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1 ng gene promoter such as within an intron or exon.
2 ic retroelements as promoter and alternative exon.
3 rrelation have been observed at the level of exon.
4 enylation signals (PASs) in introns and last exons.
5 lank many AR-regulated alternatively spliced exons.
6 arely alter the inclusion of highly-included exons.
7 frontal cortex, CpG islands and shores, and exons.
8 t least one gene, and 32.8% interrupt coding exons.
9 disordered peptide regions than constitutive exons.
10 as found, with evidence of weak selection in exons.
11 Notably, most of these mutations create new exons.
12 d with regions of high percent-spliced in of exons.
13 MN1 is encoded by only two exons.
14 ting the splicing pattern of other essential exons.
15 ry motifs, when compared with other types of exons.
16 egulatory sequence downstream of Gdf5 coding exons.
21 T in HD140Q knock-in (KI) mice, we show that exon 1 HTT is stably present in the brain, regardless of
24 eNcell VM NSCs) stably transduced to express exon 1 huntingtin (HTT) fragments with variable length p
27 re, we describe CRISPR/Cas9-based editing of exon 1 of the HVT079 and HVT096 genes from the HVT genom
28 Caenorhabditis elegans) increases mutant HTT exon 1 phosphorylation and reduces its aggregation and c
30 deletion (Delta27bp) within the polymorphic exon 1 that occurs frequently in human CRC cells and nei
31 iously shown that the incomplete splicing of exon 1 to exon 2 of the HTT gene results in the producti
32 he terminal exon or the extreme 3' region of exon 1, and are therefore predicted to result in escape
33 hat depending on the alternative splicing of exon 1, type I splice variants (MOCS1A) either localize
36 ks exons 8 and 10 and NPM1.3 which comprises exons 1-10 (and so lacks the region of sequence mutated
40 patients, respectively, have "canonical" MPL exon 10 driver mutations W515L/K/R/A or S505N, which gen
43 in published and previously unpublished MPL exon 10 sequencing data from MPN patients, demonstrating
46 sis, we used the alternatively spliced BRCA2 exon 12 (E12) as a model system because its in-frame ski
47 erin gene (PgCad1) has a 234-bp insertion in exon 12 encoding a mutant PgCad1 protein that lacks 36 a
51 ice-site region and mutation type of the MET exon 14 alteration, concurrent increased MET copy number
52 therapy in people with lung cancers with MET exon 14 alterations and adds to an expanding list of gen
57 28 is a platelet splice QTL that alters SELP exon 14 skipping and soluble versus transmembrane P-sele
60 cilitating exon 16 skipping and deletions of exon 16 in a subset of these lung tumors and in a number
61 well as splicing site mutations facilitating exon 16 skipping and deletions of exon 16 in a subset of
62 rnative splicing of ERBB2 causes skipping of exon 16, leading to the expression of an oncogenic ERBB2
65 f seven noncontiguous amino acids encoded in exon 19 that mediates SREBP2's proteasomal degradation i
70 e sequenced MHC-DRB exon 2 (IIa) and MHC-DOB exon 2 (IIb) on the MiSeq platform from an enclosed whit
74 wn that the incomplete splicing of exon 1 to exon 2 of the HTT gene results in the production of a sm
75 primary transcription start site and within exon 2 partially mediate the effects of risk variants on
76 , MEFV showed E148Q heterozygous mutation in exon 2.Since an adult case of PFAPA syndrome is likely t
77 of disease-correlated mutations that map to exons 2 and 3 of POLG but also affect ORF-Y provides pot
78 coding signature in an alternative frame in exons 2 and 3 of POLG, herein referred to as ORF-Y that
79 ed allele approach, demarcated by dystrophin exons 2-79, in complementation with a cardiac and skelet
80 hose on the African mainland, with seventeen exon-2 haplotypes unique to bushpigs in Madagascar (2/28
83 addition, we show that a Smn protein lacking exon 2B can rescue iMEF survival and snRNP assembly in t
84 embly in the absence of flwt-Smn, indicating exon 2B is not required for the essential function of Sm
87 ndromic repeats)/Cas9 to introduce indels in exon 3 of FMR1, we generated an isogenic human pluripote
89 IRXA) gene cluster, where hypomethylation in exon 3 of IRX2 in neuronal nuclei was associated with co
90 Finally, targeted disruption of PTCHD1-AS exon 3 recapitulated diminished miniature excitatory pos
92 rated in vitro that the GH1 variant leads to exon 3 skipping, predicting a mutant protein known to ca
94 se in levels of a shorter transcript missing exon 3, suggestive of an incompletely penetrant splice d
95 cture for Drosophila EMB, indicates that the exon 3-encoded region in the myosin head is part of the
98 ense mutation increased exonic definition of exon 4 and the MMP20 synonymous mutation decreased exoni
101 na: Ca(v)1.4 splice variants with or without exon 47 (Ca(v)1.4+ex47 and Ca(v)1.4Deltaex47, respective
102 manner that is strengthened by exclusion of exon 47 and inclusion of beta(2X13) and alpha(2)delta-4.
104 5, that lowers the 607:558 ratio by altering exon 5 inclusion in SmgGDS pre-mRNA (messenger RNA).
110 A single treatment of neonatal mice with an exon 5-targeted ASO-induced robust exon skipping for mor
115 mutation p.Ser6366Ile and a deletion of NEB exon 55, the Compound-Het model that resembles typical N
119 showing more robust initial effects on SMN2 exon 7 inclusion, but less persistence in the central ne
121 ith CLN3 Batten have a deletion encompassing exons 7 and 8 (CLN3(Deltaex7/8)), creating a reading fra
126 ined by an exon-exon splice junction between exons 8 and 10 (junc8.10) and that is predicted to encod
127 Further variants include NPM1.2 which lacks exons 8 and 10 and NPM1.3 which comprises exons 1-10 (an
128 n of the alternatively spliced 25-amino acid exon 9* mimicking a splice variant of alpha(1C) upregula
131 rter that are encoded for by MHC alternative exons 9 and 11, respectively, directly contribute to inc
132 genetically engineered mouse model to delete exons 9/10 of Bcor (Bcor (DeltaE9-10) ) in GNPs during d
134 lation (poly(A)) sites, alternative terminal exons account for much of the variation between human tr
135 dentify novel cell type-specific alternative exons across the nervous system and leverage ENCODE and
138 ing events: skipped exon, mutually exclusive exons, alternative 5' splice site, alternative 3' splice
139 a bifunctional nsp14 protein which possesses ExoN and guanine-N-7 methyltransferase (G-N-7 MTase) act
140 ere a method for the coordinated analysis of exon and intron data by investigating their relationship
144 model to analyze the differences between the exon and intron definition scenarios and find that exon
147 RNA promotes inclusion of a poison cassette exon and transcript degradation via nonsense-mediated de
152 rforming deep mutagenesis of highly-included exons and by analysing the association between genome se
154 their siblings without ASD, particularly in exons and near splice junctions, and in genes related to
155 inct KO strategies, for example, by skipping exons and reinitiating translation to potentially yield
156 sgenic (TG) mice containing all the introns, exons, and 5'- and 3'-flanking regions of the hCYP11B2 g
157 pliced dPix isoforms that contain a specific exon are necessary and sufficient for postsynaptic diffe
159 essentiality and cancer relevance of poison exons are likely to contribute to their unusually high c
163 , 399, 250, and 299 differentially expressed exons (AS exons) at 4, 24, 48, and 72 hpi, respectively,
164 , and 299 differentially expressed exons (AS exons) at 4, 24, 48, and 72 hpi, respectively, showing t
165 ecture to predict the inclusion of a spliced exon based on adjacent epigenetic signals, and we showed
169 r identity across species than nearby coding exons, but their physiological role and molecular regula
171 over driver fusions beyond canonical exon-to-exon chimeric transcripts, we develop CICERO, a local as
172 he inclusion levels of alternatively spliced exons, consistent with the concept that altered splicing
173 FF replicates, with 98% agreement in coding exon coverage and a median correlation of whole transcri
176 nd intron definition scenarios and find that exon definition prevents the accumulation of deleterious
178 intron, causing intron retention or partial exon deletion, thereby eliminating male-determining XOL-
181 ffer for 2 extra exons in HP2 that result in exon duplication undetectable by classic genome-wide ass
182 A synonymous substitution that results in exon eight skipping in most mRNA molecules, ultimately l
183 al properties of one of the four alternative exon-encoded regions within the Drosophila myosin cataly
184 (GenBank # KU304333.1) consists of a single exon, encoding a putative membrane protein of 127 amino
185 he latter (rs13266634) locates in an SLC30A8 exon, encoding a tryptophan-to-arginine substitution tha
186 ith incorporation of a set of 1,039 cassette exons enriched in genes encoding RNA binding proteins.
187 d identified 13,149 high-confidence cassette exon events with variable incorporation across samples.
188 s they only weakly affected expression of an exon-exon junction that tags the majority of abundant tr
190 predicted to be overexpressed, defined by an exon-exon splice junction between exons 8 and 10 (junc8.
193 ystematically incorporates information about exon expression into the interpretation of variants.
195 ncoding the ELAV paralog FNE acquires a mini-exon, generating a new protein able to translocate to th
196 genetic variants typically reside outside of exons has inspired widespread investigation into the gen
197 when restricting to LOF variants located in exons highly expressed in cardiac tissue (TTN(LOF)).
199 rnative splicing of a functionally validated exon in normal and disease states - and reveal a potenti
200 s data obtained for an alternatively spliced exon in the proto-oncogene RON and determine the functio
202 leles of HP, HP1 and HP2, differ for 2 extra exons in HP2 that result in exon duplication undetectabl
204 prevented the use of photoreceptor-specific exons in transcripts critical for outer segment morphoge
206 iation between genome sequence variation and exon inclusion across the transcriptome, we report that
208 filing reveals that ZMAT3 directly modulates exon inclusion in transcripts encoding proteins of diver
209 ivity disorder are located in protein-coding exons, indicating a more substantial role of regulatory
210 analysis, gene set enrichment analysis, and exon-intron landscape analysis, we examined the impact o
212 distributed in all genomic regions including exons, introns, intergenic, TTS (transcription terminati
216 g protein - possibly in association with the exon-junction complex (EJC) - expands the capacity of ce
221 ly aggregates spliced reads across different exons, making it possible to detect splicing events even
222 confirmed the Myc regulation of 147 of these exons, many of which introduced frameshifts or encoded p
224 Although JUNV and MACV NPs also have the ExoN motif, dsRNA readily accumulated in infected cells
225 ugh the NPs of JUNV and MACV also harbor the ExoN motif, dsRNA readily formed during JUNV and MACV in
226 navirus NPs contain a highly conserved DEDDh ExoN motif, through which LASV NP degrades virus-derived
227 contain a highly conserved exoribonuclease (ExoN) motif, through which LASV NP has been shown to deg
228 ypes of alternative splicing events: skipped exon, mutually exclusive exons, alternative 5' splice si
229 g sites cover more of the genome than coding exons; nevertheless, most noncoding variant prioritizati
230 a heterozygous mutation in the first coding exon of Hnrnph1 (H1(+/-)) showed reduced methamphetamine
235 entire genes, PLEK and CNRIP1, and the first exon of PPP3R1 (protein coding), in addition to four unc
240 s alternative splicing of mRNA, which allows exons of a gene to be expressed at varying levels across
243 erences that distinguish the profiles of the exon-only expression data from the combined exon and int
244 erved in 8/21 probands, fall in the terminal exon or the extreme 3' region of exon 1, and are therefo
245 put to plot the concerned data on promoters, exons or any other user-defined genome locations and gen
248 ic splicing enhancers (ESEs) are enriched in exons relative to introns and bind splicing activators.
249 be pgFARM (paired guide RNAs for alternative exon removal), a CRISPR-Cas9-based method to manipulate
250 ding length of introns flanking circularized exons, repetitive elements such as Alu elements and SINE
251 ng ZMAT3 increased inclusion of CD44 variant exons, resulting in significant up-regulation of oncogen
253 Exon-level analysis (including noncoding exons) revealed decreased 5' UTR usage of Hnrnph1 and im
254 how that RNase H ASOs targeted to introns or exons robustly reduce the level of spliced RNA associate
259 al features due to ES events, and studies of exon skipping events associated with mutations and methy
261 nts with Becker MD and mdx mice subjected to exon skipping exhibited inhibited dystrophin degradation
262 e with an exon 5-targeted ASO-induced robust exon skipping for more than a year, improved motor coord
267 further confirmed that all 3 variants caused exon skipping resulting in frameshifts that lead to prem
269 repeatability of platelet RNA expression and exon skipping, a readily measured alternative splicing e
270 oration through micro-dystrophin delivery or exon skipping, preclinical models have shown that incomp
272 an AKT-p300 HAT epigenetic cascade, induces exon-specific Bdnf expression, which in turn is indispen
274 fications, but not DNA methylation, underlie exon-specific transcription of the Bdnf gene induced by
275 In vivo, hypomethylation of an alternative exon specifically in nociceptors, likely permits CTCF bi
276 ications (hPTMs) have been shown to regulate exon splicing by either directly recruiting splice machi
277 ession patterns of RNA binding proteins with exon splicing profiles, we uncovered likely causal varia
278 ents, conserved motif identification, intron/exon structural patterns and gene ontology classificatio
280 ting of a small deletion in the first coding exon supported Hnrnph1 as a quantitative trait gene.
282 ntron-targeted ASOs and, to a lesser extent, exon-targeted ASOs cause RNA polymerase II (Pol II) tran
284 eptor (BCR) and of antibodies are encoded by exons that are assembled in developing B cells by V(D)J
286 To discover driver fusions beyond canonical exon-to-exon chimeric transcripts, we develop CICERO, a
287 ckground noise in terms of length, number of exons, transposable element composition, and sequence co
289 nnotations of ES events based on the skipped exon units in cancer and normal tissues are not availabl
292 ese mutations would trigger an alteration of exon usage during RNA splicing, causing the enamel malfo
293 anges in alternative splicing (AS) and first exon usage, increasing the diversity of transcripts expr
294 lly long first intron and the other spanning exons, we identify two classes of active transcription s
296 (also known as FGF13) has alternative first exons which produce multiple protein isoforms that diffe
297 he functional relevance of 'poison' cassette exons, which disrupt their host genes' reading frames ye
298 in of collagen VII is encoded by 82 in-frame exons, which makes splice-modulation therapies attractiv