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1 s easily bypassed R-loops on either template strand.
2 esence of PT between G and A on the opposite strand.
3 ybridization promotes cleavage of the target strand.
4 ncentration of an output DNA oligonucleotide strand.
5 actual nucleotide sequence of the guide DNA strand.
6 e hybridization of the labeled complementary strand.
7 of the RCL into serpin beta-sheet A as a new strand.
8 the phospho-sugar backbone of the non-target strand.
9 first strand is hydrogen-bonded to the final strand.
10 ed to be related to the polyaldehyde kefiran strands.
11 s even one AID deamination event on both DNA strands.
12 t creates an embedded ring around one of the strands.
13 cation, such as covalent crosslinking of DNA strands.
14 olomon outer code that is interleaved across strands.
15 n two conformations with a few DNA "trigger" strands.
16 the tested positions of sense and antisense strands.
17 consisted of both peptides and nucleic acid strands.
19 Targeted areas revealed intra- and inter-strand aggregation indicating the fiber to be collagen l
20 ucial role in RNA priming by aiding template strand alignment in the active site for high-affinity bi
22 in-depth analysis of the alpha-helix-to-beta-strand and beta-strand-to-alpha-helix transitions and do
23 uclear antigen (PCNA) replicates the lagging strand and cooperates with flap endonuclease 1 (FEN1) to
24 GGTGG 3'), RecB's nuclease cuts the 3'-ended strand and loads RecA strand-exchange protein onto it.
27 y on the DNA structure containing the single-stranded and duplex DNA junction with the allowed extens
29 depicted as simplistic combinations of beta-strands and alpha-helices, the actual properties and fun
30 wo types of synthases that polymerize glycan strands and crosslink them: class A penicillin-binding p
31 r of the Top2 homodimer nicks one of the DNA strands and forms a covalent phosphotyrosyl bond with th
32 ging buffer, sequence repeats to the docking strand, and a spacer between the docking strand and the
33 vivo, detected almost exclusively on one DNA strand, and is incomplete: typically, around 40% of susc
34 ion, whereas RNF8 is not required for single-strand annealing repair involving extensive end resectio
35 ture revealed a novel fold comprising a four strand antiparallel beta-sheet and two helical turns sta
37 transcription initiation by opening the DNA strands around the transcription start site and phosphor
38 ge of loading soluble N onto the nascent RNA strand as it exits the polymerase during RNA replication
39 molecules containing deamination on both DNA strands at the acceptor switch region correlates with th
40 lateral gate opening and sliding of the beta-strands at the gate interface for N. gonorrhoeae, indica
41 ed heterozygous missense mutations in single-strand binding protein 1 (SSBP1) in 5 unrelated families
43 -deficient cells also exhibit reduced double-strand break (DSB) formation and increased survival upon
44 that the minimal requirement for DNA double-strand break (DSB) formation is as low as even one AID d
45 meres in BLM-deficient cells involved double-strand break (DSB) formation, in this case by the SLX4/S
46 ate repair outcomes of a Cas9-induced double-strand break (DSB) introduced on the paternal chromosome
47 reviously, XRN2 was implicated in DNA double strand break (DSB) repair and in resolving replication s
49 This perspective will highlight DNA double-strand break (DSB) repair pathways in human cells, how D
52 ed with experimental data in terms of Single Strand Break (SSB) yields for plasmid and Double Strand
55 re HR, whereas KAT5 depletion rewires double strand break repair by promoting 53BP1 binding to double
57 DNA fidelity through diverse roles in double-strand break repair, replication stress, and meiosis.
58 hway activation and also hindered DNA double-strand break repair, which both led to improved radiosen
61 ansposition assay that identified the double-stranded break (DSB) repair and Fanconi anemia (FA) fact
62 he distance between the Cas9-mediated double-stranded break (DSB) to the mutation site, rather than D
65 cause more telomeric and subtelomeric double-strand breaks (DSBs) and increase VSG switching rate.
68 tion starts with the formation of DNA double-strand breaks (DSBs) at specific genomic locations that
69 anistically, BGL3 is recruited to DNA double-strand breaks (DSBs) by PARP1 at an early time point, wh
70 r cells to A3B-mediated mutations and double-strand breaks (DSBs) by perturbing canonical base excisi
72 nation were randomly distributed, the double-strand breaks (DSBs) that initiate recombination are not
73 rge spectrum of DNA damage, including double strand breaks (DSBs) that interfere with replication.
74 gion (PAR), in which the formation of double-strand breaks (DSBs), pairing and crossing over must occ
75 11 mutants, which lack endogenous DNA double-strand breaks (DSBs), to induce a single DSB by Mos1 tra
77 leterious types of DNA damage are DNA double-strand breaks (DSBs), which can cause cell lethality if
82 A single-strand breaks (SSBs) and DNA double-strand breaks (DSBs); lesions that can trigger neurodege
83 implicated in the repair of both DNA single-strand breaks (SSBs) and DNA double-strand breaks (DSBs)
84 hat is recruited and activated by DNA double-strand breaks and functions as an important sensor of re
85 ted by Cas9 efficiently generates DNA double strand breaks at the target locus, followed by repair th
86 in (IL) 6 and IL8, and markers of DNA double-strand breaks but reduced markers of DNA repair, indicat
93 ase 5 (EXO5) gene in androgen-induced double strand breaks repair via homology-directed repair pathwa
94 le CRISPR/Cas9 strategy to induce DNA double strand breaks specifically in the telomeres, ChIP, telom
96 ion does not reflect the abundance of double-strand breaks, detected by proxy as RAD51 foci at leptot
97 P1 stability and 53BP1 recruitment at double-strand breaks, providing yet another mechanism of 53BP1
98 ains sensitive to DNA damage, such as single strand breaks, the most frequently-occurring lesions tha
107 inhibition will impair the repair of single stranded breaks, causing synthetic lethality in tumors w
108 h genomic maps of site-specific endonuclease strand-breaks in purified DNA from Eschericia coli, phos
109 selectively prepared from the same molecular strand by using transition-metal and lanthanide ions to
110 s centers on the cleaving of one or both DNA strands by a Cas protein, an endonuclease, followed by m
112 ucture) for cutting and rejoining of a ssDNA strand can be combined with two different types of C-ter
115 s possible to form pure heterotrimeric three-stranded coiled coils by combining three distinct charac
116 Reverse genetics based on a tandem minus-strand complementary DNA genome copy under the control o
118 uence as the relaxosome, which nicks the DNA strand destined for transfer and couples the nicked subs
119 tures, which makes accessing the encased DNA strands difficult, or chemical modification, such as cov
120 loped breakpointR to detect local changes in strand directionality of aligned Strand-seq data, to ena
130 ause of stochastic uncoupling of the leading-strand DNA polymerase from the replication fork DNA heli
131 thereby challenging the notion that lagging-strand DNA polymerases frequently dissociate from replis
133 DP-rcDNA have an identical 3' terminus of (-)strand DNA, the 3' terminus of (+)strand DNA on DP-rcDNA
134 chlorella virus-1 (PBCV-1) is a large double-stranded DNA (dsDNA) virus that infects the unicellular
135 rface exclusively occupies the strong double-stranded DNA (dsDNA)-binding surface on cGAS and sterica
137 rate of ScDmc1 results from its lower single-stranded DNA (ssDNA) affinity, compared to that of ScRad
139 c protein that potentially binds with single-stranded DNA (ssDNA) in a manner similar to human PC4, t
141 ia binding of RPA, RAD51, and DMC1 to single-stranded DNA (ssDNA) substrates created after formation
142 A-RNA hybridization and the displaced single-stranded DNA (ssDNA), have been identified in bacteria,
144 ceptor genomic sequences subjected to double-stranded DNA breaks (DSBs) made by programmable nuclease
146 Following the detection of cytosolic double-stranded DNA from viral or bacterial infection in mammal
148 ure rate and translocation of 1-5 kbp double-stranded DNA molecules through solid-state nanopores in
149 introducing multiple, short pairs of single-stranded DNA overhangs to components of the structure an
150 Here we describe a kethoxal-assisted single-stranded DNA sequencing (KAS-seq) approach, based on the
152 ring cell division, FtsK translocates double-stranded DNA until both dif recombination sites are plac
154 The Nudiviridae are a family of large double-stranded DNA viruses that infects the cells of the gut i
155 al protein is a key component of many double-stranded DNA viruses, governing capsid assembly and geno
156 ops (RNA-DNA hybrids with a displaced single-stranded DNA) create DNA damage and lead to genomic inst
157 ch viral RNA genome is converted into double-stranded DNA, is that it is slow and non-processive.
159 ry site for Exo1 in vitro to generate single-stranded DNA, which would be susceptible to both A3B and
160 subunits of LMO2 and LDB1 as well as single-stranded DNA-binding protein (SSBP) cofactors and DNA-bi
162 ino acid changes in the mitochondrial single-stranded DNA-binding protein, a crucial protein involved
167 gle 5'p-rN1-(2'-5')-N2 unit in the antisense strand does not alter the 'clover leaf' bend and sugar p
170 te immune responses against cytosolic double-stranded (ds)DNA arising from genotoxic stress and patho
171 We characterized the gut microbiomes of stranded dwarf (Kogia sima) and pygmy (K. breviceps) spe
174 beta-Coronaviruses are a family of positive-strand enveloped RNA viruses that includes the severe ac
175 s identify temporal coordination between DSB strand exchange and homolog pairing as a critical determ
176 ts from non-crossovers to crossover-specific strand exchange, explaining Mph1's apparent anti-crossov
178 charomyces cerevisiae glucokinase, forms two-stranded filaments with ultrastructure that is distinct
180 Therefore, we identify miRNA whose 5p/3p strands function together to regulate core tumorigenic p
181 2) on the damaged template, nascent leading-strand gaps were generated by replisome lesion skipping.
183 w how CHMP1B first polymerizes into a single-stranded helical filament, shaping membranes into modera
186 dynamic and can transition between parallel-stranded homo-base paired duplex and antiparallel unimol
189 le nonnative conformations and that the edge strands in one beta-sheet (the DAGH sheet) are particula
190 t polynucleotide ligases that seal 3'-OH RNA strands in the context of 3'-OH/5'-PO4 nicked duplexes.
192 origami nanostructures bearing complementary strands into micrometer-long one-dimensional arrays.
196 ons, NMR data indicate that this second beta-strand is organized into a parallel beta-sheet despite t
199 nd much to our surprise, we also find single-stranded loops of minimal G4s within individual LG4 loci
200 ions that Ctf18-RFC plays within the leading strand machinery via an interaction with the catalytic d
201 homologous recombination, 5'-terminated DNA strands must first be resected to reveal 3'-overhangs.
204 excision repair (NER) of the nontranscribed strand (NTS) of genes in an asymmetric manner, with fast
211 with two catalytic sites, and cleave the two strands of duplex DNA simultaneously, in a single bindin
214 These included Cys pairs on adjacent beta-strands of the N-domain (intra-N) and Cys pairs that bri
215 rase from the 5' end of the minus strand [(-)strand] of viral relaxed circular DNA (rcDNA), which gen
217 les by hybridization with biotinylated sense-strand oligonucleotides coupled to streptavidin magnetic
220 corroborated this unexpected scheme for beta-strand organization using multiple two-dimensional NMR a
222 all lengths and types (5' and 3') of single-stranded overhangs, if present, on each DNA fragment wit
223 engue virus and Zika virus, contain a single-stranded positive sense RNA genome that encodes viral pr
226 1) During unperturbed replication, single-stranded regions formed because of stochastic uncoupling
229 -in which warp and weft single-chain polymer strands remain associated through periodic mechanical en
231 aps are thought to accumulate on the lagging strand, resulting in DNA damage-checkpoint arrest and ce
233 demonstrate that Piezo1 in ECs senses single-strand RNA (ssRNA) from intestinal microbiota to promote
236 iRNAs can be used to construct a long double-strand RNA and expressed through virus-induced gene sile
237 (HAZV) is an enveloped trisegmented negative-strand RNA virus classified within the Nairoviridae fami
239 iruses are enveloped, nonsegmented, negative-strand RNA viruses that cause a wide spectrum of human a
240 ing the mechanism of replication of positive-strand RNA viruses, which are major pathogens of plants,
243 provide significant protection of the double-stranded RNA (dsRNA) replication intermediate against th
245 ADARs [adenosine deaminases acting on double-stranded RNA (dsRNA)] together with the endogenous RNA i
246 uses in the Tombusviridae family have single-stranded RNA (ssRNA) genomes with T=3 icosahedral protei
247 thway, which comprises the sensing of double-stranded RNA and DNA (dsRNA/dsDNA) followed by IFNalpha/
250 enous release of type I IFNs with the double-stranded RNA mimetic poly(I:C) likewise produces pain hy
251 i) is a natural process through which double-stranded RNA molecules can silence the gene carrying the
253 ptibility compared with other enteric single-stranded RNA viruses (e.g., Echovirus 12, feline caliciv
254 -CoV spike protein and nucleoprotein, double stranded RNA, and RNA probe for spike genes were evaluat
255 nstruct, the DGCR8 core, contains two double-stranded RNA-binding domains (dsRBDs) and a C-terminal t
256 hat captures the power law dependence on the strand's valency, and the inverse relationship to the ru
257 o a spiral translocation along dsDNA and DNA strand separation by the ThM motif, revealing an unconve
259 -DNA interactions, revealing a mechanism for strand separation, and show Csm3/Tof1 "grip" duplex DNA
261 changes in strand directionality of aligned Strand-seq data, to enable fine-mapping of sister chroma
262 and scaffolding capabilities of single-cell strand sequencing(1,2) with continuous long-read or high
264 ind to origins of replication at many double-stranded sites and also at AT-rich regions where single-
268 ols for Strand-seq analyses must capture the strand-specific information embedded in these data.
269 the impact of this increased activity on the strand-specific role of Pole in DNA replication and the
272 nd that the addition of mitochondrial single-stranded (ss) DNA-binding protein both influences the wa
273 iral polymerase from the 5' end of the minus strand [(-)strand] of viral relaxed circular DNA (rcDNA)
277 ation encounters with R-loops on the leading-strand template (co-directional) resulted in gaps in the
278 the nascent leading strand, whereas lagging-strand template R-loops (head-on) had little impact on r
280 r, the manner in which modified siRNA duplex strands that comprise the SNA lead to gene silencing is
282 After sequencing of the remaining intact strands, this allows assignment of Hi-C products as inte
283 DNA nanotechnology uses oligonucleotide strands to assemble molecular structures capable of perf
285 s of the alpha-helix-to-beta-strand and beta-strand-to-alpha-helix transitions and domain motions dis
286 complementarity of the invader to the single-stranded toehold provides the free energy bias of the re
287 complex with hairpin DNA intermediates and a strand transfer complex capturing the integration step.
288 et capture complex) and two forms of the RAG strand transfer complex that differ based on whether tar
291 nsporters adopt a TpsB fold, containing a 16-stranded transmembrane beta-barrel connected to two peri
293 nal) resulted in gaps in the nascent leading strand, whereas lagging-strand template R-loops (head-on
294 ology affects the chemical properties of the strand: whereas the tighter 5(2) knot can bind two diffe
295 -thus held together by-a continuous scaffold strand, which in turn limits the modularity and function
297 eins coordinate polymerization of new glycan strands with their crosslinking to the existing peptidog
298 g DNA is critical and involves complementary strands, with azobenzene moieties deliberately staggered