Difference between revisions of "Anuvarsh Week 10"
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#* In ArrayExpress, filtered by organism Burkholderia cenocepacia, experiment type "rna assay", experiment type "array assay". | #* In ArrayExpress, filtered by organism Burkholderia cenocepacia, experiment type "rna assay", experiment type "array assay". | ||
#** This search resulted in 24 results. | #** This search resulted in 24 results. | ||
| + | #** In order to find array data with articles, I systematically clicked through all of the experiments in my search results in order of highest to lowest replicates and looked for the experiments with a paper associated or linked. | ||
#** Links to relevant articles from ArrayExpress: | #** Links to relevant articles from ArrayExpress: | ||
#**# http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0058943 | #**# http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0058943 | ||
Revision as of 23:27, 5 November 2015
Contents
Class Notes
Notes from 11/03/2015
Two papers we need to find:
- Genome Sequence Paper
- Microarray Data/Paper
- Several requirements for this data to make it work with our project.
- Rank the papers what we want to do 1-8 (2 papers/person)
- Dr. Dahlquist will confirm which paper matches all of our criteria, and we will proceed with that paper.
- Our ELN will include the process that we used to find our papers and the annotated biblio. from our genome paper and the one or two microarray papers.
- Then we copy our annotated biblios onto the team page and rank the microarray papers
Find LibGuide here.
Notes from 11/05/2015
- May be helpful to go to a Microarray Database and search for data on our species and then find corresponding papers.
- Not cut and dry, some data may not have papers linked.
- Always used the advanced search - especially on PubMed.
- Web of Science has a link called "## Cited References" which, when clicked on, presents a list of links that lead to the articles that the original article references.
- Web of Science, like Google Scholar, also has a "Cited By" link that indicates which articles have cited the original article.
Electronic Lab Notebook
- Find Genome Paper
- PubMed
- Searching "Burkholderia cenocepacia genome" returned 150 results.
- Searching "Burkholderia cenocepacia genome[Title/Abstract]" returned 5 results.
- Filtering by publication date (last 5 years) returns 3 results.
- Google Scholar
- Searching "Burkholderia cenocepacia genome" returned 18,100 results.
- Web of Science
- Searching "Burkholderia cenocepacia genome" returned 187 results.
- Refining the search by document type (article), and publication date (last 5 years) returned 74 results.
- PubMed
- Find Microarray Paper
- In ArrayExpress, filtered by organism Burkholderia cenocepacia, experiment type "rna assay", experiment type "array assay".
- This search resulted in 24 results.
- In order to find array data with articles, I systematically clicked through all of the experiments in my search results in order of highest to lowest replicates and looked for the experiments with a paper associated or linked.
- Links to relevant articles from ArrayExpress:
- http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0058943
- http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0028831
- http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0018902
- http://europepmc.org/abstract/MED/20090946
- http://onlinelibrary.wiley.com/doi/10.1002/mbo3.24/full
- http://www.biomedcentral.com/1471-2164/12/472
- http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2958.2011.07937.x/full
- http://www.biomedcentral.com/1471-2164/12/373
- In ArrayExpress, filtered by organism Burkholderia cenocepacia, experiment type "rna assay", experiment type "array assay".
Other Links
User Page: Anindita Varshneya
Class Page: BIOL/CMSI 367: Biological Databases, Fall 2015
Group Page: GÉNialOMICS
Assignment Pages
Week 1 Assignment
Week 2 Assignment
Week 3 Assignment
Week 4 Assignment
Week 5 Assignment
Week 6 Assignment
Week 7 Assignment
Week 8 Assignment
Week 9 Assignment
Week 10 Assignment
Week 11 Assignment
Week 12 Assignment
No Week 13 Assignment
Week 14 Assignment
Week 15 Assignment
Individual Journals
Individual Journal Week 2
Individual Journal Week 3
Individual Journal Week 4
Individual Journal Week 5
Individual Journal Week 6
Individual Journal Week 7
Individual Journal Week 8
Individual Journal Week 9
Individual Journal Week 10
Individual Journal Week 11
Individual Journal Week 12
Individual Journal Week 14
Individual Journal Week 15
Class Journal Week 1
Class Journal Week 2
Class Journal Week 3
Class Journal Week 4
Class Journal Week 5
Class Journal Week 6
Class Journal Week 7
Class Journal Week 8
Class Journal Week 9
GÉNialOMICS Journal Week 10
GÉNialOMICS Journal Week 11
GÉNialOMICS Journal Week 12
GÉNialOMICS Journal Week 14
GÉNialOMICS Journal Week 15
