et al. Short reads-based characterization of pathotype diversity and drug resistance among Escherichia coli isolated from patients attending regional referral hospitals in Tanzania. BMC Med Genomics 17, 110 (2024). https://doi.org/10.1186/s12920-024-01882-y Download citation Received15 January 2024...
Short reads-based characterization of pathotype diversity and drug resistance amongEscherichia coliisolated from patients attending regional referral hospitals in TanzaniaTANZANIAESCHERICHIA coliDRUG resistanceWHOLE genome sequencingDRUG resistance in microorganismsHOSPITALS...
We used exon-exon junctions unique to C-terminal alternative isoforms and not present in predominant TP53 isoform NM_000546.6 as outlined in Fig.1(exons between 3 vertical dotted red lines) to perform exon-exon junction reads based analysis of TP53 C-terminal isoforms using RNA-seq data from T...
Extract subsets of ONT (Nanopore) reads based on time Usage: ontime [OPTIONS] <FILE> Arguments: <FILE> Input fastq/fasta/BAM/SAM file Options: -o, --output <FILE> Output file name [default: stdout] -O, --output-type (fastq/a output only) u: uncompressed; b: Bzip2; g: Gzip...
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the read sequence, rescuing the signal of true variants measured by overlapping amplicons. The output is conceptually similar to hard-clipping the primers from the original FASTQ reads based on sequence identity but with the advantage that retaining the primers during alignment improves alignment ...
In read-based variant calling, the detection rates of deletions were higher than those of insertions (Fig. 5A, C, E, G), since insertions can be detected only when the corresponding reads are fully mapped to the refer- ence, making calling of insertions more difficult than deletions. For...
We developed and implemented INSaFLU ("INSide the FLU"), which is the first influenza-oriented bioinformatics free web-based suite that deals with primary NGS data (reads) towards the automatic generation of the output data that are actually the core first-line "genetic requests" for effective ...
We implement a word count based clustering algorithm for short nucleotide sequences (“reads”)1. In this approach each sequence is represented by the vector of then-mer counts (orn-mer frequencies). We focus on a centroid based clustering algorithm because of its linear space and time complexi...
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