sequence analysis
Dotaz
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elektronický časopis
- Konspekt
- Obecná genetika. Obecná cytogenetika. Evoluce
- NLK Obory
- biologie
- genetika, lékařská genetika
- NLK Publikační typ
- elektronické časopisy
- MeSH
- aminokyseliny MeSH
- DNA virů analýza MeSH
- geny MeSH
- nukleotidy MeSH
- onkogenní viry MeSH
- RNA virová MeSH
- skot MeSH
- zvířata MeSH
- Check Tag
- skot MeSH
- zvířata MeSH
- Publikační typ
- srovnávací studie MeSH
... and Overview, 1 Prediction of RNA Secondary Structure, 327 -- Chapter 2 -- Collecting and Storing Sequences ... ... in the Laboratory, 29 -- Chapter 3 -- Alignment of Pairs of Sequences, 65 Chapter 4 -- Introduction ... ... to Probability and Statistical Analysis of Sequence Alignments, 121 -- Chapter 5 -- Multiple Sequence ... ... Alignment, 163 Charter 6 -- Sequence Database Searching for Similar Sequences, 227 -- Chapter 7 -- Phylogenetic ... ... -- Chapter 1 2 -- Bioinformatics Programming Using Perl and Perl Modules, 549 -- Chapter 1 3 -- Analysis ...
2nd ed. xii, 692 s. : il.
- MeSH
- biologické vědy MeSH
- genetika MeSH
- Konspekt
- Obecná genetika. Obecná cytogenetika. Evoluce
- NLK Obory
- genetika, lékařská genetika
UWBC biotechnical resource series
XV, 279 s. : il. ; 24 cm
1 online zdroj
- MeSH
- mitochondriální DNA * MeSH
- sekvenční analýza DNA MeSH
- Publikační typ
- periodika MeSH
- Konspekt
- Biochemie. Molekulární biologie. Biofyzika
- NLK Obory
- genetika, lékařská genetika
RepeatExplorer2 is a novel version of a computational pipeline that uses graph-based clustering of next-generation sequencing reads for characterization of repetitive DNA in eukaryotes. The clustering algorithm facilitates repeat identification in any genome by using relatively small quantities of short sequence reads, and additional tools within the pipeline perform automatic annotation and quantification of the identified repeats. The pipeline is integrated into the Galaxy platform, which provides a user-friendly web interface for script execution and documentation of the results. Compared to the original version of the pipeline, RepeatExplorer2 provides automated annotation of transposable elements, identification of tandem repeats and enhanced visualization of analysis results. Here, we present an overview of the RepeatExplorer2 workflow and provide procedures for its application to (i) de novo repeat identification in a single species, (ii) comparative repeat analysis in a set of species, (iii) development of satellite DNA probes for cytogenetic experiments and (iv) identification of centromeric repeats based on ChIP-seq data. Each procedure takes approximately 2 d to complete. RepeatExplorer2 is available at https://repeatexplorer-elixir.cerit-sc.cz .
- MeSH
- DNA sondy chemie genetika MeSH
- DNA chemie genetika MeSH
- genomika metody MeSH
- lidé MeSH
- repetitivní sekvence nukleových kyselin MeSH
- sekvenční analýza DNA metody MeSH
- shluková analýza MeSH
- software MeSH
- transpozibilní elementy DNA MeSH
- vysoce účinné nukleotidové sekvenování metody MeSH
- zvířata MeSH
- Check Tag
- lidé MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
Bacillus thuringiensis (Bt) is efficient, strongly specific, and avirulent to humans, making it one of the most popular biopesticides in the world. Bt LLP29 is a mosquitocidal strain that was first isolated from Magnolia denudata. To understand its molecular mechanism against mosquitoes, the genome of Bt LLP29 was sequenced and annotated in this study. The LLP29 genome was found to have a total length of 5.99 Mb, with an average G + C content of 35.21%. A total of 6107 coding sequences were also detected, together with 42 rRNAs and 124 tRNAs and 135 other RNAs. With the help of annotation databases, including GO, COG, KEGG, Nr and Swiss-Prot, most unigene functions were identified. At the same time, a collinear analysis was performed on the genome of LLP29. There were also some virulence genes detected, including cry, chitinase, zwittermicin and vip.
