VCU LXS PFC Sal M430A 2.0 (Aug06) RMA : 1455931

Trait Data and Analysis for Record ID 1455931_at

Details and Links

Gene Symbol: Chrna3
Aliases: (a)3; A730007P14Rik; Acra-3; Acra3; LNCR2; PAOD2; MGC104879; CHRNA3
Description: cholinergic receptor, nicotinic, alpha polypeptide 3; mid and mid-distal 3' UTR
Location: Chr 9 @ 55.011606 Mb on the minus strand
Target Score: BLAT specificity: 11.1   Score: 222
Species and Group: Mouse, LXS
Database 3: VCU LXS PFC Sal M430A 2.0 (Aug06) RMA
Resource Links: Gene  OMIM  UniGene  GenBank  HomoloGene
UCSC  BioGPS  STRING  PANTHER  Gemma  ABA  EBI GWAS  Wiki-Pi

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Basic Statistics

Basic Table
Probability Plot
Bar Graph (by name)
Bar Graph (by rank)
Box Plot

Statistic Value
N of Samples 42
Mean 4.642
Median 4.676
Standard Error (SE) 0.025
Standard Deviation (SD) 0.159
Minimum 4.301
Maximum 4.961
Range (log2) 0.661
Range (fold) 1.581
Interquartile Range 1.138

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:
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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:
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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:
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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:
Mapping Scale:
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:
Mapping Scale:
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:
Return:

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 LSF1
2 SLF1
3 ISS
4 ILS
5 LXS2
6 LXS3
7 LXS5
8 LXS7
9 LXS8
10 LXS9
11 LXS10
12 LXS13
13 LXS14
14 LXS16
15 LXS19
16 LXS22
17 LXS23
18 LXS24
19 LXS25
20 LXS26
21 LXS28
22 LXS31
23 LXS32
24 LXS34
25 LXS35
26 LXS36
27 LXS38
28 LXS39
29 LXS41
30 LXS42
31 LXS43
32 LXS46
33 LXS48
34 LXS49
35 LXS50
36 LXS51
37 LXS52
38 LXS54
39 LXS55
40 LXS56
41 LXS59
42 LXS60
43 LXS61
44 LXS62
45 LXS64
46 LXS66
47 LXS68
48 LXS70
49 LXS72
50 LXS73
51 LXS75
52 LXS76
53 LXS78
54 LXS79
55 LXS80
56 LXS84
57 LXS86
58 LXS87
59 LXS88
60 LXS89
61 LXS90
62 LXS92
63 LXS93
64 LXS94
65 LXS96
66 LXS97
67 LXS98
68 LXS99
69 LXS100
70 LXS101
71 LXS102
72 LXS103
73 LXS107
74 LXS110
75 LXS112
76 LXS114
77 LXS115
78 LXS117
79 LXS122
80 LXS123
81 LXS124