Homeobox sequences in the transcriptome read map
Clustering of Short Read Sequences for de novo Transcriptome Assembly
... of transcriptome analysis in various biological studies and considering the vast amount of whole transcriptome sequencing data, it seems necessary to develop an algorithm to assemble transcriptome ...
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A high resolution map of a cyanobacterial transcriptome
... each read will remove the introduced poly-(A) tail but will also remove any trailing adenines at the 3 ’ end of the reverse-transcribed RNA fragment, biasing the 3’ end determination of RNAs that end in trailing ...
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SQANTI : extensive characterization of long-read transcript sequences for quality control in full-length transcriptome identification and quantification
... a Read of Insert (RoI), which is the current standard PacBio ...long sequences by traversing paths in de Bruijn graphs representing short-reads, IDP calls transcripts by using a combination of direct ...
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SpiroESTdb: a transcriptome database and online tool for sparganum expressed sequences tags
... the read id, consensus id, gene name, gene accession number and functional description) in the “Annotation” ...raw read data, contigs and singletons, via the “Run BLAST” page, to find and visualize ...
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Transcriptome assembly from long read RNA seq alignments with StringTie2
... for transcriptome assem- ...all sequences should be covered uniformly, but not for transcriptome assembly, where some transcripts may have coverage as low as a single ...
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A technology-agnostic long-read analysis pipeline for transcriptome discovery and quantification
... then map short reads to the resulting transcriptome references for the purpose of quantification 26–28 ...long- read transcriptome data were not explicitly designed for this ...for ...
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Long-read RNA sequencing analysis of the lytic human cytomegalovirus transcriptome
... 4.2 NGS revolutionizes transcriptomics Compared to previous tools that were available for transcript analysis such as reverse- transcription quantitative PCR and microarrays, RNA-Seq was a rapid advancement. NGS enabled ...
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RNA sequencing read depth requirement for optimal transcriptome coverage in Hevea brasiliensis
... whether transcriptome sequencing and assem- bly have substantially captured all the genes expressed in a sample is an important consideration for plants having limited genomic resources as ...novo ...
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Comprehensive Transcriptome Profiles of Streptococcus mutans UA159 Map Core Streptococcal Competence Genes
... intergenic sequences, we can nonetheless use the ORF expression information available there to uncover candidate members of the ComR ...WT transcriptome, along with the down- stream genes ...transcription ...
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Software for pre-processing Illumina next-generation sequencing short read sequences
... or transcriptome is not avail- ...NGS sequences uses De Bruijn Graph (DBG) [5] data struc- ture, which manages the large volume and short read length of NGS data better than classical Overlap-Layout- ...
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BowStrap v1 0: Assigning statistical significance to expressed genes using short read transcriptome data
... short read sequences and reports gene model expression as an averaged aligned reads per Kb of gene model sequence per million aligned deep RNA sequence reads with a confidence interval, suitable for ...
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De novo assembly of a genome-wide transcriptome map of Vicia faba (L.) for transfer cell research
... for transcriptome assem- ...adapter sequences, excluding low quality reads, and ribosomal-derived reads and removing the last 10 bases from the 3 ′ end of each read to increase sequence ...
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The mammalian transcriptome and the function of non coding DNA sequences
... In modern eukaryotes, the transcription and processing of mRNA are highly coupled with intron splicing and/or exon recognition. There is an obvious correlation between the number and total length of introns on the one ...
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A modular transcriptome map of mature B cell lymphomas
... Results: We present a transcriptome map of B cell lymphomas that allows visual comparison between the SOM portraits of different lymphoma strata and individual cases. It decomposes into one dozen modules of ...
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Farey Sequences Map Playable Nodes on a String
... Natural harmonics, i.e. partials and their harmonic series, may be isolated on a vibrating string by lightly touching specific points along its length. In addition to the two endpoints, stationary nodes for a given ...
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An integrated approach to enhancing functional annotation of sequences for data analysis of a transcriptome
... orthologous sequences. In many instances insufficient orthologous sequences exist, or too few of the functions of the putative orthologs have been experimentally characterized to establish they are ...
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MAP Estimation of Chin and Cheek Contours in Video Sequences
... For evaluation of the algorithm’s accuracy, the true po- sitions of chin and cheek contours are manually determined from the video sequences. These true positions are then com- pared with the estimated ones to get ...
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NK2 homeobox 5 (Nkx2-5) is a cardiac homeobox
... K2 homeobox 5 (Nkx2-5) is a cardiac homeobox transcription factor that is expressed in a broad range of cardiac sublineages, from the early committed cardiac progenitors through the adult cardiomyocytes, ...
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Basic Map & GPS Skills. How to read a topographic map, use a compass, and determine GPS locations on a map
... a map, visually, by finding the bearings of three landmarks, drawing an imaginary line between himself and each of the landmarks, and determining his position as the point where the lines ...
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Sequences required for paramutation of the maize b gene map to a region containing the promoter and upstream sequences.
... genic recombination event combines the B-Peru up- stream regulatory sequences with the B’ coding se- quence that lacks a Ds element, the result should be an allele that[r] ...
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