JP Mar 22 16 - Revision history

Jupreziosi at 18:50, 22 March 2016

2016-03-22T18:50:14Z

2016-03-22T18:43:59Z

2016-03-22T18:28:02Z

2016-03-22T18:25:21Z

2016-03-22T18:24:27Z

2016-03-22T18:24:18Z

2016-03-22T18:09:57Z

2016-03-22T18:03:32Z

2016-03-22T17:49:03Z

2016-03-22T17:48:56Z

← Older revision		Revision as of 18:50, 22 March 2016
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	ErbB receptors are typical cell membrane receptor tyrosine kinases that are activated following ligand binding and receptor dimerization... regulate cell proliferation, migration, differentiation, apoptosis, and cell motility.		ErbB receptors are typical cell membrane receptor tyrosine kinases that are activated following ligand binding and receptor dimerization... regulate cell proliferation, migration, differentiation, apoptosis, and cell motility.
	Signaling through ErbB networks is modulated through dense positive and negative feedback and feed forward loops, including transcription-independent early loops and late loops mediated by newly synthesized proteins and miRNAs.		Signaling through ErbB networks is modulated through dense positive and negative feedback and feed forward loops, including transcription-independent early loops and late loops mediated by newly synthesized proteins and miRNAs.
		+
		+
		+	Clusters with:

← Older revision		Revision as of 18:43, 22 March 2016
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	The protein leads to repression of transcription. It is upregulated in fed snakes.		The protein leads to repression of transcription. It is upregulated in fed snakes.
		+
		+	it is involved in many signaling pathways.
		+
		+	ErbB receptors are typical cell membrane receptor tyrosine kinases that are activated following ligand binding and receptor dimerization... regulate cell proliferation, migration, differentiation, apoptosis, and cell motility.
		+	Signaling through ErbB networks is modulated through dense positive and negative feedback and feed forward loops, including transcription-independent early loops and late loops mediated by newly synthesized proteins and miRNAs.

← Older revision		Revision as of 18:28, 22 March 2016
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	We are now analyzing the KEGG pathways of the 44 genes.		We are now analyzing the KEGG pathways of the 44 genes.
		+
		+	Input list of contig_gene names and sequences. Given a list of organisms; Blast BBH

	http://www.genome.jp/kaas-bin/kaas_main?mode=user&mail=nielder@davidson.edu		http://www.genome.jp/kaas-bin/kaas_main?mode=user&mail=nielder@davidson.edu

← Older revision		Revision as of 18:25, 22 March 2016
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−	We are now analyzing the KEGG pathways of the 44 genes.	+	We are now analyzing the KEGG pathways of the 44 genes.
		+
		+	http://www.genome.jp/kaas-bin/kaas_main?mode=user&mail=nielder@davidson.edu

	'''Candidates:'''		'''Candidates:'''

@@ Line 18: / Line 18: @@
 We are now analyzing the KEGG pathways of the 44 genes.
-Candidates:
+'''Candidates:'''
 Contig887_EIF4EBP1_Eukaryotic_translation_initiation_factor_4E-binding_protein_1_Bos_taurus

← Older revision		Revision as of 18:24, 22 March 2016
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	http://www.animalgenome.org/cgi-bin/util/gotreei		http://www.animalgenome.org/cgi-bin/util/gotreei
		+
		+
		+	We are now analyzing the KEGG pathways of the 44 genes.
		+
		+	Candidates:
		+
		+	Contig887_EIF4EBP1_Eukaryotic_translation_initiation_factor_4E-binding_protein_1_Bos_taurus
		+
		+	This gene encodes one member of a family of translation repressor proteins. The protein directly interacts with eukaryotic translation initiation factor 4E (eIF4E), which is a limiting component of the multisubunit complex that recruits 40S ribosomal subunits to the 5' end of mRNAs. Interaction of this protein with eIF4E inhibits complex assembly and represses translation. This protein is phosphorylated in response to various signals including UV irradiation and insulin signaling, resulting in its dissociation from eIF4E and activation of mRNA translation.
		+
		+	The protein leads to repression of transcription. It is upregulated in fed snakes.

← Older revision		Revision as of 18:09, 22 March 2016
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	http://www.ebi.ac.uk/QuickGO/GAnnotation		http://www.ebi.ac.uk/QuickGO/GAnnotation
		+
		+
		+	CateGOrizer
		+
		+	http://www.animalgenome.org/cgi-bin/util/gotreei

← Older revision		Revision as of 18:03, 22 March 2016
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	http://go.princeton.edu/cgi-bin/GOTermMapper		http://go.princeton.edu/cgi-bin/GOTermMapper

		+	QuickGO

−	~~using~~ http://www.~~yeastgenome~~.~~org~~/~~cgi-bin~~/~~GO/goSlimMapper.pl~~	+	http://www.ebi.ac.uk/QuickGO/GAnnotation

@@ Line 3: / Line 3: @@
 Using Generic GO Term Mapper with goa_human (Generic Go Slim) reference for 44 interesting genes:
 only maps 22 of the genes by gene name.
 http://go.princeton.edu/cgi-bin/GOTermMapper
 using http://www.yeastgenome.org/cgi-bin/GO/goSlimMapper.pl

← Older revision		Revision as of 17:48, 22 March 2016
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	Using Generic GO Term Mapper with goa_human (Generic Go Slim) reference for 44 interesting genes:		Using Generic GO Term Mapper with goa_human (Generic Go Slim) reference for 44 interesting genes:
	only maps 22 of the genes by gene name.		only maps 22 of the genes by gene name.
		+	http://go.princeton.edu/cgi-bin/GOTermMapper
		+
		+
		+	using http://www.yeastgenome.org/cgi-bin/GO/goSlimMapper.pl