東華大學圖書館 |

Language: English

Help

回圖書館首頁

手機版館藏查詢

Back to Search results for [ subject:"Computational Biology/Bioinformatics." ]

Switch To: Labeled | MARC Mode | ISBD

Hidden treasures in contemporary RNA...

Mangul, Serghei.

Linked to FindBook

Google Book

Amazon

博客來

Hidden treasures in contemporary RNA sequencing

Record Type:	Electronic resources : Monograph/item
Title/Author:	Hidden treasures in contemporary RNA sequencing/ by Serghei Mangul ... [et al.].
other author:	Mangul, Serghei.
Published:	Cham :Springer International Publishing : : 2019.,
Description:	v, 93 p. :ill. (some col.), digital ;24 cm.
[NT 15003449]:	Abstract -- Main Text -- Acknowledgement -- Disclosure -- References.
Contained By:	Springer eBooks
Subject:	Nucleotide sequence. -
Online resource:	https://doi.org/10.1007/978-3-030-13973-5
ISBN:	9783030139735

Hidden treasures in contemporary RNA sequencing
Hidden treasures in contemporary RNA sequencing[electronic resource] /by Serghei Mangul ... [et al.]. - Cham :Springer International Publishing :2019. - v, 93 p. :ill. (some col.), digital ;24 cm. - SpringerBriefs in computer science,2191-5768. - SpringerBriefs in computer science..

Abstract -- Main Text -- Acknowledgement -- Disclosure -- References.

Advances in RNA-sequencing (RNA-seq) technologies have provided an unprecedented opportunity to explore the gene expression landscape across individuals, tissues, and environments by efficiently profiling the RNA sequences present in the samples. When a reference genome sequence or a transcriptome of the sample is available, mapping-based RNA-seq analysis protocols align the RNA-seq reads to the reference sequences, identify novel transcripts, and quantify the abundance of expressed transcripts. The reads that fail to map to the human reference, known as unmapped reads, are a large and often overlooked output of standard RNA-seq analyses. Even in carefully executed experiments, the unmapped reads can comprise a considerable fraction of the complete set of reads produced, and can arise due to technical sequencing produced by low-quality and error-prone copies of the nascent RNA sequence being sampled. Reads can also remain unmapped due to unknown transcripts, recombined B and T cell receptor sequences, A-to-G mismatches from A-to-I RNA editing, trans-splicing, gene fusion, circular RNAs, and the presence of non-host RNA sequences (e.g. bacterial, fungal, and viral organisms) Unmapped reads represent a rich resource for the study of B and T cell receptor repertoires and the human microbiome system--)without incurring the expense of additional targeted sequencing. This book introduces and describes the Read Origin Protocol (ROP), a tool that identifies the origin of both mapped and unmapped reads. The protocol first identifies human reads using a standard high-throughput algorithm to map them onto a reference genome and transcriptome. After alignment, reads are grouped into genomic (e.g. CDS, UTRs, introns) and repetitive (e.g. SINEs, LINEs, LTRs) categories. The rest of the ROP protocol characterizes the remaining unmapped reads, which failed to map to the human reference sequences.

ISBN: 9783030139735

Standard No.: 10.1007/978-3-030-13973-5doiSubjects--Topical Terms:

587563
Nucleotide sequence.

LC Class. No.: QP625.N89

Dewey Class. No.: 572.8633

Hidden treasures in contemporary RNA sequencing
LDR:03041nmm a2200349 a 4500 001 2179772
003 DE-He213
005 20190301083934.0
006 m d
007 cr nn 008maaau
008 191122s2019 gw s 0 eng d
020 $a 9783030139735 $q (electronic bk.)
020 $a 9783030139728 $q (paper)
024 7 $a 10.1007/978-3-030-13973-5 $2 doi
035 $a 978-3-030-13973-5
040 $a GP $c GP
041 0 $a eng
050 4 $a QP625.N89
072 7 $a PSA $2 bicssc
072 7 $a COM014000 $2 bisacsh
072 7 $a PSA $2 thema
072 7 $a UB $2 thema
082 0 4 $a 572.8633 $2 23
090 $a QP625.N89 $b H632 2019
245 0 0 $a Hidden treasures in contemporary RNA sequencing $h [electronic resource] / $c by Serghei Mangul ... [et al.].
260 $a Cham : $b Springer International Publishing : $b Imprint: Springer, $c 2019.
300 $a v, 93 p. : $b ill. (some col.), digital ; $c 24 cm.
490 1 $a SpringerBriefs in computer science, $x 2191-5768
505 0 $a Abstract -- Main Text -- Acknowledgement -- Disclosure -- References.
520 $a Advances in RNA-sequencing (RNA-seq) technologies have provided an unprecedented opportunity to explore the gene expression landscape across individuals, tissues, and environments by efficiently profiling the RNA sequences present in the samples. When a reference genome sequence or a transcriptome of the sample is available, mapping-based RNA-seq analysis protocols align the RNA-seq reads to the reference sequences, identify novel transcripts, and quantify the abundance of expressed transcripts. The reads that fail to map to the human reference, known as unmapped reads, are a large and often overlooked output of standard RNA-seq analyses. Even in carefully executed experiments, the unmapped reads can comprise a considerable fraction of the complete set of reads produced, and can arise due to technical sequencing produced by low-quality and error-prone copies of the nascent RNA sequence being sampled. Reads can also remain unmapped due to unknown transcripts, recombined B and T cell receptor sequences, A-to-G mismatches from A-to-I RNA editing, trans-splicing, gene fusion, circular RNAs, and the presence of non-host RNA sequences (e.g. bacterial, fungal, and viral organisms) Unmapped reads represent a rich resource for the study of B and T cell receptor repertoires and the human microbiome system--)without incurring the expense of additional targeted sequencing. This book introduces and describes the Read Origin Protocol (ROP), a tool that identifies the origin of both mapped and unmapped reads. The protocol first identifies human reads using a standard high-throughput algorithm to map them onto a reference genome and transcriptome. After alignment, reads are grouped into genomic (e.g. CDS, UTRs, introns) and repetitive (e.g. SINEs, LINEs, LTRs) categories. The rest of the ROP protocol characterizes the remaining unmapped reads, which failed to map to the human reference sequences.
650 0 $a Nucleotide sequence. $3 587563
650 0 $a RNA. $3 569546
650 1 4 $a Computational Biology/Bioinformatics. $3 898313
650 2 4 $a Bioinformatics. $3 553671
650 2 4 $a Genetics and Genomics. $3 3385208
700 1 $a Mangul, Serghei. $3 3385207
710 2 $a SpringerLink (Online service) $3 836513
773 0 $t Springer eBooks
830 0 $a SpringerBriefs in computer science. $3 1567571
856 4 0 $u https://doi.org/10.1007/978-3-030-13973-5
950 $a Computer Science (Springer-11645)