Bionano Genome Mapping: High-Throughput, Ultra-Long Molecule Genome Analysis System for Precision Genome Assembly and Haploid-Resolved Structural Variation Discovery

2019 ◽  
pp. 97-118 ◽  
Author(s):  
Sven Bocklandt ◽  
Alex Hastie ◽  
Han Cao
Keyword(s):  
High Throughput ◽  
Genome Assembly ◽  
Genome Analysis ◽  
Structural Variation ◽  
Genome Mapping ◽  
Analysis System

scholarly journals Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes

2009 ◽  
Vol 19 (7) ◽  
pp. 1270-1278 ◽  
Author(s):  
F. Hormozdiari ◽  
C. Alkan ◽  
E. E. Eichler ◽  
S. C. Sahinalp
Keyword(s):  
High Throughput ◽  
Structural Variation ◽  
Combinatorial Algorithms

scholarly journals Whole-Genome Sequencing of Chinese Yellow Catfish Provides a Valuable Genetic Resource for High-Throughput Identification of Toxin Genes

Toxins ◽  
2018 ◽  
Vol 10 (12) ◽  
pp. 488 ◽  
Author(s):  
Shiyong Zhang ◽  
Jia Li ◽  
Qin Qin ◽  
Wei Liu ◽  
Chao Bian ◽  
...  
Keyword(s):  
High Throughput ◽  
Genome Assembly ◽  
Raw Materials ◽  
Pelteobagrus Fulvidraco ◽  
Yellow Catfish ◽  
High Quality ◽  
Protein Coding ◽  
Toxin Genes ◽  
Sequencing Platforms ◽  
High Quality Genome

Naturally derived toxins from animals are good raw materials for drug development. As a representative venomous teleost, Chinese yellow catfish (Pelteobagrus fulvidraco) can provide valuable resources for studies on toxin genes. Its venom glands are located in the pectoral and dorsal fins. Although with such interesting biologic traits and great value in economy, Chinese yellow catfish is still lacking a sequenced genome. Here, we report a high-quality genome assembly of Chinese yellow catfish using a combination of next-generation Illumina and third-generation PacBio sequencing platforms. The final assembly reached 714 Mb, with a contig N50 of 970 kb and a scaffold N50 of 3.65 Mb, respectively. We also annotated 21,562 protein-coding genes, in which 97.59% were assigned at least one functional annotation. Based on the genome sequence, we analyzed toxin genes in Chinese yellow catfish. Finally, we identified 207 toxin genes and classified them into three major groups. Interestingly, we also expanded a previously reported sex-related region (to ≈6 Mb) in the achieved genome assembly, and localized two important toxin genes within this region. In summary, we assembled a high-quality genome of Chinese yellow catfish and performed high-throughput identification of toxin genes from a genomic view. Therefore, the limited number of toxin sequences in public databases will be remarkably improved once we integrate multi-omics data from more and more sequenced species.

scholarly journals Enhanced De Novo Assembly of High Throughput Pyrosequencing Data Using Whole Genome Mapping

PLoS ONE ◽  
2013 ◽  
Vol 8 (4) ◽  
pp. e61762 ◽  
Author(s):  
Fatma Onmus-Leone ◽  
Jun Hang ◽  
Robert J. Clifford ◽  
Yu Yang ◽  
Matthew C. Riley ◽  
...  
Keyword(s):  
High Throughput ◽  
De Novo Assembly ◽  
De Novo ◽  
Genome Mapping ◽  
Whole Genome ◽  
Whole Genome Mapping

scholarly journals Gnare: Automated System For High-Throughput Genome Analysis With Grid Computational Backend

2005 ◽  
Vol 19 (4-5) ◽  
pp. 361-369 ◽  
Author(s):  
Dinanath Sulakhe ◽  
Alex Rodriguez ◽  
Mark D'Souza ◽  
Michael Wilde ◽  
Veronika Nefedova ◽  
...  
Keyword(s):  
High Throughput ◽  
Genome Analysis ◽  
Automated System
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