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1 DNase I administration significantly diminished plasma c
2 DNase I and Tn5 transposase assays require thousands to
3 DNase I DNA footprint assays show that AerR containing B
4 DNase I footprint analysis further defined the sequences
5 DNase I footprinting located the most proximal DNA bindi
6 DNase I footprinting showed that the VpsT binding site a
7 DNase I footprinting showed that this sequence lies with
8 DNase I hypersensitive sites (DHSs) are a hallmark of ch
9 DNase I hypersensitive sites (DHSs) are generic markers
10 DNase I hypersensitive sites (DHSs) provide important in
11 DNase I injected into experimental animals, moreover, re
12 DNase I is a secreted enzyme whose function has been pre
13 DNase I is a sequence-specific enzyme, with a specificit
14 DNase I is a useful biomarker.
15 DNase I is an enzyme which cuts duplex DNA at a rate tha
16 DNase I protection studies as well as promoter fusion an
17 DNase I-hypersensitive site I (HSI) of the LCR is essent
18 00 constructs, corresponding to roughly 3500 DNase I hypersensitive (DHS) sites, into the mouse retin
19 e image analysis, electron microscopy, and a DNase I assay to show that hyperosmotic conditions (>400
20 tering, molecular dynamics simulations and a DNase I cleavage assay we found that the wild type hTERT
22 slocation breakpoints in t-AMLs cluster in a DNase I hypersensitive region, which possesses cryptic p
31 r, electrophoretic mobility shift assays and DNase I footprinting revealed that OhrR binds directly t
32 l, electrophoretic mobility shift assays and DNase I footprinting showed that the ArcA and IscR bindi
34 atin-1s) prophylaxis given 1 hour before and DNase I 3 hours after CC injection completely prevented
36 re evaluated in DNA thermal denaturation and DNase I footprinting assays, and the ability to inhibit
37 located in GC-rich, nucleosome-depleted, and DNase I sensitive regions, flanked by well-positioned nu
38 , micrococcal nuclease (MNase) digestion and DNase I digestion, followed by deeply sequencing the res
40 results were referenced against enhancer and DNase I hypersensitive regions from ENCODE and Roadmap E
42 pression quantitative trait loci (eQTLs) and DNase I sensitivity quantitative trait loci (dsQTLs) in
47 ree hypothetical protein-encoding genes, and DNase I footprint analysis identified the specific nucle
48 nce of NET-dissolving drugs like heparin and DNase I, already in clinical use, and recent development
50 els of H3K4me2 and H3K27ac histone marks and DNase I hypersensitivity--signifying accessible, permiss
51 ng DNA methylation, histone modification and DNase I hypersensitivity profiling as well as Hi-C to in
53 atin states, transcription factor motifs and DNase I footprints, providing tools for epigenome-wide a
56 gel retardation, potassium permanganate and DNase I footprinting, cleavage reactions with protein co
57 d to DNA in combination with DMS probing and DNase I footprinting results supported the CoMA data.
59 hese hypotheses, and promoter resections and DNase I footprinting assays revealed a single CepR2 bind
65 cluding protein-coding genes, enhancers, and DNase-I hypersensitive sites in over 100 tissues and cel
66 occupied by the insulator protein CTCF, are DNase I hypersensitive and represent only a small minori
73 , transcriptional fusions, gel-shift assays, DNase I footprinting, and in vitro transcription, it was
75 exploits information from H3K27ac signal at DNase I hypersensitive sites identified from published h
78 3 groups: control (group 1), one i.v. bolus DNase I before CPB start (group 2) and a second DNase I
80 closed conformation of CNS-1, as assessed by DNase I hypersensitivity, along with enhanced accumulati
81 show that the intrinsic rate of cleavage by DNase I closely tracks the width of the minor groove.
85 alysis of Pol II-nucleosome intermediates by DNase I footprinting suggest that efficient O-loop forma
90 rved sequence element mapping to a chromatin DNase I hypersensitive site located within intron 1.
91 rivate disruptive mutations within fetal CNS DNase I hypersensitive sites (i.e., putative regulatory
93 m reveals strong enhancer regions containing DNase I hypersensitive sites overlapping the rs874040 li
94 s that cannot be analyzed using conventional DNase I sequencing because of the requirement for millio
96 factor footprints, we produced high-density DNase I cleavage maps from 243 human cell and tissue typ
97 imarily used to identify nucleosome-depleted DNase I hypersensitive (DHS) sites genome-wide that corr
98 tors and those within frontal cortex-derived DNase I hypersensitivity sites are significantly enriche
100 e hundred thousand genomic loci that display DNase I hypersensitivity in one or more ENCODE cell line
102 hylogenetic conservation as well as elevated DNase I hypersensitivity (DHS) in ENCODE cell lines.
105 the current high-throughput sequencing era, DNase I has mainly been used to study genomic regions de
106 velopment is illustrated by direct evidence: DNase I added to tumor cells eliminates the structures a
108 rimetric readout would make the lateral flow DNase I test strip a suitable platform for point-of-care
109 we used potassium permanganate footprinting, DNase I footprinting, and in vitro transcription from th
111 riants at the 20 eGFR loci were enriched for DNase I hypersensitivity sites (DHSs) in human kidney ce
112 27 k Illumina array, and with enrichment for DNase-I Hypersensitivity sites across the full range of
114 with a DNA fragment including only its four DNase I hypersensitive sites (lacking the large spacer r
116 n regulatory evolution, we performed genomic DNase I footprinting of the mouse genome across 25 cell
118 ch for human silencers, we utilized H3K27me3-DNase I hypersensitive site (DHS) peaks with tissue spec
130 tify candidate noncoding driver mutations in DNase I hypersensitive sites in breast cancer and experi
131 oteins were partially purified and tested in DNase I footprinting experiments with the excisive attac
132 me-widely using chromatin features including DNase I hypersensitivity, 11 histone modifications (HMs)
134 chromatin structure, resulting in increased DNase I sensitivity, the accumulation of DNA damage, and
136 t formation along the gradient of increasing DNase I concentrations is used to determine the accessib
142 tor binding sites are derived from intrinsic DNase I cleavage bias rather than from specific protein-
143 ing CpG site methylation, CGIs, co-localized DNase I hypersensitive sites, transcription factor bindi
144 cluding expression quantitative trait locus, DNase I sensitivity quantitative trait locus and functio
147 ine-scale structure within about 1.6 million DNase I-hypersensitive sites and show that the overwhelm
148 de maps for 17 TFs, 3 histone modifications, DNase I hypersensitive sites, and high-resolution promot
149 characterization of the most highly mutated DNase I hypersensitive sites in breast cancer (using in
150 NFAT and AP-1 which created thousands of new DNase I-hypersensitive sites (DHSs), enabling ETS-1 and
152 luding DNase-seq, which is based on nuclease DNase I, and ATAC-seq, which is based on transposase Tn5
154 and affects the organization of nucleosomes, DNase I hypersensitivity, and the transcriptional profil
157 In an acidic environment, the activity of DNase I was activated through the acid-triggered sheddin
162 We observed that physiological amounts of DNase I do not suffice to completely degrade NETs in vit
166 tudies have created genome-scale catalogs of DNase I hypersensitive sites (DHSs), which demark potent
167 We first defined more than 1800 clusters of DNase I hypersensitive sites (DHSs) with similar tissue
168 Both monotherapies and coadministration of DNase I and rhADAMTS13 revealed a cardioprotective effec
169 In contrast, quantitative comparison of DNase I hypersensitivity between states can predict tran
170 erformed the first genome-wide comparison of DNase I sensitivity of chromatin in mitosis and interpha
172 olymeric nanogel to facilitate decoration of DNase I into the NCl by electrostatic interactions.
176 localize with, and maintain the intensity of DNase I hypersensitive sites genome wide, in resting but
178 port consistent patterns of gain and loss of DNase I-hypersensitive sites (DHSs) as cells progress fr
179 s-regulatory elements; therefore, mapping of DNase I hypersensitive sites (DHSs) enables the detectio
181 rate that it enables simultaneous mapping of DNase I hypersensitivity and regional DNA methylation le
182 enerated genome-wide high-resolution maps of DNase I hypersensitive (DH) sites from both seedling and
183 q) method that allows us to generate maps of DNase I-hypersensitive site (DHS) of mouse preimplantati
186 scription start sites, reduces the number of DNase I-hypersensitive sites genome wide, and decreases
187 atory element located in an adjacent pair of DNase I HS located 5.6 kb 3' of the ANK1E promoter at th
188 respectively, displayed distinct patterns of DNase I hypersensitivity, histone acetylation and NFAT1
191 e, we use a recent comprehensive data set of DNase I sequencing-identified cis-regulatory binding sit
192 gulated by two partially overlapping sets of DNase I hypersensitive sites (HSs) that constitute the p
193 apped the location and allele-specificity of DNase I hypersensitive (DH) sites within the PWS-IC in b
194 c identification of hundreds of thousands of DNase I hypersensitive sites (DHS) per cell type has bee
198 dentified in chicken lung overlapped half of DNase-I hypersensitive sites, coincided with active hist
200 ion of association tests, prior knowledge of DNase-I hypersensitivity sites or other relevant biologi
202 VM accurately predicts the impact of SNPs on DNase I sensitivity in their native genomic contexts and
203 entified binding sites for >700 TFs from one DNase I hypersensitivity analysis followed by sequencing
204 Instead, ORC binds nonspecifically to open (DNase I-hypersensitive) regions containing active chroma
205 e of these seven loci lay within enhancer or DNase I hypersensitivity regions in lung fibroblasts or
206 ped, based mostly on histone modification or DNase I hypersensitivity data in conjunction with DNA mo
210 urokinase, or DNA digestion with recombinant DNase I all prevented arterial occlusions, GFR loss, and
211 systemic lupus erythematosus exhibit reduced DNase I activity, and patients with myocardial infarctio
213 Here we demonstrate that high-resolution DNase I cleavage profiles can provide detailed informati
214 oclew (NCl) embedded with an acid-responsive DNase I nanocapsule (NCa) was developed for targeted can
219 n immunoprecipitation sequencing (ChIP-seq), DNase I hypersensitive sites sequencing (DNase-seq), and
221 Here we profile parental allele-specific DNase I hypersensitive sites in mouse zygotes and morula
222 ntify 76 genes with paternal allele-specific DNase I hypersensitive sites that are devoid of DNA meth
226 with several traits, and cell-type-specific DNase-I hypersensitive sites were enriched with SNPs ass
228 tiviral single guide RNA libraries to target DNase I hypersensitive sites surrounding a gene of inter
231 modes of interaction with chromatin and that DNase I hypersensitivity dynamics provides a general app
232 vasive bioluminescent imaging confirmed that DNase I treatment was sufficient to suppress tumor metas
234 oximately 40 yr ago it was demonstrated that DNase I also digests with a approximately 10-bp periodic
235 g studies have instead yielded evidence that DNase I plays a central role in newly defined dynamics o
236 Here, we reveal for the first time that DNase I can be used to precisely map the (translational)
238 tructural and biochemical data implicate the DNase I binding loop (D-loop) of actin in such nucleotid
239 nd disulfide cross-linking of Cys-41 (in the DNase I binding loop) to Cys-374 (C-terminal) but increa
243 est strip, we have successfully measured the DNase I activity and determined the factors that influen
244 cleosomal DNA; the oscillatory nature of the DNase I cleavage profile within nucleosomal DNA enables
245 s between receptor loading, lifetimes of the DNase I hypersensitivity sites (DHSs), long-range intera
247 changes in the structure and dynamics of the DNase-I loop, alterations in the structure of the H73 lo
248 up multiple favorable interactions with the DNase-I binding loop in subdomain 2 of the adjacent subu
251 il loci drive gene-expression changes though DNase-I hypersensitive sites (DHSs) near transcription s
252 nce and protected against ALI in mice; thus, DNase I may be a new potential adjuvant for ALI therapy.
253 and H3K27me3, an increased accessibility to DNase I and an induction of euchromatic H3 and H4 histon
254 on measurement of chromatin accessibility to DNase I cleavage, permitting identification of de novo a
258 rate that a 650-bp sequence corresponding to DNase I hypersensitive sites HS1-2 within the mouse Igka
259 were identified based on hypersensitivity to DNase I digestion and association with H3K4me3-modified
260 e small size of the MNase enzyme relative to DNase I or Tn5 allows its access to relatively more cond
261 d cellular internalization and resistance to DNase I compared to free synthetic nucleic acids, they s
264 ce of nanoparticles were highly resistant to DNase I endonucleases, and degradation was carried out e
268 ENCODE Consortium has mapped transcription, DNase I hypersensitivity, transcription factor binding,
269 ronic sequence containing an uncharacterized DNase I hypersensitivity (DHS) site located 3' to the si
270 with those of enhancers and exhibited unique DNase I hypersensitivity profiles that reflected the pot
272 ed a recently developed Hi-C assay that uses DNase I for chromatin fragmentation to mouse F1 hybrid s
278 s for over 50 years, the potential for using DNase I as a clinical tool to prevent or treat cancer re
280 with open chromatin regions identified using DNase I hypersensitivity assays, and are enriched in the
281 based on cuts in linker regions, we utilize DNase I cuts both outside and within nucleosomal DNA; th
283 vely parallel sequencing has enabled in vivo DNase I footprinting on a genomic scale, offering the po
285 eling the magnitude and shape of genome-wide DNase I hypersensitivity profiles to identify transcript
292 ngly, treatment of cancer cell cultures with DNase I to degrade DNA nonspecifically reduced metastati
298 Treatment of biofilms formed in urea with DNase I reduced the biofilm, indicating that extracellul
299 o-derived motifs mapped to the genome within DNase I hypersensitivity footprints to characterize regi