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1 uced either by HO endonuclease or the I-SceI restriction enzyme.
2 the nonspecific cleavage domain of the FokI restriction enzyme.
3 is gap are substrates for Alu I, a blunt end restriction enzyme.
4 tracycline-controlled expression of the SacI restriction enzyme.
5 inated from bacterial modification-dependent restriction enzymes.
6 d with methylation-sensitive and insensitive restriction enzymes.
7 still no structural information on Type III restriction enzymes.
8 complexes and also with discussion of type I restriction enzymes.
9 endonucleases to function analogously to DNA restriction enzymes.
10 uperior accuracy and without the need to use restriction enzymes.
11 re of DNA sequences within the nucleosome to restriction enzymes.
12 single combined cluster analysis of multiple restriction enzymes.
13 ne modifications protect phage DNA from host restriction enzymes.
14 not require any restriction sites or use of restriction enzymes.
15 sk that rarely can be achieved using type-II restriction enzymes.
16 to protect phage DNA from a wide variety of restriction enzymes.
17 milarities between this and other classes of restriction enzymes.
18 e breakage of the P-O3' bond, in common with restriction enzymes.
19 kb DNA ladders when digested with two common restriction enzymes.
20 ragments are generated using frequent cutter restriction enzymes.
21 e limited in resolution by their reliance on restriction enzymes.
22 repeat as demonstrated by an increase in the restriction enzyme accessibility and in the size of DNA
23 e further substantiated by the findings of a restriction enzyme accessibility assay and TSA-stimulate
27 apping dynamics is associated with increased restriction enzyme accessibility of histone-bound DNA af
32 8)) in a gene cluster that encodes antiviral restriction enzyme activators (OAS1, OAS2 and OAS3); on
33 tiplex assay was applied to the detection of restriction enzymes activities as well as base excision
34 -molecule amplification; introduction of the restriction enzymes affected both the rate and the "fate
39 he isolated DNA is suitable for digestion by restriction enzymes, amplification by PCR and Southern b
42 nd circulation periods were characterized by restriction enzyme analysis of viral DNA and select gene
43 n of methylation using methylation-sensitive restriction enzyme analysis or focused on single-copy ge
48 ique that involves cutting the genome with a restriction enzyme and isolating the targeted sequences.
49 representations from a methylation-sensitive restriction enzyme and its methylation-insensitive isosc
50 he chromatin is solubilized, digested with a restriction enzyme and ligated at low DNA concentration
51 y was used to test this model for the EcoRII restriction enzyme and provide direct visualization and
52 The HMW DNA is digested using an appropriate restriction enzyme and size-fractionated using pulsed-fi
53 which is greatly influenced by the choice of restriction enzyme and the frequency at which it can cut
54 n is structurally similar to classic Type II restriction enzymes and contains the endonuclease cataly
56 ecific factors, including selectivity of DNA restriction enzymes and fragmentation method, as well as
57 present a model for restriction by type III restriction enzymes and highlight the similarities betwe
58 going molecular cloning steps and the use of restriction enzymes and ligases necessary in other avail
59 bout recognition and cleavage sites for both restriction enzymes and methyltransferases as well as co
60 samples digested with methylation sensitive restriction enzymes and mock digested are then transform
64 among the most important characteristics of restriction enzymes and their corresponding methylases,
66 was first digested by methylation-sensitive restriction enzymes and then precipitated by methyl-bind
67 ins how ArdA can bind and inhibit the Type I restriction enzymes and we demonstrate that 6 different
68 and at high resolution the DSBs induced by a restriction enzyme, and we characterize their impact on
69 -DNA precipitation and methylation-sensitive restriction enzymes, and laser-capture microdissection f
70 some structural insights into the working of restriction enzymes, and offers some preliminary data ne
71 tors of terminases, helicases, translocating restriction enzymes, and protein translocases possess a
72 se superfamily of proteins that include many restriction enzymes, and the structure of the active sit
73 plied to study both protein and nucleic acid restriction enzymes, and was demonstrated to accurately
74 s when we use data generated using different restriction enzymes, and when we reconstruct structures
76 the reduction in genomic complexity with the restriction enzymes approach, genotyping-by-sequencing.
81 nded an observed association, using a custom restriction-enzyme assay to analyze the DNA in 158 sampl
82 y, using a combination of Sanger sequencing, restriction enzyme assays and targeted deep sequencing.
84 prototypical DNA-binding protein, the PvuII restriction enzyme, at microfluidic-encapsulated, DNA-mo
85 es increased the computed accessibility to a restriction enzyme, at sites as distant as 40 nm, due to
86 uplex is substituted by RNA we find that six restriction enzymes (AvaII, AvrII, BanI, HaeIII, HinfI a
87 ng prevents endonuclease activity by type II restriction enzymes BamHI, EcoRI and SalI, and inhibitio
88 w that the CBASS effector NucC is related to restriction enzymes but uniquely assembles into a homotr
90 The slow evolution and engineering of new restriction enzymes calls for alternative strategies to
92 native strategies to design novel and unique restriction enzymes capable of binding and digesting spe
93 e-wide analyses of DNA modifications rely on restriction enzymes capable of digesting genomic DNA at
94 ses are consistent with the observation that restriction enzymes caused extensive DNA cleavage in the
96 ion sites can be highly biased by the use of restriction enzyme cleavage of genomic DNA, which is a l
97 al analysis by polymerase chain reaction and restriction enzyme cleavage) assay for quality control o
99 s available for the systematic evaluation of restriction enzyme combinations that can enrich for cert
101 eover, we show in silico that cuRRBS-defined restriction enzymes consistently out-perform MspI digest
102 Thus, germline expression of mitochondrial restriction enzymes creates a powerful selection and has
104 sing confocal Raman spectra, S1 nuclease and restriction enzymes demonstrated that the structural dif
105 Zinc finger nucleases (ZFNs) are engineered restriction enzymes designed to target specific DNA sequ
106 ysis with hemoglobin is demonstrated through restriction enzyme detection, and an enhancement in sens
107 were screened for the c.828+3A>T mutation by restriction-enzyme digest, single-strand conformational
108 ntional cloning requires the purification of restriction-enzyme-digested vectors prior to the ligatio
110 bisulfite sequencing, methylation sensitive restriction enzyme digestion and array-based detection t
111 Standard BioBrick assembly normally involves restriction enzyme digestion and ligation of two BioBric
112 (scCGI-seq), combining methylation-sensitive restriction enzyme digestion and multiple displacement a
113 on and adduct bypass and a slightly modified restriction enzyme digestion and post-labeling assays re
114 ntrol modules capable of mutation sensing by restriction enzyme digestion and real-time on-chip micro
115 d from an avian erythroleukemia cell line by restriction enzyme digestion and released from the nucle
116 ally, we revert the ligation process using a restriction enzyme digestion and religate the resulting
117 A real-time RT-PCR pyrosequencing assay, a restriction enzyme digestion assay, and direct sequencin
118 for this hypothesis, we assessed, by using a restriction enzyme digestion coupled with LC-MS/MS metho
119 to pro-B cell lines and HS1 is accessible to restriction enzyme digestion exclusively in normal pro-B
121 de polymorphism (SNP) assay based on PCR and restriction enzyme digestion or sequencing of the amplif
122 onverted to an expression vector by a simple restriction enzyme digestion with MfeI (to "drop-out" th
123 f the region encompassing the polymorphisms, restriction enzyme digestion, and detection of fragments
126 enic epitope, as reported by diagnostic NciI restriction enzyme digestion, DNA sequencing, and wester
127 formation of the tetrahedron was verified by restriction enzyme digestion, Ferguson analysis, and ato
128 renal carcinoma cell lines was assessed with restriction enzyme digestion-coupled PCR and bisulfite g
135 oint mutations uses nested PCR combined with restriction enzyme digestions, which is laborious and ti
136 comprehensive database of information about restriction enzymes, DNA methyltransferases and related
137 comprehensive database of information about restriction enzymes, DNA methyltransferases and related
142 C is one of the three modification-dependent restriction enzymes encoded by the Escherichia coli K12
146 EcoP15I is the prototype of the Type III restriction enzyme family, composed of two modification
147 ific DNA nucleases produced by fusion of the restriction enzyme FokI endonuclease domain (FN) with th
148 Lastly, we show that a proper choice of restriction enzyme for the optical map may substantially
151 press the yeast HO endonuclease or bacterial restriction enzymes for single or multiple DSB formation
152 ots can be released by simple digestion with restriction enzymes for subsequent characterization by s
153 target, queries over 1.3 M independent NspI restriction enzyme fragments in the 200 bp to 1100 bp si
155 this approach include facile amplification, restriction enzyme-free library generation, and a signif
156 d-type levels of homologous recombination at restriction enzyme-generated breaks but is deficient in
158 t this is a reliable method to detect active restriction enzyme genes in newly sequenced genomes, the
160 ngle-insert cloning of DNA fragments without restriction enzymes has traditionally been achieved usin
164 e developed HiCap, which combines a 4-cutter restriction enzyme Hi-C with sequence capture of promote
166 similar in structure to two other monomeric restriction enzymes, HinP1I (G CGC) and MspI (C CGG), wh
167 e performed a previously reported assay, the restriction enzyme hotspot mutation assay (IgkappaREHMA)
170 in structure of the MHRE exhibited increased restriction enzyme hypersensitivity and enhanced histone
172 and breaks (DSBs) induced by a site-specific restriction enzyme, I-SceI or by ionizing radiation (IR)
175 he expression of > 600 genes was affected by restriction enzymes in cells lacking PT, including induc
176 al mechanism of PT-dependent DNA cleavage by restriction enzymes in the face of partial PT modificati
177 pESBL in new hosts by blocking the action of restriction enzymes, in an orientation-dependent fashion
178 , we report that both ionizing radiation and restriction enzymes increase the frequency of microhomol
180 Efficient cleavage of these 100-mers by a restriction enzyme indicates that the DNA adopts a nativ
181 A and render nucleosomal DNA accessible to a restriction enzyme, indicative of a chromatin-remodeling
182 y promote large-scale genomic deletions from restriction enzyme-induced DSBs; third, they are require
185 (MSCC) with the HpaII methylation-sensitive restriction enzyme is a cost-effective method to pinpoin
190 several algorithms and modules, updated the restriction enzyme library, added batch processing capab
196 The procedure consists of three steps: a restriction enzyme-mediated ligation of an adapter to th
197 bisulfite conversion, methylation-sensitive restriction enzymes, methyl-binding proteins and anti-me
198 tation (MeDIP-seq) and methylation-sensitive restriction enzyme (MRE-seq) sequencing data to predict
199 ombined MeDIP-seq with methylation-sensitive restriction enzyme (MRE-seq) sequencing for comprehensiv
200 A is digested by the methylation-insensitive restriction enzyme MspI to generate short fragments that
201 ibe the application of methylation-sensitive restriction enzymes (MSRE) and quantitative PCR (qPCR) t
203 ning the use of designed ZFNs and commercial restriction enzymes, multiple plant expression cassettes
208 reporter plasmids in Escherichia coli using restriction enzymes or sgRNA/Cas9 DNA scission to capita
209 ted bacterial DNA, samples are fragmented by restriction enzymes or sonication, then thermocycled in
212 he use of methylation-sensitive isoschizomer restriction enzyme pairs and/or sodium bisulfite treatme
215 use model expressing a mitochondria-targeted restriction enzyme, PstI or mito-PstI, to damage mitocho
217 t mapping method that combines 5hmC-specific restriction enzyme PvuRts1I with a 5hmC chemical labelin
219 ifies the ATP hydrolysis scheme for Type III restriction enzymes, questions remain as to why multiple
220 modification genes and an adjacent putative restriction enzyme (RE) operon likely form a restriction
221 lecular manipulation methods, we investigate restriction enzyme reactions with double-stranded (ds)DN
223 e allele read frequency, strain specificity, restriction enzyme recognition site changes and flanking
226 on a user-defined template, (3) selection of restriction-enzyme recognition sites in the spacer betwe
228 erases generating 3-OH and 5-P ends, but one restriction enzyme (restriction glycosylase) excises unm
231 ation of chromosomal DNA with McrBC and DpnI restriction enzymes, single-stranded cDNA (ss-cDNA) liga
232 ed representation sequencing approach called Restriction Enzyme Site Comparative Analysis (RESCAN) to
234 The ELAN method uses judicious choice of restriction enzyme sites coupled with simultaneous diges
235 lculated by using an RNA 3 reporter carrying restriction enzyme sites created by introducing silent m
236 plified by flanking primers that can include restriction enzyme sites for inserting the product into
237 rimarily occurs within two consecutive HpaII restriction enzyme sites in a tissue-specific manner, mo
238 ever, Clustal DNA alignments identified AFLP restriction enzyme sites that were undigested in the tis
240 with single UV lesion surrounded by multiple restriction enzyme sites, we demonstrate in vitro that D
241 230 bp DNA segment containing five pairs of restriction enzyme sites, which can be used to produce a
242 r" particles, interacted with a DNA-cleaving restriction enzyme, SmaI, whose activity degraded the dr
243 f the cloned gmr genes in vivo and suggest a restriction enzyme specific for sugar modified HMC DNAs.
244 ification (RT-LAMP), and linear degradation (restriction enzymes) starting with hepatitis C viral RNA
245 0's DNA is resistant to cutting with several restriction enzymes, suggesting DNA modification, but de
246 sites including options for the selection of restriction enzyme suppliers, and (4) output files desig
247 restriction analysis (ARDRA) recruiting the restriction enzyme Taq I and compared to the virtually d
248 ral and regulatory chromatin interactions by restriction enzyme targeting and two-step proximity liga
253 inc finger nucleases (ZFNs)-hybrid synthetic restriction enzymes that can be specifically designed to
255 ctivity following BAC digestion with several restriction enzymes that cleaved different sets of genes
259 al that BsrDI and BtsI belong to a family of restriction enzymes that possess two catalytic sites: a
260 The structure of AgeI is similar to the restriction enzymes that share in their target sites a c
261 loci encoding type IV methylation-dependent restriction enzymes that target DNA containing C5-methyl
262 ures offer a rare opportunity to compare two restriction enzymes that work on exactly the same DNA su
264 he BcgI endonuclease exemplifies a subset of restriction enzymes, the Type IIB class, which make two
265 age threshold for permeation of DNA bound to restriction enzymes through a nanopore that is associate
267 ation of random fragmentation and a type III restriction enzyme to derive a densely covering sgRNA li
268 situ DNase Hi-C obviates the dependence on a restriction enzyme to digest chromatin, instead relying
271 me that expresses a mitochondrially targeted restriction enzyme to induce tissue-specific homoplasmy
273 be combined with the nuclease domain of FokI restriction enzyme to produce TAL effector nucleases (TA
274 ave developed modification-dependent type IV restriction enzymes to defend the cell from T4-like infe
275 samples, reduces genome complexity by using restriction enzymes to divide the genome into fragments
276 ures of DGS include (1) use of high-frequent restriction enzymes to fractionate the genome into small
277 hich micrococcal nuclease is used instead of restriction enzymes to fragment chromatin, enabling nucl
278 We leverage codon degeneracy and type IIs restriction enzymes to generate orthogonal ligation link
279 method of genome reduction that employs two restriction enzymes to generate overhangs in opposite or
281 tion analysis, in which OTU DUBs are used as restriction enzymes to reveal linkage type and the relat
283 ubsequent restriction analysis with a single restriction enzyme, Tsp5091, yielded distinct RFLP patte
284 protein can be purified and forms an active restriction enzyme upon addition of restriction subunits
285 genomic DNAs treated with four endonuclease restriction enzymes using both chamber and droplet dPCR
288 G2-C-G3-C-C recognition sequence of the NarI restriction enzyme were compared, using the oligodeoxynu
289 ease C gene of H. pylori and Sau-3 and Hha I restriction enzymes were used for polymerase chain react
292 esearch on zinc finger proteins and the FokI restriction enzyme (which revealed a bipartite structure
294 ining numerous pores, allowing the access of restriction enzymes while preventing the DNA from physic
297 analysis by analyzing the cleavage sites of restriction enzymes within exon 1 of the AR gene and fou
298 PFGE profiles were generated by use of six restriction enzymes (XbaI, BlnI, SpeI, SfiI, PacI, and N
299 roved T-vector system takes advantage of the restriction enzyme XcmI to generate a T-overhang after d
300 q to determine the frequency and spectrum of restriction-enzyme-, zinc-finger-nuclease-, and RAG-indu