RNAct Week 5 - Revision history

Mavila9: /* Database Powerpoint Presentation */ fix

2019-10-01T21:50:42Z

‎Database Powerpoint Presentation: fix

Mavila9: add zip

2019-10-01T21:50:26Z

add zip

Icrespin: /* Database Powerpoint Presentation */ added title

2019-10-01T06:59:05Z

‎Database Powerpoint Presentation: added title

Icrespin: /* Database Powerpoint Presentation */ added parantheses

2019-10-01T06:57:42Z

‎Database Powerpoint Presentation: added parantheses

Icrespin: /* Database Powerpoint Presentation */ fixed file

2019-10-01T06:57:09Z

‎Database Powerpoint Presentation: fixed file

Icrespin: /* Database Powerpoint Presentation */ added presentation

2019-10-01T06:56:39Z

‎Database Powerpoint Presentation: added presentation

Icrespin: /* Summary Judgment */ changed info

2019-10-01T06:31:31Z

‎Summary Judgment: changed info

Mavila9: /* Scientific Quality of the Database */ link fix

2019-10-01T04:46:55Z

‎Scientific Quality of the Database: link fix

Mavila9: fix

2019-10-01T04:34:41Z

fix

Mavila9 at 04:31, 1 October 2019

2019-10-01T04:31:34Z

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 [[Media: Avila_Crespin_BioDB_Presentation1.pdf|RNAct PowerPoint Presentation]]
 [[File:Avila Crespin BioDB Presentation1.zip]]
 == Acknowledgements ==

← Older revision		Revision as of 21:50, 1 October 2019
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	[[Media: Avila_Crespin_BioDB_Presentation1.pdf\|RNAct PowerPoint Presentation]]		[[Media: Avila_Crespin_BioDB_Presentation1.pdf\|RNAct PowerPoint Presentation]]
		+	[[File:Avila Crespin BioDB Presentation1.zip]]
		+

	== Acknowledgements ==		== Acknowledgements ==

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 == Database Powerpoint Presentation ==
-[[Media: Avila_Crespin_BioDB_Presentation1.pdf]]
+[[Media: Avila_Crespin_BioDB_Presentation1.pdf|RNAct PowerPoint Presentation]]
 == Acknowledgements ==

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 == Database Powerpoint Presentation ==
-[Media: Avila_Crespin_BioDB_Presentation1.pdf]
+[[Media: Avila_Crespin_BioDB_Presentation1.pdf]]
 == Acknowledgements ==

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 == Database Powerpoint Presentation ==
-[Media:Avila_Crespin_BioDB_Presentation1.pdf]
+[Media: Avila_Crespin_BioDB_Presentation1.pdf]
 == Acknowledgements ==

← Older revision		Revision as of 06:56, 1 October 2019
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	== Database Powerpoint Presentation ==		== Database Powerpoint Presentation ==
		+
		+	[Media:Avila_Crespin_BioDB_Presentation1.pdf]

	== Acknowledgements ==		== Acknowledgements ==

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 #*No, this would not be directed to a colleague that is unfamiliar with the field. As mentioned before, this database is for those who understand what they are looking for. Since it is specifically about proteins and the interactions between different databases, it can get very confusing.
 #'''Is this a professional or "hobby" database? The "hobby" analogy means that it was that person's hobby to make the database. It could mean that it is limited in scope, done by one or a few persons, and seems amateur.'''
-#*This is a "hobby" database because it was done by a small group of interviews who are still testing things and trying to see how to improve it. In their [https://rnact.crg.eu/about About] page, the creators discuss about the future of their page. Therefore, it is a working progress.
+#*This is a professional database because it consists of several experimental data from a variety of databases. Therefore, it consists of a great deal of information. However, there is always room for improvement.
 == Database Powerpoint Presentation ==

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 #* In the [https://academic.oup.com/nar/article/47/D1/D601/5184728#129630604 description section] the authors of the article say that they intend their database to be used for studying gene regulatory events and networks at the post-transcriptional level.
 #'''Is the database content timely?'''
-#* There is a need for this database in the scientific community because it helps predict RNA-protein interactions in humans, yeast, and mice which are all widely studied organisms. The information gained from predicting the RNA-protein interactions can be used, along with RNA-RNA and protein-protein interactions to create a map of all molecular interactions in an organism to understand it completely physiologically. Other RNA-protein interaction databases do exist, including [https://en.bioinfo.org/NPInter/ NPInter], [http://pridb.gdcb.iastate.edu/RPISeq/ PRIDB], etc.
+#* There is a need for this database in the scientific community because it helps predict RNA-protein interactions in humans, yeast, and mice which are all widely studied organisms. The information gained from predicting the RNA-protein interactions can be used, along with RNA-RNA and protein-protein interactions to create a map of all molecular interactions in an organism to understand it completely physiologically. Other RNA-protein interaction databases do exist, including [http://pri.hgc.jp/ PRD], [http://pridb.gdcb.iastate.edu/RPISeq/ PRIDB], etc.
 #'''How ''current'' is the database?'''
 #* The database first went online in 2018. The paper states in the [https://academic.oup.com/nar/article/47/D1/D601/5184728#129630567 materials and methods section] that the yeast non-coding transcripts were from Ensemble 92 release in April of 2018.

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 == Scientific Quality of the Database ==
 #'''Does the content appear to completely cover its content domain?'''
-#* Yes, the database obtains proteomes from UniProt and transcriptomes from GENCODE and Ensembl, all of which are reliable and comprehensive sources. The database contains 20778 human proteins, 22080 mouse proteins, and 5963 yeast proteins from Uniprot, all used to predict a total of 5.87 billion RNA-protein interactions in the respective species as explained in the [https://academic.oup.com/nar/article/47/D1/D601/5184728#129630567 materials and methods section].
+#* The database appears to completely cover its content domain because it obtains proteome data from UniProt and transcriptome data from GENCODE and Ensembl, all of which are reliable and comprehensive sources. The database contains 20778 human proteins, 22080 mouse proteins, and 5963 yeast proteins from Uniprot, all used to predict a total of 5.87 billion RNA-protein interactions in the respective species as explained in the [https://academic.oup.com/nar/article/47/D1/D601/5184728#129630567 materials and methods section].
 #'''What species are covered in the database? (If it is a very long list, summarize.)'''
 #* On the [https://rnact.crg.eu/ home page] below the search bar ''Homo sapiens'', ''Mus musculus'', and ''Saccharomyces cerevisiae'' are listed as the current species available and ''C. elegans'', ''Drosophila'', and ''Arabidopsis'' are intended to be added.

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 *Dr. Dahlquist helped with presentation guidelines.
 *"Except for what is noted above, this individual journal entry was completed by me and not copied from another source."[[User:Icrespin|Icrespin]] ([[User talk:Icrespin|talk]]) 19:48, 29 September 2019 (PDT)
 == References ==