PDF-From R to R evidence for a fishspecific genome duplica

Recent phylogenomic studies suggest that during the evolution of vertebrates the entire genome was duplicated in two rounds 2R of duplication Later 350 mya in the stem lineage of rayfinned actino pterygian fishes but not in that of the land vertebra. B Pant University of Agriculture and Technology Pantnagar 263 145 India Department of Plant Molecular Biology and Biotechnology Department of Environmental Sciences and Centre for Plant Breeding and Genetics Tamil Nadu Agricultural University TNAU C Denovo genome Denovo genome outline outline novogenome from contigs from assembled contigs annotation Denovo genome Denovo genome Reads contig Gene Gene Annotation Gene Annotation Forgene sequencing . for . identification,. detection, . and control of . Bactrocera dorsalis (. Hendel. ). and other Tephritid pests. Thomas Walk, Scott . Geib. USDA-ARS Pacific Basin Agricultural Research Center, Hilo HI. Mayo/UIUC Summer . C. ourse in Computational Biology. Session Outline. Genome sequencing. Schematic overview of genome assembly. (a) DNA is collected from the biological sample and sequenced. (b) The output from the sequencer consists of many billions of short, unordered DNA fragments from random positions in the genome. (c) The short fragments are compared with each other to discover how they overlap. (d) The overlap relationships are captured in a large assembly graph shown as nodes representing . Genome Browser. Combines a genome database with interactive web pages. Allows the user to retrieve and manipulate database record through a graphical user interface (GUI). Different types of information are displayed in an intuitive fashion in user-configurable “tracks”. By Kevin Chen, . Lior. . Pachter. PLoS. Computational Biology, 2005. David Kelley. State of . metagenomics. In July 2005, 9 projects had been completed.. General challenges were becoming apparent. Paper focuses on computational problems. from Biological . Problem to . Combinatorial Algorithms. (and back). Pavel Pevzner. Department of Computer . Science,. . University . of California at San Diego. What is the evolutionary scenario for transforming one genome into the other?. Genome sequencing. Next Gen sequencing. Genomics = resources. genome maps. genome sequences. genome clones. DNA microarrays. whole gene collections. functional genomics!. 1980- 1998. 1977- 2003. DNA mapping. Fyodor D. Urnov, PhD. Project Leader and Senior Scientist, Sangamo BioSciences, Inc.. NAS International . Summit on Human Gene . Editing. December 3, 2015. Genome Editing . Is. In the Clinic. Fyodor D. Urnov, PhD. Venter et. al (2004). Presented by. Ken . Vittayarukskul. Steven S. White.. Context of the Problem . Evolutionary history is directly tied to microbial genetics. Little is known. Until recently, microbial diversity was measured by PCR amplification and sequencing of only ribosomal genes. . John Glass. for members of the . Venter Institute Synthetic Genomics Group. The J. Craig Venter Institute, . Rockville, MD and San Diego, CA. Construction of a Bacterial Cell Containing Only Essential Genes Necessary to Impart . Dan Gilchrist. National Human Genome Research Institute. October 18, 2016. The ENCODE Project. 3D Data Access Through the ENCODE Portal. The ENCODE Encyclopedia. Tools for Investigating Genetic Variants. Mayo/UIUC Summer . C. ourse in Computational Biology. Session Outline. Genome sequencing. Schematic overview of genome assembly. (a) DNA is collected from the biological sample and sequenced. (b) The output from the sequencer consists of many billions of short, unordered DNA fragments from random positions in the genome. (c) The short fragments are compared with each other to discover how they overlap. (d) The overlap relationships are captured in a large assembly graph shown as nodes representing . Fyodor D. Urnov, PhD. Project Leader and Senior Scientist, Sangamo BioSciences, Inc.. NAS International . Summit on Human Gene . Editing. December 3, 2015. Genome Editing . Is. In the Clinic. Fyodor D. Urnov, PhD.