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This enormously dense population of root tips might be considered a swarm, though one made up of microscopic sub-swarms of roots of different branch order oriented at right-angles to each other.
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When contigs are ordered, oriented, and positioned with respect to each other by mate-pair reads, they are described as a scaffold.
The focus has been to produce high-quality coverage of all identifiable gene-containing regions of the maize genome where only gene-containing regions are ordered, oriented and anchored to the physical and genetic maps of the maize genome (6).
A total of 22 potato BACs were sequenced in this study and we were able to generate 13 potato BACs in phase 2 and 3 which have ordered, oriented contigs allowing for gene annotation.
For example, comparison of map fragments such as FPC contigs to an assembled sequence map or high-quality genetic map can help order, orient and assemble the fragments.
We describe L_RNA_scaffolder, a novel genome scaffolding method that uses long transcriptome reads to order, orient and combine genomic fragments into larger sequences.
We considered the KN400 genome as a signed circular permutation of the finished scaffolds and adopted a PCR based scaffold ordering approach in order to orient them into a circular genome.
The scaffolds obtained from a de novo assembly were ordered and oriented solely by mapping BES based on the known physical map MTP order.
When combined with a genetic linkage map, 99% of the assembly could be ordered and oriented into six chromosomes.
Firstly, highly ordered, vertically oriented rutile TiO2 nanowire array is synthesized directly on titanium substrate by solvothermal procedure without any template.
However, it became clear that even with this reduced coverage strategy, Celera could generate an accurately ordered and oriented scaffold sequence of the human genome in less than 1 year.
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