It does not require reference genome sequence for validation, and, therefore, makes it very useful for de novo sequencing projects. Different genome assemblers possess different properties in relation to accuracy and completeness of genome assembly. A comparison of different genome assemblers on ...
http://www.genome.jp/kegg/; Repbase, http://www.girinst.org/repbase/index.html; SOALR, http://treesoft.svn.sourceforge.net/viewvc/treesoft/; RepeatMasker, http://repeatmasker.org/; GLEAN, http://sourceforge.net/projects/glean-gene/. ...
mongolicusgenome, 47.53 Gb Hi-C data were anchored to the 12 assembled chromosomes, the total length of which was 582.7 Mb, accounting for 96.28% of the whole assembled genome (Fig.1a, Tables S2and S3). BUSCO analysis revealed that the assembledT. mongolicusgenome has a high level of compl...
We report the first annotated chromosome-level reference genome assembly for pea, Gregor Mendel’s original genetic model. Phylogenetics and paleogenomics show genomic rearrangements across legumes and suggest a major role for repetitive elements in pea genome evolution. Compared to other sequenced Legumin...
Estimation of variance components ("chip/SNP heritability") partitioned by different SNP functional categories from raw (individual-level) data or summary data. For raw data, HE regression or the REML AI algorithm can be used to estimate variance components when individual-level data are available...
First, a large amount of data needs to be processed.Typical genome sequencing projects generate TB-scale data. For example, an MGI's DNBSEQ-T7 sequencer produces 4.5 TB/24 h and 6 TB/30 h, and under full load can generate approx. 1.7 PB data annually. In addition, the intermediate fil...
Megabase-level duplication and inversion on chromosome 4.a–cSyRI and CGRD results on chromosome 4.aThe CGRD result using A188Ref1 as the reference genome. The Y-axis represents log2 values of ratios of read depths of B73 to A188, log2(B:A), signifying copy number variation (CNV). Re...
Sequence data generated during the current study are available in DDBJ bioprojects, under accession number PRJDB14101 (RNA reads for Triparma laevis f. inornata), PRJDB13844 (DNA reads for the other seven strains), and PRJDB13933 (RNA reads for the other three strains). The assembly data...
The democratization of mass sequencing has led to a surge in genome sequences: as of mid-March 2014, GOLD [1] catalogs more than 40,000 genome projects, almost half of which are complete. Sequencing has become the easy part, creating a backlog of annotation work. Genome annotation consists...
Here, we assembled a high-quality chromosome-level genome of F. hirta using a combination of PacBio HiFi sequencing and Hi-C techniques and compared this with previously published genomes of four congeners. The assembled F. hirta genome had a combined length of 297.27 Mb, featuring a cont...