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Genscan

Gene Finding in Chimpanzee

  • August 15, 2020January 2, 2022

A step-by-step tutorial that takes the student through a gene identification problem in a chimpanzee BAC sequence using predictions from a gene finder (Genscan), the UCSC Browser and BLAST.

Annotation for D. virilis

  • August 15, 2020January 2, 2022

This is a PowerPoint presentation describing the recommended strategies for annotating a D. virilis fosmid. The homology-based annotation strategy should also be applicable to annotation of D. erecta and D. mojavensis projects.

Chimp BAC Analysis: Genes and Pseudogene

  • August 15, 2020January 2, 2022

A step-by-step tutorial that takes the student through a gene identification problem in a chimpanzee BAC sequence using predictions from a gene prediction program (Genscan), the UCSC Browser and BLAST.

Introduction to ab initio and Evidence-based Gene Finding

  • August 15, 2020June 3, 2022

This PowerPoint presentation examines the use of gene prediction programs (such as Genscan) in annotation, noting some of the limitations of gene prediction programs in creating putative gene models. It also introduces the UCSC and other browsers as sources of supporting evidence.