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2 The delivery of large DNA vectors (>100 000 bp) remains a limiting step in the engineering of mammal
6 circular mt genomes range from 13,948-14,019 bp in size and encode 12 protein-coding genes, 2 ribosom
7 sequences from California (mt-CApsy, 15,027 bp) and Florida (mt-FLpsy, 15,012 bp), USA, were acquir
13 s have been reported, but all result in a +1-bp frameshift and generate a novel protein C terminus.
18 eight marker plasmids which produce both 100 bp and 1 kb DNA ladders when digested with two common re
21 ction of structural variants from length 100 bp to 4 kbp, and species and strain-specific identificat
22 rived DNA fragments in the size range of 100 bp to 118 kbp, fragments large enough to contain whole o
24 However, for DNA fragments shorter than 100 bp, all sets of parameters performed poorly yielding res
26 nrichment of specific DNA motifs in the 1000 bp proximal promotor, some of which associate with known
27 provide reference fragments from 50 to 10000 bp at a fraction of the cost of commercial DNA ladders.
28 (ORF) lengths of TmELO1 and TmELO2 were 1005 bp and 972 bp, respectively and the corresponding peptid
31 RgsA inhibits fis expression via an 11 + 11 bp RNA duplex, whereas this interaction region is not su
35 ida fusca type I-E Cascade: (1) unwinding 11 bp of dsDNA at the seed-sequence region to scout for seq
36 uencing of ELF3 in ICCV 96029 revealed an 11-bp deletion in the first exon that was predicted to resu
41 P sequencing in human cells, we found the 11-bp NREs co-localizing with the WRE in 45%-71% of the pea
42 yonic stem cells, genomic deletion of the 11-bp NREs in the promoter elevated Brachyury expression.
44 ties with a linking hinge, which bound to 12 bp in human telomeric repeats (5'-(TTAGGG)n-3') and coul
45 , 16 synonymous nucleotide changes, and a 12-bp insertion strongly associated with the E7 T20I/G63S v
46 o different DNA regions in beef (106 and 120-bp) and buffalo (90 and 138-bp) mitochondrial genes to d
47 eloped RNA-Seq procedures, as well as a 1200 bp 5 RACE product coupled with PACBio sequencing that ca
48 nd 126 bp fragments for TT, 294, 168 and 126 bp fragments for CT and undigested PCR product 294 bp in
49 he restriction digestion yielded 168 and 126 bp fragments for TT, 294, 168 and 126 bp fragments for C
50 and genome resequencing, we identified a 129-bp deletion in Glyma.11G190900 encoding Argonaute5 (AGO5
52 e (RNAP) holoenzyme unwinds approximately 13 bp of promoter DNA, forming an RNAP-promoter open comple
54 PRE, and also to a proximal region near -130 bp that contains PRE half-sites and a RA response elemen
55 as recruited to the -1.1 kb PRE and the -130 bp PRE/RARE regions with P4, but not RA alone or RA plus
57 CENP-A protects DNA lengths centered on 133 bp, consistent with octameric nucleosomes with DNA unwra
58 e classical okra leaf shape allele has a 133-bp tandem duplication in the promoter, correlated with e
60 ls, we found that a novel AP-1 site at -1363 bp of the human TF promoter region is highly conserved a
61 eef (106 and 120-bp) and buffalo (90 and 138-bp) mitochondrial genes to discriminate beef and buffalo
63 e tobacco hornworm, Manduca sexta, and a 140-bp region in the moricin promoter contains binding sites
64 hree forkhead (Fkh)-binding sites in the 140-bp region of the moricin promoter and several Fkh-bindin
68 ertile strain, but only one copy of this 146-bp motif (a part of the MAT1-1-1 gene) was present in th
69 The nucleosome contains approximately 147 bp of DNA wrapped approximately 1.7 times around a centr
71 analyzed through the amplification of a 148 bp fragment from the cyt b gene with a universal primer
73 tively large minimum sequence lengths (>/=15 bp) compared with the average length of known transcript
75 vealed that a region between nucleotides -15 bp and -9 bp of the Smad7 promoter was required for the
77 ter and its serial deletions identified a 15-bp repressor element at the 3'-UTR of CDKN1A, which cont
78 extends to the regions flanking the core 15-bp site, where isothermal calorimetry measurements revea
82 nome sequencing using short-read (e.g., <150 bp), next-generation sequencing technologies has reinvig
83 When homology at the matched end is </=150 bp, efficient repair depends on the recombination enhanc
84 When homology at the second end is </=150 bp, second-end capture becomes inefficient and repair sh
88 intermediate particles containing 154 or 161 bp, corresponding to 7 bp protruding from one or both si
90 ed force-extension curves on arrays with 167-bp NRLs best supported an underlying structure consistin
91 fied TALENs or TALE-TF plasmids targeting 17 bp target sequences can be produced within three days, w
94 Luciferase reporter assays highlighted a 173-bp region of CXCL8/IL-8 promoter that responded to ZO-1.
95 ence of croaker elovl4, which contained 1794 bp (excluding the polyA tail), including 909 bp of codin
96 ted p53 REs contain spacers between 1 and 18 bp; however, their functional significance is unclear at
97 t detection algorithm missed a pathogenic 18 bp duplication in myosin binding protein C (MYBPC3) beca
104 ole-exome sequencing revealed a homozygous 2 bp deletion, n.c.G623DEL-TC (p.V208VfsX20), in Arp2/3 co
105 hypotonia, and we identified an inherited 2 bp deletion causing a frameshift in BRPF1 (c.1052_1053de
106 t ebouriffe (ebo/ebo) harbors a homozygous 2-bp frameshift mutation in Lrrc8a that truncates the 15 t
107 of random genomic fragments upstream of a 20-bp barcode is constructed, and decoded by paired-end seq
108 CES contain one or more approximately 20-bp GA-rich sequences called MSL recognition elements (MR
109 tified a complex homozygous 4-kb deletion/20-bp insertion in DSTYK (dual serine-threonine and tyrosin
114 MuGENT require large arms of homology (>2000 bp) surrounding each genome edit, which necessitates lab
120 g DNA packaging (pac) site containing two 21-bp direct repeats and a major terminase cleavage site in
121 d mutations, we determined that the first 22 bp of exon 3 contain cis-acting elements that enhance th
127 posed of four hairpin moieties, targeting 24 bp in telomeric repeats, the longest reported binding si
130 targeted methylation were observed around 25 bp upstream and 40 bp downstream of the PAM site, while
131 of a 197 bp nucleosome bearing symmetric 25 bp linker DNA arms in complex with vertebrate linker his
134 humans: a mean converted tract length of 250 bp and a probability of [Formula: see text] per generati
139 12 species of Drosophila, we discovered a 29-bp consensus sequence that we designated as the Clock-As
142 irectly adjacent bases, allowed 1-, 2-, or 3-bp substitutions in MMR-proficient mouse embryonic stem
143 0 bp downstream of the PAM site, while 20-30 bp of the binding site itself are protected against meth
145 ing technique that captures approximately 30 bp long ribosome-protected mRNA fragments during transla
150 e, amount to 17,579 unigenes longer than 300 bp were selected and analyzed from 68,547 candidates.
155 ntifies binding specificity over a large (31-bp) binding site by iteratively fitting a feature-based
157 The final assembly resulted in a 1,165,328 bp continuous gap free sequence with 35 manually curated
159 r, we uncover a transition point in which 34 bp of telomeric (TG1-3)n repeat sequence renders a DNA e
161 mitochondrial genome is comprised of 16,345 bp, and contains the expected 37 genes and control regio
163 , have additional deletions ranging from 350 bp to 6900 bp in non-contiguous loci on several chromoso
164 eract with and activate the rat proximal 358-bp promoter/enhancer (p358P/E) of lung alveolar epitheli
166 SEC-MALLS analyses of CodY binding to 19-36-bp operator fragments are consistent with isoleucine-dep
167 We show that this effect is mediated by a 36-bp insulator located in the foamy virus long terminal re
168 zation and the lengths are 15,352 and 15,364 bp with an A + T content of 78.7% and 76.6%, respectivel
175 n were observed around 25 bp upstream and 40 bp downstream of the PAM site, while 20-30 bp of the bin
177 f homology can be reduced to as little as 40 bp while still promoting integration of genome edits at
178 iments suggested that site transfers over 40 bp followed a DNA 'hopping' pathway in human cells, indi
179 allele 9R of dopamine transporter SLC6A3 40 bp variable tandem repeat polymorphism (VNTR) and for 6/
181 eferentially to DNA molecules longer than 40 bp, and two CAF1-H3-H4 complexes concertedly associate w
182 othesis, BoHV-1 DNA fragments (less than 400 bp) containing potential GR and KLF binding sites were i
186 transgene with coincident deletion of 5,444 bp of host genome within the gene Gm12695 has striking m
187 gulatory activity was contained within a 455 bp element derived from the CBX3 region when tested in t
188 class II genetic risk to three SNPs only 47 bp apart, located within a predicted super-enhancer in a
193 ation events at both short ( approximately 5 bp) and long ( approximately 1 kb) genomic distances, sh
197 variants (SNVs) plus 0.7 million small (1-50 bp) insertions and deletions (indels) that are consisten
198 novel large insertions, small indels (10-50 bp), and short tandem repeat expansions and contractions
200 in human cells at the 1-3 nucleosome (50-500 bp) scale, obtained using ionizing radiation-induced spa
201 ccumulation over the first approximately 500 bp, suggesting that Spt5 is required for transcription p
206 hromatin entry sites (CES) are 100- to 1,500-bp elements that recruit male-specific lethal (MSL) comp
211 hloroplast genome was sequenced with 161,528 bp in length, composed with one pair of inverted repeats
213 However, regions contained within the 530 bp deletion that could be responsible for modulation of
214 or the first time, on regions within the 530 bp that are responsible for high-levels of ltxA expressi
220 e chromosome's relatively small size (16,569 bp) necessitates the ability to detect extremely focal e
223 ansgenic approach, we demonstrate that a 594 bp sequence encompassing the ECR recapitulates specific
224 rates of Y chromosome STRs (Y-STRs) with 2-6 bp repeat units that are accessible to Illumina sequenci
231 ion involves step-like events of 200 nm (600 bp) size and is strongly suppressed by forces above 1 pN
234 anti-silencing properties for the small (679 bp) CBX3-UCO element and we now confirmed this observati
235 tional deletions ranging from 350 bp to 6900 bp in non-contiguous loci on several chromosomes, most c
238 containing 154 or 161 bp, corresponding to 7 bp protruding from one or both sides of the nucleosome c
241 n helix made contact with the bases of the 7-bp motif in the major groove, and the wing interacted wi
243 e cell differentiation and found that the 70 bp upstream of the AT2R transcription start site contain
244 f perfect sequence identity encompassing 700 bp at the hotspot core, the presence of PRDM9 binding si
246 07,744 unigenes, with a mean length of 1,717 bp and with this information an online Mango RNA-Seq Dat
248 at in the presence of ATP hydrolysis even 75 bp sequence-matched strand exchange products remain quit
250 2, TL increased in the intervention arm (+76 bp) and decreased in the controls (-23 bp) (p=0.050).
251 hed mitochondrial genome sequence of 135,790 bp was obtained, which contained 75 predicted genes.
252 dehydrogenase allele (SbCAD2) that has an 8-bp deletion in its 5'-untranslated region (UTR), conferr
253 lated with elevated expression, whereas an 8-bp deletion in the third exon of the presumed wild-type
254 endonuclease PacI) that also recognizes an 8-bp target site consisting solely of A:T base pairs.
255 activator STAF, specifically binds to this 8-bp sequence to activate C/EBPalpha expression in myeloid
256 NG2) excised two uracil lesions spaced 10-80 bp apart in a single encounter without escaping the micr
258 genomic microarray chips covering about 8000 bp flanking the predicted transcription start sites in X
259 one pair of inverted repeats (IRs) of 26,819 bp, which were separated by one small single copy (SSC;
260 , was sequenced and shown to contain 132,831 bp with 145 putative ORFs (open reading frames) of at le
261 onstructed HBV haplotypes in a region of 836 bp, which contains the major immune epitopes and drug re
262 truct a single DNA-nanogold conjugate, an 84-bp double-stranded DNA with two 5-nm nanogold particles
264 among SNPs at the -1014, -988, -462, and -89 bp positions and between the -1018 and -57 bp positions.
265 t a region between nucleotides -15 bp and -9 bp of the Smad7 promoter was required for the induction
267 order of magnitude when positioned close (9 bp) to the promoter, in comparison to that for a distal
268 edian deletion size using single sgRNAs is 9 bp, we also obtain large deletions of up to 600 bp.
270 ges both ends of a wrapped, approximately 90-bp nucleosomal loop of DNA, suggesting a means for nucle
271 some density was found in the region of -900 bp relative to the transcription initiation start (TIS)
272 bp (excluding the polyA tail), including 909 bp of coding region that encoded a polypeptide of 302 am
273 utions per site within the concatenated (945 bp) nucleotide dataset, implying that probabilistic phyl
275 hs of TmELO1 and TmELO2 were 1005 bp and 972 bp, respectively and the corresponding peptide sequences
277 data set with a median read length of 11,979 bp for a self-compatible accession of the wild tomato sp
279 ously explained by an initial >457 basepair (bp) HSV-1 x HSV-2 crossover followed by back-recombinati
280 Conversely, the Arabidopsis brevipedicellus (bp-9) mutant was complemented by the PpMKN2 gene from th
282 mics simulations, to examine how a single HG bp trapped using the N1-methylated adenine (m1A) lesion
283 als that in both cases, m1A forms a m1A*T HG bp, which is accompanied by local and global structural
284 anscription, which are found within areas I (bp -2694 to -2561), II (bp -2139 to -1958), III (bp -187
285 ound within areas I (bp -2694 to -2561), II (bp -2139 to -1958), III (bp -1879 to -1799), and IV (bp
288 in carbon dynamics at 10.3, 4.1 and 2.8 kyr bp provide compelling evidence for the sensitivity of th
289 glaciated North America before 12.6 cal. kyr bp, are unlikely to have travelled by this route into th
290 the stabilization of low-boiling point (low-bp) perfluorocarbons (PFCs) at physiological temperature
291 rmed that cats homozygous for a 2 base pair (bp) deletion within IQ calmodulin-binding motif-containi
293 e, recognizes a palindromic eight base pair (bp) symmetric sequence, 5-ATTTAAAT-3, and cleaves that t
295 es short paired-end tags (2 x 20 base pairs (bp)) to detect two genomic loci that are far apart on li
299 -5-FX interaction with FX-binding protein (X-bp) inhibited transduction in the presence of C57BL/6 se
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