Moonka DK,Siegel CT,Post AB,Carnero E,Barriocanal M,Fortes P,Anthony DD,Valadkhan S

更新日期：2014-01-01 00:00:00

abstract：:We describe an algorithm for gene identification in DNA sequences derived from shotgun sequencing of microbial communities. Accurate ab initio gene prediction in a short nucleotide sequence of anonymous origin is hampered by uncertainty in model parameters. While several machine learning approaches could be proposed t...

journal_title：Nucleic acids research

authors： Zhu W,Lomsadze A,Borodovsky M

更新日期：2010-07-01 00:00:00

abstract：:microRNAs (miRNAs) are small endogenous RNA molecules that are implicated in many biological processes through post-transcriptional regulation of gene expression. The DIANA-microT Web server provides a user-friendly interface for comprehensive computational analysis of miRNA targets in human and mouse. The server has ...

journal_title：Nucleic acids research

authors： Maragkakis M,Vergoulis T,Alexiou P,Reczko M,Plomaritou K,Gousis M,Kourtis K,Koziris N,Dalamagas T,Hatzigeorgiou AG

更新日期：2011-07-01 00:00:00

abstract：:DNA-PKcs and Ku are essential components of the complex that catalyzes non-homologous end joining (NHEJ) of DNA double-strand breaks (DSBs). Ku, a heterodimeric protein, binds to DNA ends and facilitates recruitment of the catalytic subunit, DNA-PKcs. We have investigated the effect of DNA strand orientation and seque...

journal_title：Nucleic acids research

authors： Pawelczak KS,Andrews BJ,Turchi JJ

更新日期：2005-01-07 00:00:00

abstract：:The rpoA gene, encoding the alpha subunit of RNA polymerase, was cloned from Streptomyces coelicolor A3(2). It is preceded by rpsK and followed by rplQ, encoding ribosomal proteins S11 and L17, respectively, similar to the gene order in Bacillus subtilis. The rpoA gene specifies a protein of 339 amino acids with deduc...

journal_title：Nucleic acids research

authors： Cho EJ,Bae JB,Kang JG,Roe JH

更新日期：1996-11-15 00:00:00

abstract：:We described here an approach for mapping proteins on any sequence of genomic DNA. UV-induced DNA-protein crosslinking within whole cells and the 'protein image' hybridization technique (1) were applied to test the proteins bound to different regions of the D. melanogaster hsp-70 gene. The histone H1-DNA association w...

journal_title：Nucleic acids research

authors： Belikov SV,Belgovsky AI,Preobrazhenskaya OV,Karpov VL,Mirzabekov AD

更新日期：1993-02-25 00:00:00

abstract：:The 'Atlas of Genetics and Cytogenetics in Oncology and Haematology' (http://www.infobiogen.fr/services/chromcancer) is an Internet database aimed at genes involved in cancer, cytogenetics and clinical entities in cancer, and cancer-prone diseases. It presents information in concise and updated reviews (cards) or long...

journal_title：Nucleic acids research

authors： Huret JL,Dessen P,Bernheim A

更新日期：2001-01-01 00:00:00

abstract：:We have developed an improved and rapid genomic engineering procedure for the construction of custom-designed microorganisms. This method, which can be performed in 2 days, permits restructuring of the Escherichia coli genome via markerless deletion of selected genomic regions. The deletion process was mediated by a s...

journal_title：Nucleic acids research

authors： Yu BJ,Kang KH,Lee JH,Sung BH,Kim MS,Kim SC

更新日期：2008-08-01 00:00:00

abstract：:In DNA of the dinoflagellate Crypthecodinium cohnii, 38% of the thymine is replaced by the modified base 5-hydroxymethyluracil, and approximately 3% of the cytosine is replaced by 5-methylcytosine. Both of the modified bases are non-randomly distributed in the DNA. Determinations of 3' nearest neighbors show that HOMe...

journal_title：Nucleic acids research

authors： Steele RE,Rae PM

更新日期：1980-10-24 00:00:00

abstract：:Understanding the cellular uptake and intracellular trafficking of dendrimer-DNA complexes is an important prerequisite for improving the transfection efficiency of non-viral vector-mediated gene delivery. Dendrimers are synthetic polymers used for gene transfer. Although these cationic molecules show promise as versa...

journal_title：Nucleic acids research

authors： Manunta M,Tan PH,Sagoo P,Kashefi K,George AJ

更新日期：2004-05-17 00:00:00

abstract：:The RNA-Seq technology has revolutionized transcriptome characterization not only by accurately quantifying gene expression, but also by the identification of novel transcripts like chimeric fusion transcripts. The 'fusion' or 'chimeric' transcripts have improved the diagnosis and prognosis of several tumors, and have...

journal_title：Nucleic acids research

authors： Li Y,Heavican TB,Vellichirammal NN,Iqbal J,Guda C

更新日期：2017-07-27 00:00:00

abstract：:Directed molecular evolution and combinatorial methodologies are playing an increasingly important role in the field of protein engineering. The general approach of generating a library of partially randomized genes, expressing the gene library to generate the proteins the library encodes and then screening the protei...

journal_title：Nucleic acids research

authors： Neylon C

更新日期：2004-02-27 00:00:00

abstract：:PAX6 is a transcription factor that plays a major role in ocular morphogenesis. PAX6 is expressed in the eye, central nervous system and pancreas. Two alternative promoters, P0 and P1, which are differentially regulated during development, drive PAX6 transcription. We identified a 57 bp cis-regulatory element in exon ...

journal_title：Nucleic acids research

authors： Zheng JB,Zhou YH,Maity T,Liao WS,Saunders GF

更新日期：2001-10-01 00:00:00

abstract：:A phosphotriester solid phase method on a polyamide support has been used to prepare oligodeoxyribonucleotides up to 12 units long. Compared to solid phase phosphodiester synthesis the new methodology is quicker, more flexible and gives 10-60-fold better overall yields. ...

journal_title：Nucleic acids research

authors： Gait MJ,Singh M,Sheppard RC,Edge MD,Greene AR,Heathcliffe GR,Atkinson TC,Newton CR,Markham AF

更新日期：1980-03-11 00:00:00