De novo sequence assemblers information

studies to assemble genomes or transcriptomes. Two common types of de novo assemblers are greedy algorithm assemblers and De Bruijn graph assemblers. There...

(sometimes novel) sequences, without using a template (see de novo sequence assemblers, de novo transcriptome assembly) Mapping/Aligning: assembling reads by aligning...

on: Sequence analysis software List of sequence alignment software List of alignment visualization software Alignment-free sequence analysis De novo sequence...

with de novo genome assembly and short read sequencing alignments. This is achieved through the manipulation of de Bruijn graphs for genomic sequence assembly...

De novo transcriptome assembly is the de novo sequence assembly method of creating a transcriptome without the aid of a reference genome. As a result of...

retroposition) or horizontal gene transfer followed by sequence divergence, or by gene fission/fusion. Although de novo gene birth was once viewed as a highly unlikely...

PMC 1464427. PMID 16056220. Kumar S, Blaxter ML (October 2010). "Comparing de novo assemblers for 454 transcriptome data". BMC Genomics. 11: 571. doi:10.1186/1471-2164-11-571...

by de novo assembling genomes from African and Asian populations with the NCBI reference genome (version NCBI36), these genomes had ~5Mb sequences that...

centers has increased. An example of such assembler Short Oligonucleotide Analysis Package developed by BGI for de novo assembly of human-sized genomes, alignment...

This list of sequenced animal genomes contains animal species for which complete genome sequences have been assembled, annotated and published. Substantially...

Overprinting has been hypothesized as a mechanism for de novo emergence of new genes from existing sequences, either older genes or previously non-coding regions...

organellar DNA can be assembled with a reference guide or assembled de novo. High-copy nuclear repeats can be clustered de novo. Assemblers chosen will depend...

applications (GS De Novo Assembler, GS Reference Mapper or GS Amplicon Variant Analyzer). GS De Novo Assembler is a tool for de novo assembly of whole-genomes...

overlapping other sequences. The latter is preferred because it allows for the conservation of more sequences. The de novo assembly of DNA sequences is a very...

the genome. A challenge of short-read sequence data is particularly an issue in sequencing new genomes (de novo) and in sequencing highly rearranged genome...

user-provided or de novo assembled reference: LW-FQZip uses a provided reference genome and Quip, Leon, k-Path and KIC perform de novo assembly using a de Bruijn...

(November 2012). "The genome of flax (Linum usitatissimum) assembled de novo from short shotgun sequence reads". The Plant Journal. 72 (3): 461–73. doi:10.1111/j...

virulence, antibiotic resistance, among other biomedical applications. De novo methyltransferases recognize something in the DNA that allows them to newly...

methods that are used in synthetic biology to construct and assemble genes from nucleotides de novo. Unlike DNA synthesis in living cells, artificial gene...

Newbler is a software package for de novo DNA sequence assembly. It is designed specifically for assembling sequence data generated by the 454 GS-series...

the de novo (bottom-up) and the top-down approach. The minimum constituent parts of a chromosome (centromere, telomeres, and DNA replication sequences) are...

assemblers that uses this approach for de novo assembly. Next-generation sequencing (NGS) methods have allowed the generation of new genome sequences...

alignment tools such as Bowtie and MAQ. SOAPdenovo is a short read de novo assembler utilizing De Bruijn graph construction. It is optimized for short reads such...

The term "de novo sequencing" specifically refers to methods used to determine the sequence of DNA with no previously known sequence. De novo translates...