Matches in SemOpenAlex for { <https://semopenalex.org/work/W4311589968> ?p ?o ?g. }
Showing items 1 to 95 of
95
with 100 items per page.
- W4311589968 abstract "The application of PacBio HiFi and ultra-long ONT reads have enabled huge progress in the contig-level assembly, but it is still challenging to assemble large contigs into chromosomes with available Hi-C scaffolding tools, which count Hi-C links between contigs using the whole or a large part of contig regions. As the Hi-C links of two adjacent contigs concentrate only at the neighbor ends of the contigs, larger contig size will reduce the power to differentiate adjacent (signal) and non-adjacent (noise) contig linkages, leading to a higher rate of mis-assembly.We design and develop a novel Hi-C based scaffolding tool EndHiC, which is suitable to assemble large contigs into chromosomal-level scaffolds. The core idea behind EndHiC, which distinguishes it from other Hi-C scaffolding tools, is using Hi-C links only from the most effective regions of contig ends. By this way, the signal neighbor contig linkages and noise non-neighbor contig linkages are separated more clearly. Benefiting from the increased signal to noise ratio, the reciprocal best requirement, as well as the robustness evaluation, EndHiC achieves higher accuracy for scaffolding large contigs compared to existing tools. EndHiC has been successfully applied in the Hi-C scaffolding of simulated data from human, rice and Arabidopsis, and real data from human, great burdock, water spinach, chicory, endive, yacon, and Ipomoea cairica, suggesting that EndHiC can be applied to a broad range of plant and animal genomes.EndHiC is a novel Hi-C scaffolding tool, which is suitable for scaffolding of contig assemblies with contig N50 size near or over 10 Mb and N90 size near or over 1 Mb. EndHiC is efficient both in time and memory, and it is interface-friendly to the users. As more genome projects have been launched and the contig continuity constantly improved, we believe EndHiC has the potential to make a great contribution to the genomics field and liberate the scientists from labor-intensive manual curation works." @default.
- W4311589968 created "2022-12-27" @default.
- W4311589968 creator A5000914636 @default.
- W4311589968 creator A5008952408 @default.
- W4311589968 creator A5011251160 @default.
- W4311589968 creator A5021084228 @default.
- W4311589968 creator A5023123334 @default.
- W4311589968 creator A5037855408 @default.
- W4311589968 creator A5056011953 @default.
- W4311589968 creator A5063302131 @default.
- W4311589968 creator A5069199415 @default.
- W4311589968 creator A5086664284 @default.
- W4311589968 date "2022-12-08" @default.
- W4311589968 modified "2023-10-09" @default.
- W4311589968 title "EndHiC: assemble large contigs into chromosome-level scaffolds using the Hi-C links from contig ends" @default.
- W4311589968 cites W1489349053 @default.
- W4311589968 cites W2090037139 @default.
- W4311589968 cites W2118970626 @default.
- W4311589968 cites W2153325555 @default.
- W4311589968 cites W2185693210 @default.
- W4311589968 cites W2396077153 @default.
- W4311589968 cites W2493763501 @default.
- W4311589968 cites W2965879979 @default.
- W4311589968 cites W2969330652 @default.
- W4311589968 cites W2992976869 @default.
- W4311589968 cites W3020957364 @default.
- W4311589968 cites W3022783334 @default.
- W4311589968 cites W3049406222 @default.
- W4311589968 cites W3128198169 @default.
- W4311589968 cites W3128727817 @default.
- W4311589968 cites W3216110456 @default.
- W4311589968 cites W4281720378 @default.
- W4311589968 cites W4283524149 @default.
- W4311589968 cites W4288067379 @default.
- W4311589968 cites W4302008058 @default.
- W4311589968 doi "https://doi.org/10.1186/s12859-022-05087-x" @default.
- W4311589968 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/36482318" @default.
- W4311589968 hasPublicationYear "2022" @default.
- W4311589968 type Work @default.
- W4311589968 citedByCount "6" @default.
- W4311589968 countsByYear W43115899682022 @default.
- W4311589968 countsByYear W43115899682023 @default.
- W4311589968 crossrefType "journal-article" @default.
- W4311589968 hasAuthorship W4311589968A5000914636 @default.
- W4311589968 hasAuthorship W4311589968A5008952408 @default.
- W4311589968 hasAuthorship W4311589968A5011251160 @default.
- W4311589968 hasAuthorship W4311589968A5021084228 @default.
- W4311589968 hasAuthorship W4311589968A5023123334 @default.
- W4311589968 hasAuthorship W4311589968A5037855408 @default.
- W4311589968 hasAuthorship W4311589968A5056011953 @default.
- W4311589968 hasAuthorship W4311589968A5063302131 @default.
- W4311589968 hasAuthorship W4311589968A5069199415 @default.
- W4311589968 hasAuthorship W4311589968A5086664284 @default.
- W4311589968 hasBestOaLocation W43115899681 @default.
- W4311589968 hasConcept C104317684 @default.
- W4311589968 hasConcept C141231307 @default.
- W4311589968 hasConcept C150194340 @default.
- W4311589968 hasConcept C162317418 @default.
- W4311589968 hasConcept C18949551 @default.
- W4311589968 hasConcept C41008148 @default.
- W4311589968 hasConcept C54355233 @default.
- W4311589968 hasConcept C59582021 @default.
- W4311589968 hasConcept C70721500 @default.
- W4311589968 hasConcept C86803240 @default.
- W4311589968 hasConceptScore W4311589968C104317684 @default.
- W4311589968 hasConceptScore W4311589968C141231307 @default.
- W4311589968 hasConceptScore W4311589968C150194340 @default.
- W4311589968 hasConceptScore W4311589968C162317418 @default.
- W4311589968 hasConceptScore W4311589968C18949551 @default.
- W4311589968 hasConceptScore W4311589968C41008148 @default.
- W4311589968 hasConceptScore W4311589968C54355233 @default.
- W4311589968 hasConceptScore W4311589968C59582021 @default.
- W4311589968 hasConceptScore W4311589968C70721500 @default.
- W4311589968 hasConceptScore W4311589968C86803240 @default.
- W4311589968 hasFunder F4320321001 @default.
- W4311589968 hasIssue "1" @default.
- W4311589968 hasLocation W43115899681 @default.
- W4311589968 hasLocation W43115899682 @default.
- W4311589968 hasLocation W43115899683 @default.
- W4311589968 hasOpenAccess W4311589968 @default.
- W4311589968 hasPrimaryLocation W43115899681 @default.
- W4311589968 hasRelatedWork W1992950355 @default.
- W4311589968 hasRelatedWork W2008826985 @default.
- W4311589968 hasRelatedWork W2078447778 @default.
- W4311589968 hasRelatedWork W2200318732 @default.
- W4311589968 hasRelatedWork W2574304546 @default.
- W4311589968 hasRelatedWork W2925048800 @default.
- W4311589968 hasRelatedWork W3128872455 @default.
- W4311589968 hasRelatedWork W4281620341 @default.
- W4311589968 hasRelatedWork W4313598112 @default.
- W4311589968 hasRelatedWork W4381279187 @default.
- W4311589968 hasVolume "23" @default.
- W4311589968 isParatext "false" @default.
- W4311589968 isRetracted "false" @default.
- W4311589968 workType "article" @default.