Animal QTL - Revision history

Bhamilton18: Added notebook information at the top

2017-10-03T01:58:57Z

Added notebook information at the top

2017-10-03T01:45:31Z

Added Final Powerpoint

2017-10-03T01:27:53Z

fixed format of references

2017-10-03T01:27:01Z

Added summaries

2017-10-03T01:18:57Z

Added link to funding sources

2017-10-03T01:18:24Z

Added where funding is from

2017-10-03T00:48:28Z

Answered "user friendliness"

2017-10-03T00:38:54Z

Added link to convientcy

2017-10-03T00:36:08Z

Added responses to the scientific quality section

2017-10-03T00:33:37Z

added references and Acknowledgments

← Older revision		Revision as of 01:58, 3 October 2017
Line 1:		Line 1:
	='''Blair and Corinne's Database Information'''=		='''Blair and Corinne's Database Information'''=
		+
		+	For this assignment, Corinne and Blair picked the Animal QTL database from the [http://www.oxfordjournals.org/nar/database/a/ Nucleic Acids Research Database Issue Database List]. Referencing the [[Week 5]] Assignment page, we answered the guidelines/questions for database evaluation. We created a collaborative wiki page, as well as, google slides to work individually and together on the presentation. We split up questions and addition to pages/slides in order to be more efficient.
		+
	=='''General information about the database'''==<!--We can both probably contribute to this part-->		=='''General information about the database'''==<!--We can both probably contribute to this part-->

@@ Line 86: / Line 86: @@
 *#Hobby- Since it is available to anyone who can create an account, and is interested in livestock mapping traits.
 *#Professional- Because it is funded and curated on a national basis, and routinely updated with the most recent livestock mapping trait data.
 ==Acknowledgments==

@@ Line 91: / Line 91: @@
 ==References==
-Animal QTL Database. (2017). Animal QTLdb. Retrieved September 28, 2017, from https://www.animalgenome.org/cgi-bin/QTLdb/index
+#Animal QTL Database. (2017). Animal QTLdb. Retrieved September 28, 2017, from https://www.animalgenome.org/cgi-bin/QTLdb/index
+#Hu, Z.-L., Park, C. A., Wu, X.-L., & Reecy, J. M. (2013). Animal QTLdb: an improved database tool for livestock animal QTL/association data dissemination in the post-genome era. Nucleic Acids Research, 41(Database issue), D871–D879. http://doi.org/10.1093/nar/gks1150
-Hu, Z.-L., Park, C. A., Wu, X.-L., & Reecy, J. M. (2013). Animal QTLdb: an improved database tool for livestock animal QTL/association data dissemination in the post-genome era. Nucleic Acids Research, 41(Database issue), D871–D879. http://doi.org/10.1093/nar/gks1150
+#LMU BioDB 2017. (2017). Week 5. Retrieved September 28, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_5
+#U.S NAGRP Bioinformatics. (2017). Genome Informatics Resources. Retrieved October 1, 2017, from https://www.animalgenome.org/bioinfo/
 ==Links==

@@ Line 78: / Line 78: @@
 =='''Summary judgment'''==<!--Both-->
 Would you direct a colleague unfamiliar with the field to use it?
 Is this a professional or hobby database?
 ==Acknowledgments==

@@ Line 16: / Line 16: @@
 What is their funding source(s)?
-*It is funded by the USDA NRSP-8 National Animal Genome Research Program, Bioinformatics Coordination Project, and the USDA-NRI. The funding for the open access charge is provided by USDA-NIFA Research Funds Research Funds to the National Research Service Program, NRSP-8, and the National Animal Genome Research Program.
+*It is funded by the USDA NRSP-8 National Animal Genome Research Program, Bioinformatics Coordination Project, and the USDA-NRI. The funding for the open access charge is provided by USDA-NIFA Research Funds Research Funds to the National Research Service Program, NRSP-8, and the National Animal Genome Research Program. [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531174/]
 =='''Scientific quality of the database'''==<!--CW-->

@@ Line 62: / Line 62: @@
 *#[https://www.animalgenome.org/QTLdb/doc/download Animal QTL Data Download]
 Evaluate the “user-friendliness” of the database: can a naive user quickly navigate the website and gather useful information?
 Access:  Is there a license agreement or any restrictions on access to the database?

@@ Line 3: / Line 3: @@
 What is the name of the database?
-*[https://www.animalgenome.org/cgi-bin/QTLdb/index Animal QTLdb ]
+*[https://www.animalgenome.org/cgi-bin/QTLdb/index Animal QTLdb]
 What type (or types) of database is it?
@@ Line 48: / Line 48: @@
 Is it convenient to browse the data?
 *This website is very organized with their data giving titles to each animal subject they have on trait mapping. Each title links to a page where a summary of the animals current data numbers are held, data can be downloaded easily (in a variety of formats) and search/browse tools are suggested to make data easily readable.
 Is it convenient to download the data?

@@ Line 20: / Line 20: @@
 Does the content appear to completely cover its content domain? How many records does the database contain? What claims do the database owners make about coverage in the corresponding paper?
 What species are covered in the database?
 Is the database content useful? I.e., what biological questions can it be used to answer?
-Is the database content timely?
+*Yes, it is useful. It can be used to map out traits to figure out a species' genome and see how it converged or diverged from other species. Moreover, it shows the genetic information for the breeds, so people can look into how genes are inherited/acquired from parental genes or epistasis. [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531174/]
-Is there a need in the scientific community for such a database at this time? Is the content covered by other databases already? When did the database first go online? How often is the database updated? When was the last update?
+*Yes, it is a very timely and useful tool. It is helpful in determining the genomes of various livestock, and it helps to see the connection between genes and traits. Moreover, the published data is frequently updated to provide the most current information. [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531174/]
 =='''General utility of the database to the scientific community'''== <!--BH-->

← Older revision		Revision as of 00:33, 3 October 2017
Line 68:		Line 68:

	==References==		==References==
		+	Animal QTL Database. (2017). Animal QTLdb. Retrieved September 28, 2017, from https://www.animalgenome.org/cgi-bin/QTLdb/index
		+
		+	Hu, Z.-L., Park, C. A., Wu, X.-L., & Reecy, J. M. (2013). Animal QTLdb: an improved database tool for livestock animal QTL/association data dissemination in the post-genome era. Nucleic Acids Research, 41(Database issue), D871–D879. http://doi.org/10.1093/nar/gks1150
		+
		+	LMU BioDB 2017. (2017). Week 5. Retrieved September 28, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_5
		+
		+	U.S NAGRP Bioinformatics. (2017). Genome Informatics Resources. Retrieved October 1, 2017, from https://www.animalgenome.org/bioinfo/

	==Links==		==Links==