cls.HSGeneAtlasHandling Namespace Reference

Tissue specific gene expression by GNF. More...

Classes
class	CHSGeneAtlasHandling
	Provides access to gene expression data from GNF. More...

Variables
list	GA_TOI
	Tissues of interest. More...
string	GA_OVER_EXPRESSED_FILTER = "over-expressed";
	Token for selecting over-expressed genes when using thresholds. More...
string	GA_UNDER_EXPRESSED_FILTER = "under-expressed";
	Token for selecting under-expressed genes when using thresholds. More...
string	GA_OVER_UNDER_EXPRESSED_FILTER = "both"
	Token for selecting both over-&under-expressed genes when using thresholds. More...
string	GA_PROBESET_1_1_FILTER = "at"
	Probset targets ideally single transcript of a gene. More...
string	GA_PROBESET_N_1_FILTER = "s_at"
	Probset targets ideally several transcripts of a gene. More...
string	GA_PROBESET_N_M_FILTER = "x_at"
	Probset targets several transcript of several related genes. More...
string	PROBESET_ID_NM = "Gene Atlas Probe Set ID";

Detailed Description

Tissue specific gene expression by GNF.

Author

Chris X. Weichenberger

Date

2013-02-19

Copyright

See LICENSE file.

Variable Documentation

GA_OVER_EXPRESSED_FILTER

string cls.HSGeneAtlasHandling.GA_OVER_EXPRESSED_FILTER = "over-expressed";

Token for selecting over-expressed genes when using thresholds.

GA_OVER_UNDER_EXPRESSED_FILTER

string cls.HSGeneAtlasHandling.GA_OVER_UNDER_EXPRESSED_FILTER = "both"

Token for selecting both over-&under-expressed genes when using thresholds.

GA_PROBESET_1_1_FILTER

string cls.HSGeneAtlasHandling.GA_PROBESET_1_1_FILTER = "at"

Probset targets ideally single transcript of a gene.

GA_PROBESET_N_1_FILTER

string cls.HSGeneAtlasHandling.GA_PROBESET_N_1_FILTER = "s_at"

Probset targets ideally several transcripts of a gene.

GA_PROBESET_N_M_FILTER

string cls.HSGeneAtlasHandling.GA_PROBESET_N_M_FILTER = "x_at"

Probset targets several transcript of several related genes.

GA_TOI

list cls.HSGeneAtlasHandling.GA_TOI

Initial value:

=  ["721_B_lymphoblasts", "Adipocyte", "AdrenalCortex", "Adrenalgland",
"Amygdala", "Appendix", "AtrioventricularNode", "BDCA4+_DentriticCells",
"Bonemarrow", "BronchialEpithelialCells", "CD105+_Endothelial",
"CD14+_Monocytes", "CD19+_BCells(neg._sel.)", "CD33+_Myeloid", "CD34+",
"CD4+_Tcells", "CD56+_NKCells", "CD71+_EarlyErythroid", "CD8+_Tcells",
"CardiacMyocytes", "Caudatenucleus", "Cerebellum", "CerebellumPeduncles",
"CiliaryGanglion", "CingulateCortex", "Colorectaladenocarcinoma",
"DorsalRootGanglion", "FetalThyroid", "Fetalbrain", "Fetalliver", "Fetallung",
"GlobusPallidus", "Heart", "Hypothalamus", "Kidney",
"Leukemia_chronicMyelogenousK-562", "Leukemia_promyelocytic-HL-60",
"Leukemialymphoblastic(MOLT-4)", "Liver", "Lung", "Lymphnode",
"Lymphoma_burkitts(Daudi)", "Lymphoma_burkitts(Raji)", "MedullaOblongata",
"OccipitalLobe", "OlfactoryBulb", "Ovary", "Pancreas", "PancreaticIslet",
"ParietalLobe", "Pituitary", "Placenta", "Pons", "PrefrontalCortex",
"Prostate", "Salivarygland", "SkeletalMuscle", "Skin", "SmoothMuscle",
"Spinalcord", "SubthalamicNucleus", "SuperiorCervicalGanglion",
"TemporalLobe", "Testis", "TestisGermCell", "TestisIntersitial",
"TestisLeydigCell", "TestisSeminiferousTubule", "Thalamus", "Thymus",
"Thyroid", "Tongue", "Tonsil", "Trachea", "TrigeminalGanglion", "Uterus",
"UterusCorpus", "WholeBlood", "Wholebrain", "colon", "pineal_day",
"pineal_night", "retina", "small_intestine"]

Tissues of interest.

GA_UNDER_EXPRESSED_FILTER

string cls.HSGeneAtlasHandling.GA_UNDER_EXPRESSED_FILTER = "under-expressed";

Token for selecting under-expressed genes when using thresholds.

PROBESET_ID_NM

string cls.HSGeneAtlasHandling.PROBESET_ID_NM = "Gene Atlas Probe Set ID";