ライフサイエンスコーパス: loop

1 shes in a closed 'emission-capture' process 'loop'.

2 via a polybasic cluster and a Ca(2+)-binding loop.

3 overlying LRP, creating a negative feedback loop.

4 conserved transcription-translation feedback loop.

5 ient to initiate the CENP-A-based epigenetic loop.

6 , forming an inter-connected auto-regulatory loop.

7 rupts a Watson-Crick base pair in the T-stem-loop.

8 HCC, forming a positive feedback regulatory loop.

9 main supplemented with an unstructured Omega-loop.

10 voltage and Ca2+, forming a delayed feedback loop.

11 is in part by blocking the MDM2-p53 feedback loop.

12 the tumor mass, creating a positive feedback loop.

13 inhibition, and thereby rescues the feedback loop.

14 manent genetic tags for the position of an R-loop.

15 as a template for evolving the next surface loop.

16 L-12 secretion by DCs in a positive feedback loop.

17 LSCs activities by fine-tuning this feedback loop.

18 referred structured motifs folding into stem-loops.

19 ween two structures none of which are closed loops.

20 atelets can directly produce <c> dislocation loops.

21 nce may explain a large fraction of variable loops.

22 replasty, performed with discontinuous bowel loops.

23 f recurrent cortico-thalamo-cortical (C-T-C) loops.

24 raight tube, but it soon undergoes rightward looping.

25 es and regulatory elements through chromatin looping.

26 ly charged aspartate (D112) in extracellular loop 1 that helps determine Orai1 turnover.

27 e mutation within the PTC-ring, A-loop and P-loop, 180 total point mutations.

28 positively charged arginine in extracellular loop 2 (K210) and a negatively charged aspartate (D112)

29 domains (TADs)(2,3) consisting of chromatin loops(4).

30 oint amino acid substitutions in the trigger loop, a flexible element of the active site involved in

31 s that are thought to increase or decrease R-loop accumulation enhance or suppress, respectively, the

32 ther amino acids structurally transforming a loop adjacent to the recognition site by duplicating the

33 evolution of SARS-CoV-2 with this structural loop affecting virus stability and transmission.

34 RNA-144 targets Dicer in a negative feedback loop, affecting global canonical microRNA expression in

35 tions-3), participate in a negative feedback loop among RhoA and its cytoskeletal effectors to inhibi

36 ational changes at specific sites within the loop and a conformational shift of the loop during activ

37 es from a hairpin with a suboptimal terminal loop and a suboptimal stem length, accumulates to 40-fol

38 at the interface of the second extracellular loop and fifth transmembrane segment of the D2R.

39 ication fork, BIR is driven by a migrating D-loop and is associated with a high frequency of mutagene

40 ttery designs, stimulation paradigms, closed-loop and on-demand stimulation, and sensing technologies

41 e nucleotide mutation within the PTC-ring, A-loop and P-loop, 180 total point mutations.

42 PepNats derived from the iNOS DINNN hot loop and the AGRP RFF hot spot sequence yielded novel an

43 redicts that contact between the envelope V1 loop and the antibody impacts V3 loop bnAb susceptibilit

44 ive conformation with a "cracked" activation loop and with the alphaC helix swung away from the activ

45 n is specifically required for CTCF-anchored loops and contributes to the positioning of cohesin at C

46 venting accumulation of co-transcriptional R-loops and DNA damage to avert genomic instability and ne

47 nd show that its overexpression suppresses R loops and genome instability induced by depleting five d

48 able to stabilize both G-quadruplexes and R loops and showed a potent cell killing activity associat

49 Here, we measured cyclization (looping) and decyclization (unlooping) rates (kloop and

50 AIMs) located at the C-terminus, cytoplasmic loop, and within the transmembrane segments.

51 anscriptional induction kinetics, chromosome looping, and enhancer RNA production to understand the d

52 In particular, a subwavelength loop antenna, placed underneath the matching layer, effi

53 the X-Pro amide bonds in the inter-cysteine loop are rigidly constrained to cis conformations.

54 ate the extent to which long-range chromatin loops are altered during short- and long-term changes in

55 R-loops are common in the genomes of pro- and eukaryotes,

56 erties - the total edge length and number of loops - are sufficient to largely determine network expl

57 Displacement loops (D-loops) are signature intermediates formed during homolog

58 R loops arising during transcription induce genomic instab

59 , the chromosome is organized as a series of loops around a thin (<130 nm) MukBEF axial core, whose l

60 nctional study establishes the extracellular loops as important structural motifs for ion selectivity

61 gher number of published ChIA-PET and HiChIP loops as well as loops linking promoters to regulatory e

62 instability, but how cells respond to the R loop-associated genomic stress is still poorly understoo

63 of breaking the neurotoxic neuroinflammatory loop at 1-month after controlled cortical impact in mice

64 or Tourette syndrome that could use a closed-loop-based approach.

65 ner, with up to 90% cleavage from 5-nt bulge-loops (BC5-alpha and BC5L-beta anomers) through multiple

66 A feedback loop between Amazonian BVOCs and the trends of climate a

67 These results revealed a negative feedback loop between appressorium formation and cell cycle progr

68 ly-life stress initiates a positive feedback loop between peripheral inflammatory cells and networked

69 We and others previously reported a feedback loop between PROX1 and vascular endothelial growth facto

70 ciating precocious DNA displacement loops (D-loops) between sister chromatids, Mph1(FANCM) ensures hi

71 sis for the emerging field of quantitative R-loop biology.

72 l determinant does not directly influence V3 loop bnAb sensitivity.

73 envelope V1 loop and the antibody impacts V3 loop bnAb susceptibility in some cases.

74 e plasma virus level, respectively, after V3 loop bnAb treatment.

75 mia, respectively, after treatment with a V3 loop bnAb.

76 ata are suggestive of the formation of these loops by interactions between repressive elements in the

77 that CTCF enables the formation of chromatin loops by protecting cohesin against loop release.

78 Compared to other loop callers, such as HiCCUPS and SIP, MUSTACHE recovers

79 Multiple loops can also be fused together to achieve several comp

80 alk is mediated by a feed-forward regulatory loop caused by JNK-regulated FGF21 autocrine signaling i

81 We use the kinetics of loop closure involving closely spaced (131-151 bp) loxP

82 se agonist, contains an exposed beta-hairpin loop composed of six residues (Arg-Phe-Phe-Asn-Ala-Phe)

83 We suggest this loop confers fusion activation and entry properties more

84 namics provide atomic-level insight into the loop configurations.

85 imidines bound to STK17B revealed a unique P-loop conformation characterized by a salt bridge between

86 In contrast, "looping" conformations are prevalent for A blocks of BAB

87 he ensemble of core TFs and their regulatory loops constitutes core transcriptional regulatory circui

88 Following optimisation, work-loop contractions were performed that included an initia

89 rom the insula cortex as input into a closed-loop control system aimed at reducing pain and looked fo

90 A potential solution is to use closed-loop control to record theta in real time and use this s

91 This TIC-driven, IL-33-TGF-beta feedforward loop could potentially be exploited for cancer treatment

92 rminants, which include an increase in inter-loop crosstalk and a propensity for a neutral binding su

93 Displacement loops (D-loops) are signature intermediates formed durin

94 By dissociating precocious DNA displacement loops (D-loops) between sister chromatids, Mph1(FANCM) e

95 geting the angiocrine Jag1-Notch1-Zeb1-VEGFA loop decreases breast cancer aggressiveness and thus enh

96 loop is established, and disruption of this loop disables the EBV lytic cascade.

97 can subsequently be used in other tools for loop discovery.

98 ) and 6.6% (144 of 2,191) of patients in the loop diuretic and no loop diuretic groups, respectively

99 symptoms, which enables clinicians to reduce loop diuretic doses.

100 191) of patients in the loop diuretic and no loop diuretic groups, respectively (HR when the use of l

101 Association Class III or IV, nearly all on a loop diuretic, and 70% with a HF hospitalization in the

102 tic groups, respectively (HR when the use of loop diuretics was compared with nonuse: 0.73; 95% CI: 0

103 emble of conformations for the longest-lived looped DNA intermediate.

104 n the loop and a conformational shift of the loop during activation.

105 straints, which enable modeling of kinematic loops (e.g., cycling models) and complex anatomy (e.g.,

106 The recurrent feedback loop effectively carried frequencies up to 100 Hz, with

107 se in the roots, indicating that feedforward loops enhanced sink capacity in the high light and low n

108 (7)), interacts with R-loop-enriched loci in dividing cells.

109 robustness to a dynamic epigenetic feedback loop ensuring long-term centromere inheritance.

110 The latter loop expansion produces an effective theory with cubic v

111 Autonomous closed-loop experimentation combined with advances in machine l

112 (134 +/- 20 W/kg at 80 Hz) in cyclical work loop experiments designed to simulate the in vivo dynami

113 IGL loops extend flexibly to bind the planar, heptameric Clp

114 e common core and emergence of hypervariable loops extending from the core contributed to GT-A divers

115 Theory indicates that symmetric two-sided loop extrusion can achieve such compaction, but recent s

116 and initiated contacts reflecting chromatin loop extrusion.

117 Here we show that R-loops form at many PREs in Drosophila embryos, and corre

118 DNA:RNA hybrid S9.6 antibody revealed that R-loops form dynamically over conserved genic hotspots.

119 ghlights that base pair fraying and internal loop formation are important mechanisms when involving m

120 However, the mechanism of R-loop formation remains unknown.

121 , we shed further light on the transition to loop formation.

122 irement for convergent CTCF binding sites in loop formation.

123 Our results reveal an endocytic loop formed by circular membrane flow and anterograde mo

124 A loop from the target recognition domain (TRD loop) recog

125 Replacing the Fpr loop K61~I72 with a longer loop from Thermus thermophilus RuvC (E71~A87) endows Fpr

126 nts, we studied how frameshift-inducing stem-loops from E. coli dnaX mRNA and the gag-pol transcript

127 ethod for multi-scale detection of chromatin loops from Hi-C and Micro-C contact maps.

128 n of RNA-DNA hybrids, the key component of R-loops, from RNA and dsDNA.

129 The feedback loop further enables prolonged production of BisDC, whic

130 By leveraging the orthogonal R-loops generated by SaCas9 nickase to mimic actively tran

131 ts in the closed-loop group than in the open-loop group at 3 months (51 [82.3%] of 62 patients vs 38

132 greater proportion of patients in the closed-loop group than in the open-loop group at 3 months (51 [

133 In the closed-loop group, the median percentage of time that the syste

134 hes to map RNA-DNA hybrids, a component of R-loops, have so far not allowed quantitative comparisons

135 (SSBP) cofactors and DNA-binding basic helix-loop-helix (bHLH) and GATA transcription factors.

136 INTERACTING FACTORs, a group of basic helix-loop-helix (bHLH) transcription factors.

137 to be elucidated, although a predicted helix-loop-helix (H-L-H) was suggested to form pores by virtue

138 sing altitude is controlled by a basic/helix-loop-helix transcription factor (bHLH TF), MdbHLH3.

139 NG FACTORS (PIFs) are a group of basic helix-loop-helix transcription factors that can physically int

140 the protein dynamics of Her6, a basic helix-loop-helix transcriptional repressor.

141 We present a computational design method, loop-helix-loop unit combinatorial sampling (LUCS), that

142 ish ortholog of human HES4, is a basic helix-loop-helix-orange transcriptional repressor that regulat

143 factors including a central MYB-basic helix-loop-helix-WD40 complex containing WEREWOLF (WER), GLABR

144 ents confirmed that yeast condensins extrude loops, however, they remain anchored to their loading si

145 P(2)) interaction profile near intracellular loop (ICL) 2/TM3 at the G-protein-coupling interface, su

146 oad regimes and altered dynamics of feedback loops, illustrate that the waiting time distributions of

147 ggest that m(6)A regulates accumulation of R-loops, implying a role for this modification in safeguar

148 ltrasound confirmed an oedematous intestinal loop in a 70-mm-long hernial sac, with no circulation de

149 ely MAT1-dependent by positioning the CDK7 T-loop in its active conformation.

150 g to well-established receptors, an extended loop in the C-terminal receptor-binding domain (HC) of B

151 al changes create a progressive feed-forward loop in which enhanced matrix deposition and tissue stif

152 enerated by a time-delayed negative feedback loop in which Plk4 inactivates the interaction with its

153 We apply this framework to predict chromatin loops in 56 Hi-C datasets, and release the results at th

154 anchored to their loading sites and extrude loops in a 'one-sided' manner.

155 e endocytic trafficking by creating feedback loops in cells to enhance tumor progression.

156 the active cytoskeleton network and feedback loops in the biochemical network of activators and repre

157 yo(8,9) versus the pre-existence of TADs and loops in the zygote(5,11).

158 The Val to Met substitution in the S4-S5 loop induced a larger increase in basal activity and ago

159 vealed the disruption of a C(32-)A(38) cross-loop interaction but failed to fully explain the means b

160 bgenomic RNA1 via long-distance kissing stem-loop interaction to facilitate translation.

161 in biology is the extent to which long-range looping interactions change across developmental models,

162 ach that can aid the statistical analysis of looping interactions.

163 ihood of using CXCR4 or greater predicted V1 loop interference have faster virus rebound and a lower

164 l substructure through which its 18-nt helix-loop intimately contacts multiple EZH2 sites surrounding

165 These mAbs inserted long CDR-H3 loops into the NA active site, engaging residues highly

166 r each dose by biventricular pressure-volume loops, invasive pressures, diuretic output, respiratory

167 In viruses, R-loop investigation is limited and functional importance

168 The MHC-I-linked glycan steers a tapasin loop involved in peptide editing toward the binding groo

169 We describe an optical feedback loop involving both partners of the association, discuss

170 kin-2 (IL-2) through a positive feed-forward loop involving increased expression of the IL-2 receptor

171 argeted therapies through a mechanosignaling loop involving the autocrine remodeling of a drug-protec

172 esults suggest the possibility of a feedback loop involving these two genes, with the CTNNB1 S45F mut

173 teine residue within the Aurora A activation loop is crucial for Aurora A activation by autophosphory

174 s, ATM and KAP1, a lytic cycle amplification loop is established, and disruption of this loop disable

175 aC helix is destabilized when the activation loop is fully phosphorylated but is again stabilized wit

176 The scrunched NT loop is stabilized by the centrally positioned MTF1 C-ta

177 Identification of these loops is a critical part of most Hi-C analyses.

178 The presence of vascular loops is not associated with most auditory symptoms.

179 restingly, DNA flanking the RNA-5' side of R-loops is not intrinsically unstable.

180 ence of host factor PCBP2 that binds to stem-loop IV of the IRES.

181 Replacing the Fpr loop K61~I72 with a longer loop from Thermus thermophilu

182 g with lipid membranes (termed lipid-binding loop [LBL]).

183 on of individual TALED loops with systematic loop length variation.

184 blished ChIA-PET and HiChIP loops as well as loops linking promoters to regulatory elements.

185 her with 178 LG4 loci averaging >35 internal loop:loop complements of >8 bp.

186 age of synergistically enhanced colorimetric loop-mediated isothermal amplification (LAMP) assay and

187 Loop-mediated isothermal amplification (LAMP) was compar

188 By coupling with loop-mediated isothermal amplification (LAMP), the CHB p

189 Our closed-loop methodology automatically incorporates feedback fro

190 A consensus regulatory loop (miR17/miR20a-FOXE1-PDGFRA) and eight miRNAs (miR-1

191 ge of time that the system was in the closed-loop mode was 93% (interquartile range, 91 to 95).

192 otection in pluripotent cells mean for the t-loop model of end protection?

193 ties of DNA2-like helicase-nucleases and DNA looping motor proteins in general.

194 hibitors, which provide insight into dynamic loop movements that occur on substrate binding.

195 ized neural stimulator may facilitate closed-loop neurostimulation for therapeutic interventions.

196 ATPases form one of the largest clades of P-loop NTPase fold enzymes that catalyze ATP-hydrolysis an

197 ack to the last universal common ancestor, P-loop NTPases and Rossmanns comprise the most ubiquitous

198 hat future DBS for memory will employ closed-loop, nuanced approaches that are synergistic with nativ

199 DNA looping occurs at Top2 clusters.

200 omology was used to identify an unstructured loop of approximately 20 residues in the ExoU amino acid

201 xible loops of JNK and p38 but not the rigid loop of ERK.

202 butions of individual bases in the anticodon loop of hmtRNAThr to t6A modification.

203 spatially coordinating the negative feedback loop of its own genetic circuit.

204 s local microcirculation with a feed-forward loop of organ damage, due to vasoconstriction, leukocyte

205 nusual attributes, including the nepenthesin loop of plasmepsin V and a histidine in place of a catal

206 es an R154Q substitution in an extracellular loop of SLC44A2 that is protective against venous thromb

207 mutation (KR389-390AA) in the intracellular loop of the GlyR alpha2 subunit which results in a heter

208 In X-ray structures, changes in the 220-loop of the receptor-binding pocket caused similar inter

209 are orchestrated by temporospatial chromatin looping of the feather beta-keratin gene cluster on chro

210 Accordingly, NleD cleaved the flexible loops of JNK and p38 but not the rigid loop of ERK.

211 dary hydrophobic core, pinning down the long loops of leptin to the protein body, inducing motional r

212 o our surprise, we also find single-stranded loops of minimal G4s within individual LG4 loci are freq

213 alic acid and mediated by the exposed apical loops of the major capsid protein VP1, a broad range of

214 The upstream exonic loops of the test substrate promoted recruitment of spli

215 estimation of the times required to form the loops of typical sizes seen in Hi-C experiments using th

216 the other hand, replisomes easily bypassed R-loops on either template strand.

217 hm with both an exhaustive search and closed-loop optimization of the variational parameters, approxi

218 sABs can bind to BRIL fused either into the loops or termini of different GPCRs, ion channels, recep

219 n data and found that the predicted enhancer loops outputs were highly conserved.

220 t CDK7 activation can occur independent of T-loop phosphorylation and is thus exclusively MAT1-depend

221 e outside of the up azimuth on both sides of loop pipe outlets, 4 regions from Nos.

222 Fifteen patients underwent AV loop placement with delayed free flap anastomosis for mi

223 by polar interactions with the extracellular loops, predicted using docking and molecular dynamics si

224 expression located at the apex of chromosome loops protruding from the nuclear periphery into the int

225 ime, we demonstrate that the CV of the outer loop, rather than isthmus, is the principal determinant

226 loop from the target recognition domain (TRD loop) recognizes the CpG dinucleotides in a +1 flanking

227 ion to undergo screening with an implantable loop recorder.

228 vealing roles for eRNAs in enhancer-promoter looping, recruiting transcriptional machinery, and facil

229 of RuvC, highlighting a unique role of this loop region in Fpr-HJ interaction.

230 F-phenotypic mutation, E217G, located in the loop region of CFTR's membrane-spanning domain.

231 hromatin loops by protecting cohesin against loop release.

232 This regulatory loop represents a novel signaling paradigm that connects

233 Mutagenesis of U-loop residues reveals its contribution to enzyme kinetic

234 NTD beta-hairpin, the cyclophilin A-binding loop, residues in the hexamer central pore, and the NTD-

235 y, but also promote DSB repair by inducing R-loops, revealing an unexpected interplay between distinc

236 senger RNAs (mRNAs) via a high-affinity stem-loop RNA binding domain interaction, enabling high-throu

237 SGs assembled by stem-loop RNA triggers are ATP-sensitive, regulated by helica

238 Persistent R-loops (RNA-DNA hybrids with a displaced single-stranded

239 Crystal defects called <c> loops, routinely seen no smaller than 13 nm in diameter,

240 s conserved across the Dio family anchor the loop's N-terminus to the active site Ser-Cys-Thr-Sec seq

241 e achieve speeds necessary to form the large loops seen in experiments?

242 amard recipes, while concurrently subject to looped selective inversion or selective saturation proce

243 ue opportunity to realize an archetype nodal-loop semimetal and establish a platform for obtaining a

244 , enabling intracortically controlled closed-loop sensory feedback.

245 with 3 severely fibrotic and deformed bowel loops separated by 2 diseased segments with sequential s

246 eptide mimics of the TAR-binding beta2-beta3 loop sequences present in two high-affinity TBPs (K(D) v

247 output were reflected in alterations in work loop shapes.

248 inding surface, which is centered on a short loop spanning K61 to I72 and flanked by longer alpha-hel

249 structure prediction can be improved using a loop-specific sampling strategy.

250 rolled closed-loop versus fixed-output, open-loop spinal cord stimulation for the treatment of chroni

251 hat upon encountering the ribosome, the stem-loops strongly inhibit A-site tRNA binding and ribosome

252 ey determinant of Grx function is a distinct loop structure adjacent to the active site.

253 The alternate opening of the stem-loop structure of H(1) and H(2)-AuNPs finally results in

254 inding between endogenous TruB1 and the stem-loop structure of pri-let-7, which also binds Lin28A/B.

255 When applied to de novo prediction of CDR H3 loop structures, DeepH3 achieves an average RMSD of 2.2

256 teract with CNBP, contains a highly flexible loop surrounded by more ordered helices.

257 This study has demonstrated that the work-loop technique can provide an important novel method wit

258 and KLF15 form a feed-forward transcription loop that cooperatively transactivates the BoHV-1 immedi

259 nteraction can be seen as a dynamic feedback loop that couples action, reaction, and internal cogniti

260 combination constitutes a positive feedback loop that exponentially amplifies their antimicrobial ac

261 ants thus appear to lack a negative feedback loop that inhibits DSB formation when homologs engage on

262 egans males employ a neuroendocrine feedback loop that integrates food detection and genetic sex to d

263 the ribosomal DNA (RDN) condenses to a thin loop that is distinct from the rest of the chromosomes.

264 The putative priming loop that is important for the initiation of RNA synthes

265 an arousal-modulated thalamo-corticothalamic loop that links the PVT and the ventromedial prefrontal

266 In DdPhyA, two mobile loops that enclose substrates in the PHDs are conserved,

267 terlocked transcription-translation feedback loops that establish cell-autonomous biological timing o

268 n and observe changes in the dynamics of the loops that form the knot.

269 rs can include transcription complexes and R-loops that form when RNA hybridizes with complementary D

270 ruggable site formed by the G protein fusion loops that has not previously emerged as a target for ne

271 am of the BG and in multiple parallel closed loops that provide striatal input.

272 ns are extended, charge-neutral disclination loops that undergo complex dynamics and recombination ev

273 nce of co-transcriptional RNA/DNA hybrids (R-loops) that form in infected cells during S-phase as a c

274 t protamine is using a multi-step process to loop the DNA rather than a one-step process.

275 pairs of CTCF sites preferentially stabilize loops, the molecular basis of this polarity remains uncl

276 The scoop loop thereby acts as an additional selectivity filter in

277 to a predicted protrusion in the envelope V3 loop, this viral determinant does not directly influence

278 utating two lysine residues in intracellular loop three causes Smo to aberrantly accumulate in cilia

279 lving phosphorylation of the four activation-loop threonine residues and binding of ATP-Mg(2+).

280 The RNA polymerase (RNAP) trigger loop (TL) is a mobile structural element of the RNAP act

281 interconnected feed-forward transcriptional loops to establish and reinforce the cell-type-specific

282 mous, transcriptional/translational feedback loops (TTFLs), active in all tissues.

283 ntrations, PRC2 compacted DNA by forming DNA loops typically anchored by two or more PRC2 molecules.

284 Two active site loops undergo large conformational excursions during thi

285 nt a computational design method, loop-helix-loop unit combinatorial sampling (LUCS), that mimics nat

286 developed a novel strategy that uses closed-loop vagus nerve stimulation (VNS) paired with tactile r

287 cord activation with ECAP-controlled closed-loop versus fixed-output, open-loop spinal cord stimulat

288 Each surface loop was evolved by infectious cycling in the presence o

289 The most common type of vascular loop was type II (right: 69.14%; left: 58.75%).

290 st-translationally sulfated in the autolysis loop, we also assessed the effect of this modification.

291 elices 3 and 4 (TM3/4) and their intervening loop, we investigated the structural effects of a patien

292 of the active-site cysteines and of the cap loop which modulates the association reactions of nDsbD

293 gated the JNK-AP-1-RUNX1 regulatory feedback loop, which can be modulated by VEGF.

294 as poly-reactivity and long antigen-binding loops, which are usually under negative selection during

295 ysteresis and remanence in the magnetization loop with out-of-plane magnetic fields become more promi

296 A well-saturated magnetization M-H loop with remanent magnetization of 3.5 emu/cm(3) was ob

297 re we show that miR-17-92 forms a regulatory loop with the transcription factor TAL1.

298 rize the length and position of individual D-loops with near base-pair resolution and deep coverage,

299 E. coli by a collection of individual TALED loops with systematic loop length variation.

300 rm of the transcription/translation feedback loop without affecting period length.