You are here: Home / Resources / Compare

Resources: Compare

#56, v3.0 Published:
#1317, v1.0 Published:

Title

Old VersionNew Version
1Bioinformatics - Investigating Sequence Similarity 1Sequence Similarity in Developmental Biology - A Bioinformatics Exercise Using Myostatin

Authors

Old VersionNew Version
1Adam Kleinschmit (Adams State University) 1Barbara Murdoch ()
2Benita Brink (Adams State University) 2Barbara Murdoch ()
3Steven Roof (Hampshire College)   
4Komal Vig (Alabama State University)   
5Carlos Christopher Goller (North Carolina State University)   
6Sabrina Robertson (NC State)   
7Hayley Orndorf (University of Pittsburgh)   

Description

Old VersionNew Version
1<p>This laboratory module, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools. The exercise utilizes simple paper models to help students understand matrices and algorithms prior to use of web-based computational tools. Students start the module by defining sequence similarity and then investigating how similarity can be quantitatively compared between two similar length proteins using a BLOSUM scoring matrix. Students then consider finding local regions of similarity between a sequence query and subjects within a large database using BLAST. Lastly, students practice accessing FASTA formatted sequence information via NCBI databases as they collect sequences for a multiple sequence alignment in order to generate a phylogenetic tree.</p> 1<p>This exercise integrates bioinformatics with developmental biology, and provides an introduction regarding how to use bioinformatics to assess sequence similarities. The implications of these similarities provides students with a basic understanding of how model organisms can provide useful information regarding human health and disease.</p>

Quote

No changes found.

Attachments

1 file — Version 2/S1.BioinformaticsActivity-StudentHandout.docx.docx 1 file — 1.Murdoch_NIBLSEFMNTeachingNotesTemplateSp19.docx
2 file — Version 2/S10. Zika Genomic Seqs instructor.txt 2 file — 2. Student handout_Murdoch_Similarity in Developmental Biology.docx
3 file — Version 2/S2.BioinformaticsActivity-SuggestedSolutions.docx.docx 3 file — 3. S3. BLAST_handout_Kleinschmit et al.docx
4 file — Version 2/S3. Bioinformatics Activity-BLAST Model.docx 4 file — 4. TGF-b signaling pathway.pptx
5 file — Version 2/S4. Bioinformatics Activity-MSA Calculation Template.docx 5 file — 5. Bioinformatics_BIO 434 WORKSHEET_vfinal2.docx
6 file — Version 2/S5. Bioinformatics Activity-Cytochrome C Protein Sequences instructor.txt 6 file — 5.1. Bioinformatics_BIO 434 WORKSHEET answers_vfinal2.docx
7 file — Version 2/S6. Bioinformatics Activity-Cytochrome C Neighbor Joining.docx 7 link — Sequence Similarity: An inquiry based and &quot;under the hood&quot; approach for incorporating molecular sequence alignment in introductory undergraduate biology courses | CourseSource
8 file — Version 2/S7. Hominid ADH2 Protein Seqs student.txt
9 file — Version 2/S8. Hominid ADH2 Protein Seqs instructor.txt
10 file — Version 2/S9. Zika Genomic Seqs student.txt
Close

Home

Search