|
|
| | | | |
| | ==''Bordetella Pertussis'' Model Organism Database== | | ==''Bordetella Pertussis'' Model Organism Database== |
| − | ===Identifying the ''Bordetella Pertussis''=== | + | ===Identifying the ''Bordetella Pertussis'' MOD=== |
| | On Thursday, November 12, several ''Google'' searches were conducted to find a potential MOD for ''Bordetella Pertussis''. The following queries returned unsuccessful results: | | On Thursday, November 12, several ''Google'' searches were conducted to find a potential MOD for ''Bordetella Pertussis''. The following queries returned unsuccessful results: |
| | *"Bordetella Pertussis Model Organism Database"- too narrow of a search for this organism. | | *"Bordetella Pertussis Model Organism Database"- too narrow of a search for this organism. |
|
|
| | #**This also suggested that I had found the MOD. | | #**This also suggested that I had found the MOD. |
| | #I confirmed the GeneDB website as the ''Bordetella pertussis'' MOD with Dr. Dahlquist. | | #I confirmed the GeneDB website as the ''Bordetella pertussis'' MOD with Dr. Dahlquist. |
| − | ===Assessing the Gene DB MOD for ''Bordetella pertussis''=== | + | ===Assessing the GeneDB MOD for ''Bordetella pertussis''=== |
| | # What types of data can be found in the database (sequence, structures, annotations, etc.); is it a primary or “meta” database; is it curated electronically, manually [in-house], or manually [community])? | | # What types of data can be found in the database (sequence, structures, annotations, etc.); is it a primary or “meta” database; is it curated electronically, manually [in-house], or manually [community])? |
| | #*GeneDB contains ''Bordetella pertussis'' gene sequences, locations, extensive annotations, and information regarding the proteins that the genes code for such as the proteins' lengths in amino acids and molecular masses. | | #*GeneDB contains ''Bordetella pertussis'' gene sequences, locations, extensive annotations, and information regarding the proteins that the genes code for such as the proteins' lengths in amino acids and molecular masses. |
|
|
| | #* In what file formats? | | #* In what file formats? |
| | #**The following files and associated file formats are available upon accessing the FTP link: | | #**The following files and associated file formats are available upon accessing the FTP link: |
| − | #**SCREENSHOT | + | #**[[File:GeneDB BP Files.png]] |
| | # Evaluate the “user-friendliness” of the database. | | # Evaluate the “user-friendliness” of the database. |
Exception encountered, of type "Error"
[d6377e6b] /biodb/fall2015/index.php?diff=6383&oldid=6373&title=Bklein7_Week_11 Error from line 434 of /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php: Call to undefined function each()
Backtrace:
#0 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(544): DiffEngine->diag()
#1 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(344): DiffEngine->compareSeq()
#2 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(227): DiffEngine->diffLocal()
#3 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(721): DiffEngine->diff()
#4 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(859): Diff->__construct()
#5 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(980): MappedDiff->__construct()
#6 /apps/xmlpipedb/biodb/fall2015/includes/diff/TableDiffFormatter.php(194): WordLevelDiff->__construct()
#7 /apps/xmlpipedb/biodb/fall2015/includes/diff/DiffFormatter.php(140): TableDiffFormatter->changed()
#8 /apps/xmlpipedb/biodb/fall2015/includes/diff/DiffFormatter.php(82): DiffFormatter->block()
#9 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(888): DiffFormatter->format()
#10 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(802): DifferenceEngine->generateTextDiffBody()
#11 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(733): DifferenceEngine->generateContentDiffBody()
#12 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(662): DifferenceEngine->getDiffBody()
#13 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(632): DifferenceEngine->getDiff()
#14 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(453): DifferenceEngine->showDiff()
#15 /apps/xmlpipedb/biodb/fall2015/includes/page/Article.php(795): DifferenceEngine->showDiffPage()
#16 /apps/xmlpipedb/biodb/fall2015/includes/page/Article.php(506): Article->showDiffPage()
#17 /apps/xmlpipedb/biodb/fall2015/includes/actions/ViewAction.php(44): Article->view()
#18 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(395): ViewAction->show()
#19 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(273): MediaWiki->performAction()
#20 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(566): MediaWiki->performRequest()
#21 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(414): MediaWiki->main()
#22 /apps/xmlpipedb/biodb/fall2015/index.php(44): MediaWiki->run()
#23 {main}