Difference between revisions of "Taur.vil Week 11"
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===Terminology=== | ===Terminology=== | ||
| + | #Coccus: A bacterium of round, spheroidal, or ovoid form, less than 1 μm in diameter. [http://medical-dictionary.thefreedictionary.com/coccus] | ||
| + | #Cariogenic: Tending to produce caries (Decay of a bone or tooth, especially dental). [http://medical-dictionary.thefreedictionary.com/cariogenic] [http://medical-dictionary.thefreedictionary.com/caries] | ||
| + | #Otitis media: Infection of the middle ear space, behind the eardrum (tympanic membrane), characterized by pain, dizziness, and partial loss of hearing. [http://medical-dictionary.thefreedictionary.com/otitis+media] | ||
| + | #Commensal: Living on or within another organism, and deriving benefit without harming or benefiting the host. [http://medical-dictionary.thefreedictionary.com/commensal] | ||
| + | #Bacteriocins: Proteins produced by certain bacteria that exert a lethal effect on closely related bacteria; in general, bacteriocins have a narrower range of activity than antibiotics and are more potent. [http://medical-dictionary.thefreedictionary.com/Bacteriocins] | ||
==Lab Journal:== | ==Lab Journal:== | ||
Revision as of 05:42, 12 November 2013
Week 11 Individual Journal
Contents |
Journal Club Preparation
Terminology
- Coccus: A bacterium of round, spheroidal, or ovoid form, less than 1 μm in diameter. [1]
- Cariogenic: Tending to produce caries (Decay of a bone or tooth, especially dental). [2] [3]
- Otitis media: Infection of the middle ear space, behind the eardrum (tympanic membrane), characterized by pain, dizziness, and partial loss of hearing. [4]
- Commensal: Living on or within another organism, and deriving benefit without harming or benefiting the host. [5]
- Bacteriocins: Proteins produced by certain bacteria that exert a lethal effect on closely related bacteria; in general, bacteriocins have a narrower range of activity than antibiotics and are more potent. [6]
Lab Journal:
On Lab computer, downloaded updated GenMapp Builder v. 2.0b71 Opened pgAdmin III, created new data base titled tATK_20131107 Opened gmbuilder.sql in SQL window and executed Produced the predicted 159 tables Opened GenMappBuilder.bat v. 2.0b71 -Linked to our database tATK_20131107 Imported 20131107_UniProtXML_tATK_TIGR4_AJV.xml
- Took 1.62 minutes
Imported CUserskeckuserDesktop20131107_GO-OBO_tATK_KM.obo-xml
- Took 5.46 minutes
- Proceeded with additional processing: took 4.09
Imported 20131107_UniProtXML_tATK_TIG4_AJV.goa
- Took 0.03 minutes
Exported to desktop under the name of 20131107_GenMappExport_tATK_TIGR4_TPV.gdb
Duties
As team leader: timeline and milestones -deadlines: final project presentation -deadlines: final project deliverables, files and reports -weekly deadlines for each wk's wiki
Determine with team what are some of the milestones we want to hit to finish on time -Exports, QA, deliverable files --accelerate and leave down time --usually at least 2 or 3 iterations of the analysis we did for vibrio
-everybody will be writing electronic lab notebooks -want easy links to everybody narratives (in template?)
-Group action items --what and who's doing them
-Presentations next week
-When do we need drafts of the report by
Raw and edited files --need a naming convention
Main Job: need Gene IDs that will match gene database QA needs to become ID expert Coders will all work as a group, editing GenMAPP and xmlPipeDB
Personal Template
- As part of Biological Databases
Please Remember the Harassing of Deities is Strictly Prohibited
Never Forget Samson
