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Trait Data and Analysis  for Record ID 1369001_at

  Details and Links

Gene Symbol: Chrna3
Description: cholinergic receptor, nicotinic, alpha 3
Location: Chr 8 @ 59.593804 Mb on the minus strand
Target Score: BLAT specificity: 20.0   Score: 232  
Species and Group: Rat, HXBBXH
Database 3: MDC/CAS/UCL Liver 230v2 (Dec08) RMA
Resource Links: Gene  OMIM  UniGene  GenBank  HomoloGene  
UCSC  BioGPS  STRING  PANTHER  Gemma  EBI GWAS  Wiki-Pi  

Add To Collection Find similar expression data  Check probe locations at UCSC  Write or review comments about this gene
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  Basic Statistics



StatisticValue
N of Samples31
Mean5.988
Median5.947
Standard Error (SE)0.048
Standard Deviation (SD)0.267
Minimum5.784
Maximum7.377
Range (log2)1.593
Range (fold)3.017
Interquartile Range1.078

nP_AHzdYR7p.gif


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

Box_lZucQEwJ.gif

More about Box Plots

Bar_gqA5Nx9O.gif

Bar_WrKXe31b.gif

  Calculate Correlations

Database:
Return:

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:
Return:



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:
Return:

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

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 .


IndexSampleValue SEN
1 SHR_BNF1 (HSRBNF1) ±
2 BN_SHRF1 (BNHSRF1) ±
3 BN-Lx/Cub (BN) ±
4 SHR/OlaIpcv (HSR) ±
5 BXH2 ±
6 BXH3 ±
7 BXH5 ±
8 BXH6 ±
9 BXH8 ±
10 BXH9 ±
11 BXH10 ±
12 BXH11 ±
13 BXH12 ±
14 BXH12a ±
15 BXH13 ±
16 HXB1 ±
17 HXB2 ±
18 HXB3 ±
19 HXB4 ±
20 HXB5 ±
21 HXB7 ±
22 HXB9 ±
23 HXB10 ±
24 HXB13 ±
25 HXB14 ±
26 HXB15 ±
27 HXB16 ±
28 HXB17 ±
29 HXB18 ±
30 HXB19 ±
31 HXB20 ±
32 HXB21 ±
33 HXB22 ±
34 HXB23 ±
35 HXB24 ±
36 HXB25 ±
37 HXB26 ±
38 HXB27 ±
39 HXB29 ±
40 HXB30 ±
41 HXB31 ±
42 LE/Stm ±
43 F344/Stm ±
44 LEXF1A ±
45 LEXF1C ±
46 LEXF2A ±
47 LEXF2B ±
48 LEXF2C ±
49 LEXF3 ±
50 LEXF4 ±
51 LEXF5 ±
52 LEXF6B ±
53 LEXF7A ±
54 LEXF7B ±
55 LEXF7C ±
56 LEXF8A ±
57 LEXF8D ±
58 LEXF9 ±
59 LEXF10A ±
60 LEXF10B ±
61 LEXF10C ±
62 LEXF11 ±
63 FXLE12 ±
64 FXLE13 ±
65 FXLE14 ±
66 FXLE15 ±
67 FXLE16 ±
68 FXLE17 ±
69 FXLE18 ±
70 FXLE19 ±
71 FXLE20 ±
72 FXLE21 ±
73 FXLE22 ±
74 FXLE23 ±
75 FXLE24 ±
76 FXLE25 ±
77 FXLE26 ±
78 ACI/EurMciw ±
79 ACI/N ±
80 ACI/SegHsd ±
81 BDIX/CrCl ±
82 BDIX/HanHsd ±
83 BDIX/NemOda ±
84 BDIX/Zte ±
85 BDIX/Ztm ±
86 BN/HanKini ±
87 BN/Mav ±
88 BN/NHsdMcwi ±
89 BN/RijHsd ±
90 BN/SsNOlaHsd ±
91 BN/Ztm ±
92 BUF/CrCrl ±
93 BUF/Hsd ±
94 BUF/Mna ±
95 BUF/N ±
96 BUF/SimRijHsd ±
97 COP/CrCrl ±
98 COP/Spzirer ±
99 DA/OlaHsd ±
100 SS/EurMcwi ±
101 F344/DuCrl ±
102 F344/Luthmann ±
103 F344/Mullins ±
104 F344/NCrl ±
105 F344/NHsd ±
106 F344/NSlc ±
107 F344/Ntac ±
108 F344/Ztm ±
109 FHH/EurMcwi ±
110 GH/OmrMcwi ±
111 GK/FarMcwi ±
112 HTX/HcjRrrc ±
113 HTX/Kyo ±
114 LE/BluGill ±
115 LEW/Crl ±
116 LEW/SsNHsd ±
117 LH/MavRrrc ±
118 LL/MavRrrc ±
119 LN/MavRrrc ±
120 LOU/CHan ±
121 LOU/CNimrOlaHsd ±
122 LOU/CZtm ±
123 LOU/MNCr ±
124 LUDW/OlaHsd ±
125 M520/N ±
126 MNS/N ±
127 MNS/Gib ±
128 MR/N ±
129 MWF/Hsd ±
130 MWF/ZtmRrrc ±
131 NP ±
132 P ±
133 PD/Cub ±
134 PVG/OlaHsd ±
135 PVG/Seac ±
136 RCS/Kyo ±
137 RCS/LavRrrc ±
138 SBH/Ygl ±
139 SBN/Ygl ±
140 SHR/NCrl ±
141 SHRSP/A3NCrl ±
142 SHRSP/Bbb ±
143 SHRSP/Ezo ±
144 SHRSP/Gla ±
145 SHRSP/Izm ±
146 SHRSP/Ngsk ±
147 SR/JrHsd ±
148 SS/JrHsdMcwi ±
149 WAG/RijCrl ±
150 WAG/RijHsd ±
151 WKY/NCrl ±
152 WKY/NHsd ±
153 WLI/Ere ±
154 WMI/Ere ±
155 WN/N ±
156 BN_F344F1 ±
157 BN_LEF1 ±
158 BN_SSF1 ±
159 BN_FHHF1 ±
160 F344_BNF1 ±
161 F344_LEF1 ±
162 F344_SHRF1 ±
163 F344_SSF1 ±
164 F344_FHHF1 ±
165 FHH_BNF1 ±
166 FHH_F344F1 ±
167 FHH_LEF1 ±
168 FHH_SHRF1 ±
169 FHH_SSF1 ±
170 LE_BNF1 ±
171 LE_F344F1 ±
172 LE_SHRF1 ±
173 LE_FHHF1 ±
174 LE_SSF1 ±
175 SHR_F344F1 ±
176 SHR_LEF1 ±
177 SHR_FHHF1 ±
178 SHR_SSF1 ±
179 SS_BNF1 ±
180 SS_F344F1 ±
181 SS_FHHF1 ±
182 SS_LEF1 ±
183 SS_SHRF1 ±

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