Details and Links

Gene Symbol:		Chrna3
Aliases:		(a)3; A730007P14Rik; Acra-3; Acra3; LNCR2; PAOD2; MGC104879; CHRNA3
Description:		cholinergic receptor, nicotinic, alpha polypeptide 3; intron 3 (highly conserved region)
Location:		Chr 9 @ 55.022707 Mb on the minus strand
Target Score:		BLAT specificity: 12.3   Score: 246
Species and Group:		Mouse, B6BTBRF2
Database 3:		(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5
Resource Links:		Gene  OMIM  GenBank  HomoloGene
		UCSC  BioGPS  STRING  PANTHER  Gemma  ABA  EBI GWAS  Wiki-Pi

Add	Find	Verify	GeneWiki	SNPs	Probes

  Basic Statistics

Basic Table Probability Plot Bar Graph (by name) Bar Graph (by rank) Box Plot Statistic Value N of Samples 60 Mean 8.357 Median 8.415 Standard Error (SE) 0.039 Standard Deviation (SD) 0.306 Minimum 7.454 Maximum 9.098 Range (log2) 1.644 Range (fold) 3.125 Interquartile Range 1.331 This plot evaluates whether data are normally distributed. Different symbols represent different groups. More about Normal Probability Plots and more about interpreting these plots from the glossary More about Box Plots

  Calculate Correlations

Sample r Literature r Tissue r Database: B6BTBRF2 Published Phenotypes B6BTBRF2 Genotypes (B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5 (B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA Return: top 25 top 50 top 100 top 200 top 500 top 1000 top 2000 top 5000 top 10000 top 15000 top 20000 top 30000 top 40000 top 60000 Pearson    Spearman Rank The Sample Correlation is computed between trait data and any other traits in the sample database selected above. Use Spearman Rank when the sample size is small (<20) or when there are influential outliers. Database: B6BTBRF2 Published Phenotypes B6BTBRF2 Genotypes (B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5 (B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA Return: top 25 top 50 top 100 top 200 top 500 top 1000 top 2000 top 5000 top 10000 top 15000 top 20000 top 30000 top 40000 top 60000 The Literature Correlation (Lit r) between this gene and all other genes is computed using the Semantic Gene Organizer and human, rat, and mouse data from PubMed. Values are ranked by Lit r, but Sample r and Tissue r are also displayed. More on using Lit r Database: B6BTBRF2 Published Phenotypes B6BTBRF2 Genotypes (B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5 (B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA Return: top 25 top 50 top 100 top 200 top 500 top 1000 top 2000 top 5000 top 10000 top 15000 top 20000 top 30000 top 40000 top 60000 Pearson    Spearman Rank The Tissue Correlation (Tissue r) estimates the similarity of expression of two genes or transcripts across different cells, tissues, or organs (glossary). Tissue correlations are generated by analyzing expression in multiple samples usually taken from single cases. Pearson and Spearman Rank correlations have been computed for all pairs of genes using data from mouse samples.

  Mapping Tools

Interval Marker Regression Composite Pair-Scan Chromosome: All 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 Mapping Scale: Megabase Centimorgan Permutations: Bootstrap Test (n=2000) Use Parents Use Weighted Interval Mapping computes linkage maps for the entire genome or single chromosomes. The Permutation Test estimates suggestive and significant linkage scores. The Bootstrap Test estimates the precision of the QTL location. Display LRS above: Permutations: Display all LRS Use Parents Use Weighted Marker regression computes and displays LRS values for individual markers. This function also lists additive effects (phenotype units per allele) and dominance deviations for some datasets. Chromosome: All 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 Mapping Scale: Megabase Centimorgan Control Locus: Permutations: Bootstrap Test (n=2000) Use Parents Composite Interval Mapping allows you to control for a single marker as a cofactor. To find a control marker, run the Marker Regression function. Sort by: LRS Full LRS Interact Return: top 50 top 100 top 200 top 500 Permutation Test (n=500) Pair-Scan searches for pairs of chromosomal regions that are involved in two-locus epistatic interactions.

  Review and Edit Data

Edit or delete values in the Trait Data boxes, and use the Reset option as needed.   Block samples by index:           Options:                          Outliers highlighted in  yellow  can be hidden using the Hide Outliers button,   and samples with no value (x) can be hidden by clicking Hide No Value . Index Sample Value 1 B6BTBRF1 2 BTBRB6F1 3 C57BL/6J 4 BTBRT<+>tf/J 5 CASE2 6 CASE12 7 CASE16 8 CASE22 9 CASE44 10 CASE45 11 CASE46 12 CASE48 13 CASE57 14 CASE61 15 CASE72 16 CASE75 17 CASE78 18 CASE100 19 CASE105 20 CASE111 21 CASE112 22 CASE116 23 CASE123 24 CASE130 25 CASE134 26 CASE136 27 CASE148 28 CASE153 29 CASE156 30 CASE157 31 CASE159 32 CASE165 33 CASE167 34 CASE169 35 CASE173 36 CASE183 37 CASE184 38 CASE186 39 CASE190 40 CASE194 41 CASE198 42 CASE200 43 CASE207 44 CASE209 45 CASE210 46 CASE212 47 CASE223 48 CASE224 49 CASE228 50 CASE234 51 CASE235 52 CASE248 53 CASE253 54 CASE254 55 CASE260 56 CASE264 57 CASE266 58 CASE268 59 CASE270 60 CASE285 61 CASE309 62 CASE310 63 CASE317 64 CASE318 65 CASE324 66 CASE327 67 CASE328 68 CASE332 69 CASE343 70 CASE413 71 CASE416 72 CASE418 73 CASE419 74 CASE438 75 CASE439 76 CASE440 77 CASE444 78 CASE455 79 CASE458 80 CASE472 81 CASE473 82 CASE474 83 CASE479 84 CASE484 85 CASE486 86 CASE489 87 CASE491 88 CASE493 89 CASE495 90 CASE499 91 CASE501 92 CASE513 93 CASE517 94 CASE518 95 CASE523 96 CASE537 97 CASE548 98 CASE549 99 CASE550 100 CASE553 101 CASE554 102 CASE559 103 CASE560 104 CASE564 105 CASE566 106 CASE575 107 CASE585 108 CASE605 109 CASE608 110 CASE615 111 CASE617 112 CASE620 113 CASE694 114 CASE722