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1 LINE retrotransposons actively shape mammalian genomes.
2 LINE-1 (L1) insertions comprise as much as 17% of the hu
3 LINE-1 (L1) retrotransposons are a noted source of genet
4 LINE-1 (L1) retrotransposons are mobile genetic elements
5 LINE-1 (L1) retrotransposons are mobile genetic elements
6 LINE-1 (L1) retrotransposons represent approximately one
7 LINE-1 (or L1) is an autonomous non-LTR retrotransposon
8 LINE-1 and AIM1 methylation status was assessed in paraf
9 LINE-1 and AluYb8 methylation levels were found to be si
10 LINE-1 derepression is associated with a number of disea
11 LINE-1 elements are retrotransposons that are capable of
12 LINE-1 hypomethylation and AIM1 hypermethylation have pr
13 LINE-1 hypomethylation of cell-free DNA has been describ
14 LINE-1 methylation was related to maternal RBC folate (P
15 LINE-1 protein expression is a common feature of many ty
16 LINE-1 retroelements are the only autonomously active el
17 LINE-1 retrotransposon overexpression is a hallmark of h
18 LINE-1 retrotransposons and specific miRNAs, lncRNAs, an
19 LINE-1 retrotransposons are abundant repetitive elements
20 LINE-1 retrotransposons are fast-evolving mobile genetic
21 LINE-1 shRNAs can abrogate the HUSH-dependent response,
22 LINE-1 U-Index (hypomethylation) and AIM1 were analyzed
23 LINE-1 U-Index level was elevated with increasing Americ
24 LINE-1s are active human DNA parasites that are agents o
25 LINEs and SINEs are retrotransposons; that is, they tran
26 cluding long interspersed nuclear element 1 (LINE-1 or L1) and human endogenous retrovirus, accompani
31 centage long interspersed nuclear element 1 (LINE-1) DNA demethylation for oral cedazuridine/decitabi
32 and the long interspersed nuclear element 1 (LINE-1) in genomic DNA extracted from whole blood in 913
33 The Long interspersed nuclear element 1 (LINE-1) is a primary source of genetic variation in huma
34 AcMNPV FP25K to long interspersed element 1 (LINE-1) open reading frame 1 protein (ORF1p), which cont
35 of the long interspersed nuclear element 1 (LINE-1) retrotransposon and with aberrant expression of
37 lation of young long interspersed element 1 (LINE-1) retrotransposons in cancer, often distinct to th
46 s in long interspersed nucleotide element-1 (LINE-1) and absent in melanoma-1 (AIM1; 6q21) associated
47 vels of long interspersed nuclear element-1 (LINE-1) and the Alu element AluYb8 were determined in 38
49 active long interspersed nuclear element-1 (LINE-1) lacked CW methylations but not CG methylations.
55 fy and sequence long interspersed element-1 (LINE-1, L1) retrotransposon insertions selectively in th
61 quencing of a PRA case, we have identified a LINE-1 insertion in the retinal candidate gene IMPG2 tha
64 y reported that in cancer, aberrantly active LINE-1 promoters can drive transcription of flanking uni
72 roteins from a representative set of DNA and LINE transposable elements and used the obtained structu
73 vels and derepression of endogenous LTR- and LINE-repetitive DNA elements during differentiation of m
76 long interspersed nuclear elements (SINE and LINE), and the type I IFN pathway in responders, all ind
79 ution of SCOP classes in DNA transposons and LINEs indicates that the proteins of DNA transposons are
81 uring cellular senescence, L1 (also known as LINE-1) retrotransposable elements become transcriptiona
83 , whereas several repeated elements, such as LINE 2, and several LTR elements, are hypomethylated in
84 viruses and endogenous retroelements such as LINE-1, but it can also edit genomic DNA, which may play
86 ation status of repetitive elements, such as LINEs, in the human genome, thereby revealing the strong
88 -Hydroxymethylcytosine was found enriched at LINE-1 prior to a decrease in both 5-hydroxymethylcytosi
96 is mediated primarily by proteins encoded by LINE-1 (L1) retrotransposons, which mobilize in pluripot
97 on of RNA molecules into the human genome by LINE retrotransposons, contributing to the approximately
100 cides with upregulation of primate-conserved LINE-1s, as well as increased expression of full-length
101 classified into two types: those containing LINE transposable elements and those containing segmenta
104 and sublineages of cells marked by different LINE-1 (L1) retrotransposition events and subsequent mut
106 a fast-growing tumor subclone downregulated LINE-1, prompting us to examine how LINE-1 expression af
108 on-autonomous non-LTR retrotransposons, i.e. LINEs and SINEs, and with few exceptions there is a sole
109 bution of BovB, a long interspersed element (LINE) about 3.2 kb long, that has been found in ruminant
110 e distribution of long interspersed element (LINE) retrotransposon and their potential to mediate NAH
111 of a Tetrahymena Long interspersed element (LINE)-like retrotransposon are very frequently found phy
112 aralogous long interspersed nuclear element (LINE) or human endogenous retrovirus (HERV) repeats as a
114 ts [e.g., long interspersed nuclear element (LINE)-1 repeats] were further confirmed by the increased
117 ngineered long interspersed nuclear element (LINE-1; L1) mobilization have been in use for quite some
119 Of these, only long interspersed elements (LINE-1 or L1) and sequences copied by LINE-1 remain mobi
122 sites in long interspersed nuclear elements (LINE-1) retrotransposons, resulting in increased LINE-1
125 lements (SINEs), long interspersed elements (LINEs), and long terminal repeat (LTR) retroelements, wh
127 (SINEs), long interspersed nuclear elements (LINEs) and the endogenous retrovirus (ERV) superfamily.
131 asses and subclasses of repetitive elements (LINEs, endogenous retroviruses, DNA transposons, simple
132 1 occurs frequently in cancer and can enable LINE-1 mobilization but also has retrotransposition-inde
133 the L1Hs insertions reside within endogenous LINE-1 sequences in the reference assembly and the analy
136 ia immunohistochemical staining and examined LINE-1 promoter methylation in representative cases.
139 Because recent reports suggest frequent LINE-1 (L1) retrotransposition in human brains, we perfo
141 TeXP builds mappability signatures from LINE-1 subfamilies to deconvolve the effect of pervasive
144 Genomic features mirror those of germline LINE element retrotranspositions, with frequent target-s
149 ), impaired the mobility of engineered human LINE-1 (L1) and mouse intracisternal A-type particle ret
150 19) determined integration patterns of human LINE-1 (long interspersed element-1) retrotransposons hi
153 , immunization of rhesus macaques with human LINE-1 open reading frame 2 (96% identity with macaque),
156 sites in p16 (n = 7) and p53 (n = 4), and in LINE-1 and Alu repetitive elements (3 CpG sites in each)
158 ositively associated with DNA methylation in LINE-1 repeated elements, and to a lesser degree at CpG
159 derstanding of the requirements for ORF1p in LINE-1 retrotransposition and, more generally, nucleic a
164 carcinomas, respectively, exhibited intense LINE-1 immunoreactivity compared with adjacent, normal-a
165 urs is produced by exaptation of an intronic LINE-2A (L2A) endogenous retroelement in the CD274 gene,
168 mon repetitive elements, including L1 and L2 LINEs, and DNA motifs that are significantly enriched ar
169 e evolved a lineage-specific TE called LAVA (LINE-AluSz-VNTR-Alu (LIKE)), which is still active in th
171 reverse transcriptase-encoding elements like LINE-1 or endogenous retroviruses via a process termed r
173 tions the multiple reads aligned to the many LINE-1 instances in the genome into these two categories
175 pplied our method to comprehensively measure LINE-1 activity across healthy somatic cells, while back
179 arly identical active transposons, two novel LINE insertions of identity approximately 99% and length
184 onal experiments revealed that activation of LINE-1 retrotransposons increases the expression of IFNb
185 sely correlated with the evolutionary age of LINE-1 transposons; its deposition is strongly enriched
186 Interestingly, we found that the amount of LINE-1 activity was associated with the with the amount
188 odel to study mechanisms and consequences of LINE-1 activation in the etiology and progression of UC
191 were lineage specific, and the enrichment of LINE/L1 and long term repeat/Copia elements in lineage 3
192 erve a significant age-associated erosion of LINE-1 methylation in cfDNA suggesting that the threshol
193 her confirmed by the increased expression of LINE-1 retrotransposon-associated repetitive elements in
194 are a previously unseen alternative fate of LINE retrotransposition, and may represent an unexpected
195 nome-wide LINE-1 demethylation, induction of LINE-1 transcripts and double-strand DNA breaks and decr
196 XP by independently estimating the levels of LINE-1 autonomous transcription using ddPCR, finding hig
199 the reporter genes, whereas the presence of LINE in P2 or gypsy LTR retrotransposon in P3 reduced ex
203 y, IFI16 also inhibits retrotransposition of LINE-1, known to engage Sp1, and murine IFI16 homologs r
207 We demonstrate that premature silencing of LINE-1 elements decreases chromatin accessibility, where
209 nsertions of the human-specific subfamily of LINE-1 (L1) retrotransposon are highly polymorphic acros
210 genomic instability; however, the timing of LINE-1 activation during this evolution has yet to be el
211 a selective increase in the transcription of LINE-1 and L1PA2 retroelements upon knockdown of URI.
215 Methylation of the control IL-2 Site7 or LINE-1 was not a significant predictor of asthma exacerb
217 Disruption of the repressive chromatin over LINE-1 elements in DTPs results in DTP ablation, which i
218 ASOR is required for H3K9me3 deposition over LINE-1 repeats and repetitive exons in transcribed genes
223 pectation maximization algorithm to quantify LINE-1 RNA at each genomic locus, separating transcripts
224 are repetitive, it is difficult to quantify LINE-1 RNA at specific loci and to separate transcripts
225 he ability of dispersion (CALINE4, AERMOD, R-LINE, and QUIC) and regression models to predict PNC in
229 d of hypomethylation sufficient for relevant LINE-1 activation and consequential harmful retrotranspo
231 ers, demethylation of genome-wide repetitive LINE-1 elements, and hypermethylation in specific promot
232 d IFN plays an important role in restricting LINE-1 propagation and discuss the putative role of IFN
236 king correlation of FOA with retrotransposon LINE-1 (L1) expression in mice to understand how L1 acti
240 These include simple repeats, satellites, LINEs, and endogenous retroviruses as well as transposon
241 As part of the randomised open-label SECOND-LINE trial, second-line ART NtRTI selection was made by
244 e DNA, we used a targeted method to sequence LINE-1 insertion sites in matched PDAC and normal sample
246 omes preferentially locate within young SINE/LINE transposons, suggesting that when subject to increa
251 recent study reported high rates of somatic LINE-1 element (L1) retrotransposition in the hippocampu
252 to genetic changes in cancers, with somatic LINE-1 insertions seen in selected types of human cancer
253 d expression of full-length hominid-specific LINE-1s that produce bidirectional RNAs, which may form
254 ve been developed to identify human-specific LINE-1 (L1Hs) insertions from short-read whole genome se
255 3' untranslated region of a primate-specific LINE-1 (long interspersed nuclear element 1) retrotransp
256 ver the complete sequences of tumor-specific LINE-1 insertions and their retrotransposition hallmarks
258 correlates with epigenetic silencing of such LINE-1 transposons, together with their neighbouring enh
259 rive LINE-1 demethylation, but surprisingly, LINE-1s are kept repressed through additional TET-depend
261 iduals on a custom aCGH microarray targeting LINE elements predicted to mediate CNVs and identified 2
265 open reading frame 1 protein, and found that LINE-1 open reading frame 1 protein is a surprisingly br
270 contrasts with earlier studies showing that LINE-1 has limited activity in healthy somatic tissues,
274 An emerging body of evidence indicates that LINEs and SINEs function to regulate gene expression by
276 -) placentas and that protein encoded by the LINE-1 retrotransposon is upregulated in hypomethylated
279 evels were assessed by pyrosequencing of the LINE-1 retroelement promoter in DNA from 55 salivary gla
280 es independently of the coding nature of the LINE-1 transcript, thus suggesting that LINE-1 functions
281 late this observation with expression of the LINE-1-encoded protein, open reading frame 1 protein, an
282 P1 acts as an enhancer in contrast with the LINE in P2 and the gypsy LTR retrotransposon in P3 which
284 hat the SIN3A co-repressive complex binds to LINE-1s, ensuring their repression in a TET1-dependent m
285 us, followed by gene density and distance to LINE elements, are the prime determinants of the speed o
286 tigated chromosomal rearrangements linked to LINE sequences and also provoked inflammatory programs t
291 full-length elements of actively transposing LINE families, demonstrating the remarkable ability of t
295 kdown of ODC1 expression elicits genome-wide LINE-1 demethylation, induction of LINE-1 transcripts an
298 ely at canonical GT-AG splice junctions with LINE and SINE elements forming the most RE splice juncti
299 5' UTR of full-length, evolutionarily young LINE-1 elements, a pattern that is conserved in human ES