Difference between revisions of "Burmese Python RNAseq Project"
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| − | This page is for the first iteration of a new research project at Davidson College. Students enrolled in this class will be collaborating with Drs. Malcolm Campbell, Laurie Heyer, | + | This page is for the first iteration of a new research project at Davidson College. Students enrolled in this class will be collaborating with Drs. Malcolm Campbell, Laurie Heyer, and Shannon Pittman. |
Each group will need to find papers related to the normal function of their organ. Furthermore, each group will need to learn about genes activated during cell division. We need to know that we have sampled the right cells and to know if the sampled tissue was beginning rapid growth. | Each group will need to find papers related to the normal function of their organ. Furthermore, each group will need to learn about genes activated during cell division. We need to know that we have sampled the right cells and to know if the sampled tissue was beginning rapid growth. | ||
| Line 5: | Line 5: | ||
| − | Group 1 Liver | + | [[Group 1 Liver]] |
| − | Group 2 Liver | + | [[Group 2 Liver]] |
| − | Group 3 Liver | + | [[Group 3 Liver]] |
| − | Group 1 | + | [[Group 1 intestines]] |
| − | Group 2 intestines | + | [[Group 2 intestines]] |
| − | + | [[Group 3 intestines]] | |
| − | |||
Dr. C. Catch-all: | Dr. C. Catch-all: | ||
* reagents for cDNA production (docx) [[File:Reagents_RNAseq_May2015.docx]] | * reagents for cDNA production (docx) [[File:Reagents_RNAseq_May2015.docx]] | ||
* library production (pptx) [[File:For_Davidson.pptx]] | * library production (pptx) [[File:For_Davidson.pptx]] | ||
| + | * [http://www.genome.jp/kegg/pathway.html#amino KEGG database] maps out metabolic pathways for many species. Burmese python is included (pyi) | ||
| + | * [http://www.ncbi.nlm.nih.gov/UniGene/ESTProfileViewer.cgi?uglist=Hs.723178 EST profile (human leptin receptor example)] | ||
| + | * [http://www.ncbi.nlm.nih.gov/genome/17893 Burmese python genome at NCBI] | ||
| + | * [https://goo.gl/RDF7D6 graphic view of Burmese python genome] | ||
| + | - [http://www.pnas.org/content/suppl/2013/11/29/1314475110.DCSupplemental/sd01.xlsx excel spreadsheet of differentially expressed genes and GO terms from Castoe et al. 2013] | ||
| + | |||
| + | - [https://www.bioconductor.org/packages/3.3/bioc/vignettes/DESeq/inst/doc/DESeq.pdf DESeq Package Explained] | ||
| + | |||
| + | [[File:POUF_converter.xls]] | ||
| + | |||
| + | [http://www.bio.davidson.edu/Courses/Bio343/2016/contig_to_GO_ID.xlsx Download genes and their GO terms] | ||
Latest revision as of 21:28, 27 December 2016
This page is for the first iteration of a new research project at Davidson College. Students enrolled in this class will be collaborating with Drs. Malcolm Campbell, Laurie Heyer, and Shannon Pittman.
Each group will need to find papers related to the normal function of their organ. Furthermore, each group will need to learn about genes activated during cell division. We need to know that we have sampled the right cells and to know if the sampled tissue was beginning rapid growth.
Dr. C. Catch-all:
- reagents for cDNA production (docx) File:Reagents RNAseq May2015.docx
- library production (pptx) File:For Davidson.pptx
- KEGG database maps out metabolic pathways for many species. Burmese python is included (pyi)
- EST profile (human leptin receptor example)
- Burmese python genome at NCBI
- graphic view of Burmese python genome
- excel spreadsheet of differentially expressed genes and GO terms from Castoe et al. 2013
