WebQTL
 
   |    Home    |    Search    |    Help    |    News    |    References    |    Policies    |    Links    |    Welcome! Login   

Data Set Group2: GenEx BXD EtOH Liver Affy M430 2.0 (Sep12) MAS5 modify this page

Data Set: GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes ** modify this page
GN Accession: GN310
GEO Series: No Geo series yet
Title:
Organism: Mouse (Mus musculus, mm10)
Group: BXD
Tissue: Liver mRNA
Dataset Status: Public
Platforms: Affy Mouse Genome 430 2.0 (GPL1261)
Normalization: RMA
Contact Information
Robert Rooney
Genome Explorations Inc.
654 Jefferson Avenue
Memphis, TN 38105 USA
Tel. 901 578-5708
rrooney@genome-explorations.com
Website
Download datasets and supplementary data files

Specifics of this Data Set:
None

Summary:

These data generated by Dr. Robert Rooney, Kristin Hamre, Divyen Patel, and colleagues at Genome Explorations as part of an SBIR from NIAAA (2010-2011).

Data entered by Arthur Centeno, Jan and Feb 2011.

Data error checked by Robert W. Williams, Jan-May 2011.

eQTLs with LOD > 10

 

  1. UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females: 303
  2. UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males: 279
  3. UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes: 493
  4. GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females: 320
  5. GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males: 207
  6. GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes: 513
  7. GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females: 189
  8. GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males: 97
  9. GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes: 327
  10. GenEx BXD Sal Liver Affy M430 2.0 (Jan11) RMA Females: 274
  11. GenEx BXD Sal Liver Affy M430 2.0 (Jan11) RMA Males: 175
  12. GenEx BXD Sal Liver Affy M430 2.0 (Jan11) RMA Both Sexes: 444
  13. GenEx BXD EtOH Liver Affy M430 2.0 (Jan11) RMA Females: 139
  14. GenEx BXD EtOH Liver Affy M430 2.0 (Jan11) RMA Males: 73
  15. GenEx BXD EtOH Liver Affy M430 2.0 (Jan11) RMA Both Sexes: 230

 



About the cases used to generate this set of data:


About the tissue used to generate this set of data:


About the array platform:


About data values and data processing:


Notes:

A total of 239 probe sets have LRS >46. Maximum LRS of 124.5. Perfect concordance between phenotype of probe set and genotype for St3gal4 on Chr 9 at 34.9 Mb.

Xist expression is uniformly high in BXD55 and BXD70 using probe set 1427262_at, but this is probably due to ethanol effect. Note that Eif2s3y indicates all strains have balanced male and female data.



Experiment Type:


Contributor:


Citation:


Data source acknowledgment:


Study Id:
103
CITG Web services initiated January, 1994 as Portable Dictionary of the Mouse Genome; June 15, 2001 as WebQTL; and Jan 5, 2005 as GeneNetwork. This site is currently operated by Rob Williams, Pjotr Prins, Zachary Sloan, Arthur Centeno. Design and code by Pjotr Prins, Zach Sloan, Arthur Centeno, Danny Arends, Christian Fischer, Sam Ockman, Lei Yan, Xiaodong Zhou, Christian Fernandez, Ning Liu, Rudi Alberts, Elissa Chesler, Sujoy Roy, Evan G. Williams, Alexander G. Williams, Kenneth Manly, Jintao Wang, and Robert W. Williams, colleagues. Python Powered Registered with Nif
GeneNetwork support from:
  • The UT Center for Integrative and Translational Genomics
  • NIGMS Systems Genetics and Precision Medicine project (R01 GM123489, 2017-2021)
  • NIDA NIDA Core Center of Excellence in Transcriptomics, Systems Genetics, and the Addictome (P30 DA044223, 2017-2022)
  • NIA Translational Systems Genetics of Mitochondria, Metabolism, and Aging (R01AG043930, 2013-2018)
  • NIAAA Integrative Neuroscience Initiative on Alcoholism (U01 AA016662, U01 AA013499, U24 AA013513, U01 AA014425, 2006-2017)
  • NIDA, NIMH, and NIAAA (P20-DA 21131, 2001-2012)
  • NCI MMHCC (U01CA105417), NCRR, BIRN, (U24 RR021760)
    It took 0.046 second(s) for tux01.uthsc.edu to generate this page