Short bioactive Spiegelmers to migraine-associated calcitonin gene-related peptide rapidly identified by a novel approach: tailored-SELEX.

abstract：:Eukaryotic High-Mobility Group B (HMGB) proteins alter DNA elasticity while facilitating transcription, replication and DNA repair. We developed a new single-molecule method to probe non-specific DNA interactions for two HMGB homologs: the human HMGB2 box A domain and yeast Nhp6Ap, along with chimeric mutants replacin...

journal_title：Nucleic acids research

authors： McCauley MJ,Rueter EM,Rouzina I,Maher LJ 3rd,Williams MC

更新日期：2013-01-07 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：:It is believed that depending on the thermodynamic stability of the 5'-strand and the 3'-strand in the stem-loop structure of a precursor microRNA (pre-miRNA), cells preferentially select the less stable one (called the miRNA or guide strand) and destroy the other one (called the miRNA* or passenger strand). However, ...

journal_title：Nucleic acids research

authors： Ro S,Park C,Young D,Sanders KM,Yan W

更新日期：2007-01-01 00:00:00

abstract：:A pan-genome is the union of the gene sets of all the individuals of a clade or a species and it provides a new dimension of genome complexity with the presence/absence variations (PAVs) of genes among these genomes. With the progress of sequencing technologies, pan-genome study is becoming affordable for eukaryotes w...

journal_title：Nucleic acids research

authors： Sun C,Hu Z,Zheng T,Lu K,Zhao Y,Wang W,Shi J,Wang C,Lu J,Zhang D,Li Z,Wei C

更新日期：2017-01-25 00:00:00

abstract：:An R-loop is a DNA:RNA hybrid formed during transcription when a DNA duplex is invaded by a nascent RNA transcript. R-loops accumulate in nucleoli during RNA polymerase I (RNAP I) transcription. Here, we report that mammalian RNase H1 enriches in nucleoli and co-localizes with R-loops in cultured human cells. Co-migra...

journal_title：Nucleic acids research

authors： Shen W,Sun H,De Hoyos CL,Bailey JK,Liang XH,Crooke ST

更新日期：2017-10-13 00:00:00

abstract：:MicroRNA 26a (miR-26a) reduces cell viability in several cancers, indicating that miR-26a could be used as a therapeutic option in patients. We demonstrate that miR-26a not only inhibits G1-S cell cycle transition and promotes apoptosis, as previously described, but also regulates multiple cell cycle checkpoints. We s...

journal_title：Nucleic acids research

authors： Castellano L,Dabrowska A,Pellegrino L,Ottaviani S,Cathcart P,Frampton AE,Krell J,Stebbing J

更新日期：2017-05-05 00:00:00

abstract：:We describe snap-to-it probes, a novel probe technology to enhance the hybridization specificity of natural and unnatural nucleic acid oligomers using a simple and readily introduced structural motif. Snap-to-it probes were prepared from peptide nucleic acid (PNA) oligomers by modifying each terminus with a coordinati...

journal_title：Nucleic acids research

authors： Morgan JR,Lyon RP,Maeda DY,Zebala JA

更新日期：2008-06-01 00:00:00

abstract：:A 200 bp sequence including a stretch of 54 base pairs of alternating guanosine and adenosine nucleotide residues [(dG-dA)27.(dT-dC)27] was cloned in the simian virus 40 (SV40) genome between the KpnI and HpaII sites. This sequence was discovered earlier as part of a region limiting the amplification of sequences adja...

journal_title：Nucleic acids research

authors： Rao BS,Manor H,Martin RG

更新日期：1988-08-25 00:00:00

abstract：:The channel proteins belonging to the major intrinsic proteins (MIP) superfamily are diverse and are found in all forms of life. Water-transporting aquaporin and glycerol-specific aquaglyceroporin are the prototype members of the MIP superfamily. MIPs have also been shown to transport other neutral molecules and gases...

journal_title：Nucleic acids research

authors： Gupta AB,Verma RK,Agarwal V,Vajpai M,Bansal V,Sankararamakrishnan R

更新日期：2012-01-01 00:00:00

abstract：:Mutational analysis has shown that the integrity of the region in domain III of 25S rRNA that is involved in binding of ribosomal protein L25 is essential for the production of mature 25S rRNA in the yeast Saccharomyces cerevisiae. However, even structural alterations that do not noticeably affect recognition by L25, ...

journal_title：Nucleic acids research

authors： van Beekvelt CA,de Graaff-Vincent M,Faber AW,van't Riet J,Venema J,Raué HA

更新日期：2001-12-15 00:00:00

abstract：:Several electrophoretic and chromatographic systems have been investigated and compared for sequence analysis of oligodeoxyribonucleotides. Three systems were found to be useful for the separation of a series of sequential degradation products resulting from a labeled oligonucleotide: (I) 2-D electrophoresisdagger; (I...

journal_title：Nucleic acids research

authors： Jay E,Bambara R,Padmanabhan R,Wu R

更新日期：1974-03-01 00:00:00

abstract：:Lytic infection with polyoma virus leads in Go-arrested primary mouse kidney cell cultures to a mitotic host response. In the present work we focused our attention on cellular RNA synthesis shortly after onset of polyoma T-antigen synthesis. Onset of polyoma-induced stimulation of 45S pre-rRNA synthesis was determined...

journal_title：Nucleic acids research

authors： Matter JM,Tiercy JM,Weil R

更新日期：1983-10-11 00:00:00

abstract：:Type III restriction enzymes have been demonstrated to require two unmethylated asymmetric recognition sites oriented head-to-head to elicit double-strand break 25-27 bp downstream of one of the two sites. The proposed DNA cleavage mechanism involves ATP-dependent DNA translocation. The sequence context of the recogni...

journal_title：Nucleic acids research

authors： Raghavendra NK,Rao DN

更新日期：2004-10-22 00:00:00

abstract：:Our web server, PIZSA (http://cospi.iiserpune.ac.in/pizsa), assesses the likelihood of protein-protein interactions by assigning a Z Score computed from interface residue contacts. Our score takes into account the optimal number of atoms that mediate the interaction between pairs of residues and whether these contacts...

journal_title：Nucleic acids research

authors： Roy AA,Dhawanjewar AS,Sharma P,Singh G,Madhusudhan MS

更新日期：2019-07-02 00:00:00

abstract：:Genome engineering of human cells plays an important role in biotechnology and molecular medicine. In particular, insertions of functional multi-transgene cassettes into suitable endogenous sequences will lead to novel applications. Although several tools have been exploited in this context, safety issues such as cyto...

journal_title：Nucleic acids research

authors： Vijaya Chandra SH,Makhija H,Peter S,Myint Wai CM,Li J,Zhu J,Ren Z,D'Alcontres MS,Siau JW,Chee S,Ghadessy FJ,Dröge P

更新日期：2016-04-07 00:00:00

abstract：:Multiple pathways counteract DNA replication stress to prevent genomic instability and tumorigenesis. The recently identified human SDE2 is a genome surveillance protein regulated by PCNA, a DNA clamp and processivity factor at replication forks. Here, we show that SDE2 cleavage after its ubiquitin-like domain generat...

journal_title：Nucleic acids research

authors： Rageul J,Park JJ,Jo U,Weinheimer AS,Vu TTM,Kim H

更新日期：2019-05-07 00:00:00

abstract：:The smallest catalytic RNA identified to date is a manganese-dependent ribozyme that requires only a complex between GAAA and UUU to effect site-specific cleavage. We show here that this ribozyme occurs naturally in the 3'-UTR of Vg1 and beta-actin mRNAs. In accord with earlier studies with model RNAs, cleavage occurs...

journal_title：Nucleic acids research

authors： Kolev NG,Hartland EI,Huber PW

更新日期：2008-10-01 00:00:00

abstract：:During protein synthesis, the nascent peptide chain traverses the peptide exit tunnel of the ribosome. We monitor the co-translational movement of the nascent peptide using a fluorescent probe attached to the N-terminus of the nascent chain. Due to fluorophore quenching, the time-dependent fluorescence signal emitted ...

journal_title：Nucleic acids research

authors： Haase N,Holtkamp W,Lipowsky R,Rodnina M,Rudorf S

更新日期：2018-12-14 00:00:00

abstract：:The prokaryotic beta recombinase catalyzes site-specific recombination between two directly oriented minimal six sites in chromatin-integrated substrates. Here, we demonstrate that an enhanced green fluorescent protein (EGFP)-fused version of beta recombinase (beta-EGFP) is fully active, retaining most specific activi...

journal_title：Nucleic acids research

authors： Servert P,Garcia-Castro J,Díaz V,Lucas D,Gonzalez MA,Martínez-A C,Bernad A

更新日期：2006-01-03 00:00:00

abstract：:HBV genotypes differ in pathogenicity. In addition, genotype-specific differences in the regulation of transcription and virus replication exist in HBV, but the underlying mechanisms are unknown. Here, we show the presence of a G-quadruplex motif in the promoter of the preS2/S gene; this G-quadruplex is highly conserv...

journal_title：Nucleic acids research

authors： Biswas B,Kandpal M,Vivekanandan P

更新日期：2017-11-02 00:00:00

abstract：:The small subunit ribosomal RNA gene (16S rRNA) has been successfully used to catalogue and study the diversity of prokaryotic species and communities but it offers limited resolution at the species and finer levels, and cannot represent the whole-genome diversity and fluidity. To overcome these limitations, we introd...

journal_title：Nucleic acids research

authors： Rodriguez-R LM,Gunturu S,Harvey WT,Rosselló-Mora R,Tiedje JM,Cole JR,Konstantinidis KT

更新日期：2018-07-02 00:00:00

abstract：:In recent years, the increase in the amounts of available genomic data has made it easier to appreciate the extent by which organisms increase their genetic diversity through horizontally transferred genetic material. Such transfers have the potential to give rise to extremely dynamic genomes where a significant propo...

journal_title：Nucleic acids research

authors： Tsirigos A,Rigoutsos I

更新日期：2005-02-16 00:00:00

abstract：:The transcription factor CHOP/GADD153 gene is induced by cellular stress and is involved in mediating apoptosis. We report the identification of a conserved region in the promoter of the CHOP gene responsible for its inducibility by endoplasmic reticulum (ER) stress. Deletion mutants of the human CHOP promoter identif...

journal_title：Nucleic acids research

authors： Ubeda M,Habener JF

更新日期：2000-12-15 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：:The excision of specific DNA sequences from integrated transgenes in insects permits the dissection in situ of structural elements that may be important in controlling gene expression. Furthermore, manipulation of potential control elements in the context of a single integration site mitigates against insertion site i...

journal_title：Nucleic acids research

authors： Jasinskiene N,Coates CJ,Ashikyan A,James AA

更新日期：2003-11-15 00:00:00

abstract：:In 4M NaCl solutions (dC-dG)n (n = 3,4; approximately 9 mM) exist as a mixture o +/- B and Z forms. The low and high field components of two 31P NMR resonances originating from internal phosphodiester groups are assigned to the GpC and CpG linkages, respectively. Low temperatures stabilize the Z-forms, which completel...

journal_title：Nucleic acids research

authors： Holak TA,Borer PN,Levy GC,van Boom JH,Wang AH

更新日期：1984-06-11 00:00:00

abstract：:We have developed an effective post-PCR sterilization process and have applied the procedure to a diagnostic assay for HIV-1. The method, which is based on isopsoralen photochemistry, satisfies both the inactivation and hybridization requirements of a practical sterilization process. The key feature of the technique i...

journal_title：Nucleic acids research

authors： Isaacs ST,Tessman JW,Metchette KC,Hearst JE,Cimino GD

更新日期：1991-01-11 00:00:00

abstract：:A number of regulatory nascent peptides have been shown to regulate gene expression by causing programmed ribosome stalling during translation. Nascent peptide emerges from the ribosome through the exit tunnel, and one-third of the way along which β-loop structures of ribosomal proteins uL4 and uL22 protrude into the ...

journal_title：Nucleic acids research

authors： Takamatsu S,Ohashi Y,Onoue N,Tajima Y,Imamichi T,Yonezawa S,Morimoto K,Onouchi H,Yamashita Y,Naito S

更新日期：2020-02-28 00:00:00

abstract：:Single-nucleotide polymorphisms (SNPs) are often linked to critical phenotypes such as diseases or responses to vaccines, medications and environmental factors. However, the specific molecular mechanisms by which a causal SNP acts is usually not obvious. Changes in RNA secondary structure emerge as a possible explanat...

journal_title：Nucleic acids research

authors： Salari R,Kimchi-Sarfaty C,Gottesman MM,Przytycka TM

更新日期：2013-01-07 00:00:00

abstract：:A DNA fragment d(GCGAAAGCT), known to adopt a stable mini-hairpin structure in solution, has been crystallized in the space group I4(1)22 with the unit-cell dimensions a = b = 53.4 A and c = 54.0 A, and the crystal structure has been determined at 2.5 A resolution. The four nucleotide residues CGAA of the first half o...

journal_title：Nucleic acids research

authors： Sunami T,Kondo J,Kobuna T,Hirao I,Watanabe K,Miura K,Takénaka A

更新日期：2002-12-01 00:00:00