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Tìm thấy 11+ kết quả cho từ khóa "Read coverage"

Millefy: Visualizing cell-to-cell heterogeneity in read coverage of single-cell RNA sequencing datasets

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Specifically, for c-JUN, some cells showed short read coverage and others showed long read coverage (Fig. In the last exon of NRAS, many cells showed long 3 UTR read coverage but some cells showed a shortened 3 UTR read coverage (Fig. Such heterogeneity cannot be determined by the aggregated (averaged) read coverage alone (Fig. Millefy associates read coverage with genomic contexts to facilitate interpretation of read coverage.

Completion of draft bacterial genomes by long-read sequencing of synthetic genomic pools

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Among all as- semblies tested, SGP hybrid assemblies were consistently the most contiguous, achieving N50 values equal to or greater than barcoded hybrid and long-read assemblies (Fig. With respect to long-read-only assemblies, we observed that contiguity and completeness of assembly could be greatly affected by read coverage.

A new method for long-read sequencing of animal mitochondrial genomes: Application to the identification of equine mitochondrial DNA variants

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In the same run and for the samples treated with exoA the minimum coverage was 526 reads. In conclusion, the read coverage of the mitochondrial genome was complete and unbiased in our tested conditions.. Long-read distribution and coverage of the mitochondrial genome. Since we obtained a good coverage of the mitochondrial genome, we wondered about the proportion of long- reads covering a significant portion of the mitochondrial DNA.

Complete nontuberculous mycobacteria whole genomes using an optimized DNA extraction protocol for long-read sequencing

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Coverage was calculated as an average of basecalled and trimmed fastq reads to the corresponding genome assembly using minimap2 alignment and taking the average read coverage of the samtools depth output (minimap2 -ax map-ont. Quality and quantity measurements of DNA extractions were compared by one-way ANOVA with post-hoc Tukey’s multiple comparison tests and un- paired t-tests when appropriate.

Impact of PNPase on the transcriptome of Rhodobacter sphaeroides and its cooperation with RNase III and RNase E

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We further calculated the ratio of the 3′ end coverage and the full read coverage for every replicate and every position. All resulting positions are regarded as true differential 3′ ends.. By far most of all 3′ ends (82%) were strongly enriched in the pnp mutant strain showing a log 2 -fold change between + 5 and + 9 (Fig. All 3′ ends that did not overlap with any feature were classified in the group UTR.

Promising prospects of nanopore sequencing for algal hologenomics and structural variation discovery

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Both Nanopolish and Pilon seemed sensitive to read coverage since the quality of the polished 1Df MT genomes, which exhibited much lower read coverage than the CP genome (42X vs. However, when comparing the quality of the 1Df and 2D CP gen- ome polished with high read coverage (815X vs.

A ligation-based single-stranded library preparation method to analyze cell-free DNA and synthetic oligos

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We compared the length distribution, read coverage, com- plexity, GC content, and DNA termini results of the SRSLY prep to those of the TaKaRa SMARTer and Swift 1S methods as well. 3b) confirm that SRSLY produces reduced coverage across the overhanging regions compared to the double- stranded regions of the synthetic oligos illustrating the method’s ability to yield stranded data that accurately characterizes the input DNA.

Re-annotation of the Theileria parva genome refines 53% of the proteome and uncovers essential components of Nglycosylation, a conserved pathway in many organisms

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It is likely that some of the most significant differences. b A case where two genes in the 2005 annotation merge in the new annotation on the basis of RNAseq read coverage (TpMuguga_04g02435). c A case where a gene in the 2005 annotation has been split into two genes in the new annotation (TpMuguga_04g02190 and TpMuguga_04g02185). in these cases, no UTRs were defined in the intervening intergenic region, since. 0), where the read coverage was at least equal to the mean read coverage for the coding

Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome

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Only 7 of the 302 missing Wags genes (2.3%) had no long read coverage, whilst of genes missing in CanFam_GSD were confirmed by an absence of mapped long reads.. Two copies of the Amy2B gene were identified in a tandem repeat on Chromosome 6 of the CanFam_Bas assembly. CanFam_Bas . CanFam_GSD . Wags assembly has a single copy of the Amy2B region, which includes 90% of the Amy2B coding sequence (data not shown).

Chronological set of E. coli O157:H7 bovine strains establishes a role for repeat sequences and mobile genetic elements in genome diversification

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Detailed analysis of the 47.7-kbp deletion in FRIK1275 and FRIK1625 was conducted by alignment of short- read sequence data to the intact sequence of adjacent prophage Φ804–9 and Φ804–10 from FRIK804. A com- parison of the difference in read coverage between strains FRIK1275 and FRIK1625 with that of FRIK804 (no deletion) enabled demarcation of the deletion boundaries (Fig. The propensity for deletions in this region may be due to the proximity of the two prophages..

Indoor wireless coverage stadium and arena coverage

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Due to the inefficient coverage of the macrocell, capacity could not be fully accessed because the signals would not penetrate the stadium.. Installing a base transceiver station dedicated to the stadium would require a significant capital investment and result in inefficient use of capacity because the stadium was only used periodically for events..

Residential Wireless Coverage

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An increase in the allowable path loss (and therefore coverage area), or An increase in capacity for a fixed coverage area, or. A reduction in mobile transmit power for a given coverage/capacity combination, which resulted in longer mobile phone battery life.. Technicians tabulated DCs and FCAs for two weeks after the TMAs were installed. Representatives from the wireless carrier were ecstatic with the results—as were their customers..

CDMA Capacity and Coverage

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This improvement can be viewed either as an increase in. allowed path loss (and therefore, coverage) for a fixed capacity, an increase in capacity for a fixed coverage area, or a reduction in mobile transmit power for a given capacity/coverage combination.. “Downlink Limited” Scenario. capacity of the system, the graph shows that at a typical operating point, a TMA will still provide a significant coverage improvement for a given number of users..

Digivance® Stadium Coverage

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The service provider chose ADC’s Digivance® Street-Level Coverage Solution (SCS) to increase wireless capacity and to extend coverage for hard-to-reach areas in the stadium. As a result, the service provider could extend its coverage to reach problematic coverage holes with minimal investment and no maintenance costs.. ADC’s Digivance SCS offers the service provider an easy-to-use, cost-effective option for expanding wireless capacity

Using short read sequencing to characterise balanced reciprocal translocations in pigs

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chromosome as well as discordant read pairs and split reads at the two breakends from the af- fected chromosome.

Indoor wireless coverage convention center

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ADC worked with the service provider to show how it could incorporate a coverage solution that would enhance the existing network, cost effectively providing increased capacity and improved coverage. The convention center had a courtyard in the center, with an arena-like structure surrounding that area. Subscribers within the audiences typically congregated in the hallways and the areas below the courtyard where coverage was exceptionally poor.

Hecaton: Reliably detecting copy number variation in plant genomes using short read sequencing data

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As we aimed to maximize the performance of the model for low coverage datasets in particular, we subsam- pled these datasets to 10x coverage using seqtk [26]. Calls were labeled as true or false positives using long read data of the same samples (See Additional file 3: Supplemen- tary Methods for details).

Washington DC Law Firm Enables Wireless Coverage

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Today, the Unison system brings wireless coverage to roughly 200,000 square feet of interior space and supports both T-Mobile’s 1900MHz frequency and Verizon’s 850MHz and 1900MHz frequencies.. Carson has been very pleased with the coverage and with the InterReach system. “It’s working smoothly everywhere in the building so we don’t have to even think about it anymore,” he says..

Urban Wireless Coverage Street-Level Service

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Three sectors of the cell site were being used to provide macro coverage, with antennas located on the roof of the building. A fourth sector was used to provide street-level coverage via an analog fiber transport system, with antennas located on the side of the building. Digivance LRCS uses patented digitized RF transport technology to extend seamless wireless coverage from existing cell sites to hard-to- reach areas or distribute capacity from centralized radio suites..