Cover Page =============================== .. rubric:: Cover Page for Introduction to BLAST using Human Leptin :class: header1 Submission Details -------------------------------------------------------------- .. cssclass:: gea-cover-page-table +-----------------------------------+-----------------------------------+ | Submitter: | Douglas L. Chalker | | | (dchalker@wustl.edu) | +-----------------------------------+-----------------------------------+ | Submission timestamp: | 2019/08/01 6:22:07 PM EST | +-----------------------------------+-----------------------------------+ | Authors: | - Justin R. DiAngelo, Penn State | | | Berks | | | - Alexis Nagengast, Widener | | | University | | | - Wilson Leung, Washington | | | University in St. Louis | | | | +-----------------------------------+-----------------------------------+ | Corresponding author: | Wilson Leung (wleung@wustl.edu) | +-----------------------------------+-----------------------------------+ Lesson Overview -------------------------------------------------------------- .. cssclass:: gea-cover-page-table +-----------------------------------+-----------------------------------+ | Lesson abstract: | Introduction to the use of the | | | Basic Local Alignment Search Tool | | | (BLAST) to identify related | | | sequences and compare similarity | | | between them. This exercise used | | | the example of the human leptin | | | gene. It begins with recovering a | | | desired sequence then | | | demonstrates the use of BLAST to | | | find related sequences. | +-----------------------------------+-----------------------------------+ | Lesson keywords: | - Bioinformatics | | | - BLAST | | | - Database | | | - Protein sequence | | | | +-----------------------------------+-----------------------------------+ | Organism(s) that are the focus | Human | | of this lesson: | | +-----------------------------------+-----------------------------------+ | Type(s) of student learning | Short answer | | assessments: | | +-----------------------------------+-----------------------------------+ | Websites and online databases | NCBI BLAST (all BLAST and GenBank | | used: | pages), Other NCBI sites | +-----------------------------------+-----------------------------------+ Learning Topics -------------------------------------------------------------- .. cssclass:: gea-cover-page-table +-----------------------------------+-----------------------------------+ | Topics in scientific fields: | - Bioinformatics | | | - Genetics | | | - Genomics | | | | +-----------------------------------+-----------------------------------+ | Topics in mathematics or | Probability | | statistics: | | +-----------------------------------+-----------------------------------+ | Topics in bioinformatics or data | - Similarity searches (BLAST, | | science: | Multiple Sequence Alignment) | | | - Phylogenetic analysis | | | | +-----------------------------------+-----------------------------------+ Student Prerequisites -------------------------------------------------------------- .. cssclass:: gea-cover-page-table +-----------------------------------+-----------------------------------+ | Recommended prior course work: | High school level biology | +-----------------------------------+-----------------------------------+ | Recommended computer skills: | Basic: Familiarity with web | | | browsers, word processing | +-----------------------------------+-----------------------------------+ Instructor Prerequisites -------------------------------------------------------------- .. cssclass:: gea-cover-page-table +-----------------------------------+-----------------------------------+ | Recommended computer skills: | Basic: Familiarity with web | | | browsers, word processing | +-----------------------------------+-----------------------------------+ | Instructional requirements: | Basic Computer Lab (Access to | | | laptops/desktops, no large memory | | | or CPU requirements) | +-----------------------------------+-----------------------------------+ Implementation Recommendations -------------------------------------------------------------- .. cssclass:: gea-cover-page-table +-----------------------------------+-----------------------------------+ | Instructional time required: | 1 class period or less | +-----------------------------------+-----------------------------------+ | Students work as individuals or | Either individual or team work is | | teams? | possible | +-----------------------------------+-----------------------------------+ | Number of students in a class: | 10-25 students (assume no TAs and | | | one computer for each student) | +-----------------------------------+-----------------------------------+ Accessibility -------------------------------------------------------------- .. cssclass:: gea-cover-page-table +-----------------------------------+-----------------------------------+ | Available languages: | English | +-----------------------------------+-----------------------------------+ | Additional materials for students | None | | with disabilities: | | +-----------------------------------+-----------------------------------+ .. meta:: :keywords: Bioinformatics, BLAST, Database, Protein sequence