HEI Retina Illumina V6.2 (April 2010) RankInv (accession number: GN267) modify this page

Summary:

HEI Retina Illumina V6.2 (April 2010) RankInv was normalized and scaled by William E. Orr and uploaded by Arthur Centeno and Xiaodong Zhou on April 7, 2010. This data set consists of 75 BXD strains, C57BL/6J, DBA/2J, both reciprocal F1s, and BALB/cByJ. A total of 80 strains were quantified. The data are now open and available for analysis.

Please cite: Freeman NE, Templeton JP, Orr WE, Lu L, Williams RW, Geisert EE (2011) Genetic networks in the mouse retina: Growth Associated Protein 43 and Phosphate Tensin Homology network. Molecular Vision 17:1355-1372. Full Text PDF or HTML

This is rank invariant expression data that has been normalized using what we call a 2z+8 scale, but without special correction for batch effects. The data for each strains were computed as the mean of four samples per strain. Expression values on a log2 scale range from 6.25 to 18.08 (11.83 units), a nominal range of approximately 3600-fold. After taking the log2 of the original non-logged expression estimates, we convert data within an array to a z score. We then multiply the z score by 2. Finally, we add 8 units to ensure that no values are negative. The result is a scale with a mean of 8 units and a standard deviation of 2 units. A two-fold difference in expression is equivalent roughly to 1 unit on this scale.

The lowest level of expression is 6.254 for ILMN_2747167 (Arhgap11a) from HEI Retina Illumina V6.2 (April 2010) RankInv **. Lowest single data about 5.842.

The highest level of expression is 18.077 for ILMN_2516699 (Ubb). Highest single value is about 18.934.

Other Related Publications

  1. Geisert EE, Lu L, Freeman-Anderson NE, Templeton JP, Nassr M, Wang X, Gu W, Jiao Y, Williams RW.:Gene expression in the mouse eye: an online resource for genetics using 103 strains of mice. Molecular Vision 2009 Aug 31;15:1730-63, (Link)
  2. Geisert EE, Jr., Williams RW: The Mouse Eye Transcriptome: Cellular Signatures, Molecular Networks, and Candidate Genes for Human Disease. In Eye, Retina, and Visual System of the Mouse. Edited by Chalupa LM, Williams RW. Cambridge: The MIT Press; 2008:659-674
  3. Peirce JL, Lu L, Gu J, Silver LM, Williams RW: A new set of BXD recombinant inbred lines from advanced intercross populations in mice. BMC Genet 2004, 5:7. (Link)
  4. Templeton JP, Nassr M, Vazquez-Chona F, Freeman-Anderson NE, Orr WE, Williams RW, Geisert EE: Differential response of C57BL/6J mouse and DBA/2J mouse to optic nerve crush. BMC Neurosci. 2009, July 30;10:90.(Link)

Other Data Sets Users of these mouse retina data may also find the following complementary resources useful:
  1. NEIBank collection of ESTs and SAGE data.
  2. RetNet: the Retinal Information Network--tables of genes and loci causing inherited retinal diseases
  3. Mouse Retina SAGE Library from the Cepko laboratory. This site provides extensive developmental data from as early as embryonic day E12.5.
  4. Digital reference of ophthalmology from Columbia provides high quality photographs of human ocular diseases, case studies, and short explanations. This reference does not have a molecular focus.
  5. Mouse Retinal Developmental Gene Expression data sets from the Friedlander laboratory. This site provides extensive developmental data using the Affymetrix U74 v 2 array (predecessor of the M430).
  6. Data sets on differential gene expression in anatomical compartments of the human eye from Pat Brown's lab. View expression signatures for different ocular tissues using the geneXplorer 2.0.

About the cases used to generate this set of data:

Almost all animals are young adults between 60 and 90 days of age (Table 1, minimum age is 48 and maximum age is 118 days). We measured expression in conventional inbred strains, BXD recombinant inbred (RI) strains, and reciprocal F1s between C57BL/6J and DBA/2J.

BXD strains:

  • The first 32 of these strains are from the Taylor series of BXD strains generated at the Jackson Laboratory by Benjamin A. Taylor. BXD1 through BXD32 were started in the late 1970s, whereas BXD33 through 42 were started in the 1990s.

  • In 2004, BXD24/TyJ developed a spontaneous mutation, rd16 which resulted in retinal degeneration and was renamed BXD24b/TyJ (BXD24 in this database). The strain, BXD24a, was cryo-recovered in 2004 from 1988 embryo stocks (F80) and does not exhibit retinal degeneration. In 2009, BXD24b was renamed BXD24/TyJ-Cep290rd16/J by JAX Labs to reflect the discovery of the genetic basis of the mutation. At the same time BXD24a was then referred to just as BXD24/TyJ by Jax Labs, but still called BXD24a in this dataset.

  • The other 36 BXD strains (BXD43 and higher) were bred by Lu Lu, Jeremy Peirce, Lee M. Silver, and Robert W. Williams starting in 1997 using B6D2 generation 10 advanced intercross progeny. This modified breeding protocol doubles the number of recombinations per BXD strain and improves mapping resolution (Peirce et al. 2004). All of the Taylor series of BXD strains and many of the new BXD strains are available from the Jackson Laboratory. All of the new BXD strains (BXD43 and higher) are also available directly from Lu Lu and colleagues at the University of Tennessee Health Science Center in Memphis, TN, USA. BXD24/TyJ is now known as BXD24b/TyJ and has nearly complete retinal degeneration. BXD24a/TyJ, a 1988 F80 inbred stock that has been rederived from cryogenic storage, does not have retinal degeneration (stock number 005243) and is an ideal coisogenic control, but is not included in the HEI data set.
  • About the tissue used to generate this set of data:

    Tissue preparation protocol. Animal were killed by rapid cervical dislocation. Retinas were removed immediately and placed in RNAlater at room temperature. Two retinas from one mouse were stored in a single tube.

    Each array was hybridized with a pool of cRNA from 2 retinas (1 mouse). Natalie Freeman-Anderson extracted RNA at UTHSC.

    Dissecting and preparing eyes for RNA extraction

    Retinas for RNA extraction were placed in RNA STAT-60 (Tel-Test Inc.) and processed per manufacturer’s instructions (in brief form below). Total RNA was extracted with RNA STAT-60 (Tel-Test Inc.) according to the manufacturer's instructions. Briefly we:

    • Homogenize tissue samples in the RNA STAT-60 (1 ml/50 to 100 mg tissue via syringe)
    • Allow the homogenate to stand for 5-10 min at room temperature
    • Add 0.2 ml of chloroform per 1 ml RNA STAT-60
    • Mix the sample vigorously for 15 sec and let the sample incubate at room temperature for 5-10 min
    • Centrifuge at 12,000 g for 1 hr at 4°C
    • Transfer the aqueous phase to a clean centrifuge tube
    • Add 0.5 ml of isopropanol per 1 ml RNA STAT-60
    • Vortex and incubate the sample at -20°C for 1 hr or overnight
    • Centrifuge at 12,000 g for 1 hr
    • Remove the supernatant and wash the RNA pellet with 75% ethanol
    • Remove ethanol, let air dry (5-10 min)
    • Dissolve the pellet in 50 μl of nuclease free water.

    Sample Processing: Drs. Natalie E. Freeman-Anderson and Justin P. Templeton extracted the retinas from the mice and Dr. Natalie Freeman-Anderson processed all samples in the HEI Vision Core Facility. The tissue was homogenized and extracted according to the RNA-Stat-60 protocol as described by the manufacturer (Tel-Test, Friendswood, TX) listed above. The quality and purity of RNA was assessed using an Agilent Bioanalyzer 2100 system. The RNA from each sample was processed with the Illumina TotalPrep RNA Amplification Kit (Ambion, Austin, TX) to produce labeled cRNA. The cRNA for each sample was then hybridized to an Illumina Sentrix® Mouse-6-V2 BeadChip (Illumina, San Diego, CA)

    Quality control analysis of the raw image data was performed using the Illumina BeadStudio software. MIAME standards were used for all microarray data. Rank invariant normalization with BeadStudio software was used to calculate the data. Once this data was collected, the data was globally normalized across all samples using the formula 2 (z-score of log2 [intensity]) + 8.

    Replication, sex, and sample balance: Our goal was to obtain data for independent biological sample pools from both sexes for most lines of mice. The four batches of arrays included in this final data set, collectively represent a reasonably well-balanced sample of males and females, in general without within-strain-by-sex replication.

    Table 1: HEI Retina case IDs, including sample tube ID, strain, age, sex, and source of mice

    Index

    Sample ID

    Strain

    Age

    Sex

    Source of Animal

    1

    121608_11-C57BL/6JcFA

    C57BL/6J

    69

    F

    JAX

    2

    121608_12-C57BL/6JcFB

    C57BL/6J

    69

    F

    JAX

    3

    KA7444-C57BL/6JcMC

    C57BL/6J

    97

    M

    UTHSC RW

    4

    KA7444-C57BL/6JcMD

    C57BL/6J

    97

    M

    UTHSC RW

    5

    31209.05-DBA2JcFA

    DBA2J

    75

    F

    UTHSC RW

    6

    31209.05-DBA2JcFB

    DBA2J

    75

    F

    UTHSC RW

    7

    121608_13-DBA/2JcMA

    DBA/2J

    89

    M

    UTHSC RW

    8

    121608_14-DBA/2JcMB

    DBA/2J

    89

    M

    UTHSC RW

    9

    KA7446-B6D2F1cFA

    B6D2F1

    92

    F

    UTHSC RW

    10

    KA7446-B6D2F1cFB

    B6D2F1

    92

    F

    UTHSC RW

    11

    KA7446-B6D2F1cMC

    B6D2F1

    92

    M

    UTHSC RW

    12

    KA7446-B6D2F1cMD

    B6D2F1

    92

    M

    UTHSC RW

    13

    KA7466-D2B6F1cFA

    D2B6F1

    70

    F

    UTHSC RW

    14

    KA7466-D2B6F1cFB

    D2B6F1

    70

    F

    UTHSC RW

    15

    KA7466-D2B6F1cMC

    D2B6F1

    70

    M

    UTHSC RW

    16

    KA7466-D2B6F1cMD

    D2B6F1

    70

    M

    UTHSC RW

    17

    82609.13-1cFA

    BXD01

    62

    F

    JAX

    18

    82609.14-1cFB

    BXD01

    62

    F

    JAX

    19

    KA7389-1cFA

    BXD01

    51

    F

    UTHSC RW

    20

    KA7389-1cFB

    BXD01

    51

    F

    UTHSC RW

    21

    KA7389-1cMC

    BXD01

    51

    M

    UTHSC RW

    22

    KA7389-1cMD

    BXD01

    51

    M

    UTHSC RW

    23

    KA7300-2cFA

    BXD02

    75

    F

    UTHSC RW

    24

    KA7300-2cFB

    BXD02

    75

    F

    UTHSC RW

    25

    100909.01-2cMA

    BXD02

    65

    M

    JAX

    26

    100909.02-2cMB

    BXD02

    65

    M

    JAX

    27

    KA6699-5cFA

    BXD05

    62

    F

    UTHSC RW

    28

    KA6699-5cFB

    BXD05

    62

    F

    UTHSC RW

    29

    KA6699-5cFC

    BXD05

    62

    F

    UTHSC RW

    30

    KA6699-5cFD

    BXD05

    62

    F

    UTHSC RW

    31

    82609.09-5cMA

    BXD05

    60

    M

    JAX

    32

    82609.1-5cMB

    BXD05

    60

    M

    JAX

    33

    KA6763-6cFA

    BXD06

    48

    F

    UTHSC RW

    34

    KA6763-6cFB

    BXD06

    48

    F

    UTHSC RW

    35

    81209.06-6cMA

    BXD06

    69

    M

    VAMC

    36

    81209.07-6cMB

    BXD06

    69

    M

    VAMC

    37

    82609.07-8cFA

    BXD08

    68

    F

    JAX

    38

    82609.08-8cFB

    BXD08

    68

    F

    JAX

    39

    JAX-8cMA

    BXD08

    76

    M

    JAX

    40

    JAX-8cMB

    BXD08

    76

    M

    JAX

    41

    KA7289-9cFA

    BXD09

    87

    F

    UTHSC RW

    42

    KA7289-9cFB

    BXD09

    87

    F

    UTHSC RW

    43

    KA7289-9cMC

    BXD09

    87

    M

    UTHSC RW

    44

    KA7289-9cMD

    BXD09

    87

    M

    UTHSC RW

    45

    JAX-11cFA

    BXD11

    84

    F

    JAX

    46

    JAX-11cFB

    BXD11

    84

    F

    JAX

    47

    JAX-11cMC

    BXD11

    71

    M

    JAX

    48

    JAX-11cMD

    BXD11

    71

    M

    JAX

    49

    40209.07-12cFA

    BXD12

    65

    F

    VAMC

    50

    40209.08-12cFB

    BXD12

    65

    F

    VAMC

    51

    011309.01-12cMA

    BXD12

    65

    M

    UTHSC RW

    52

    011309.02-12cMB

    BXD12

    65

    M

    UTHSC RW

    53

    KA7286-13cFA

    BXD13

    89

    F

    UTHSC RW

    54

    KA7286-13cFB

    BXD13

    89

    F

    UTHSC RW

    55

    KA7286-13cMC

    BXD13

    89

    M

    UTHSC RW

    56

    KA7286-13cMD

    BXD13

    89

    M

    UTHSC RW

    57

    KA7302-14cFA

    BXD14

    73

    F

    UTHSC RW

    58

    KA7302-14cFB

    BXD14

    73

    F

    UTHSC RW

    59

    100909.05-14cMA

    BXD14

    66

    M

    JAX

    60

    100909.06-14cMB

    BXD14

    66

    M

    JAX

    61

    KA7288-15cFA

    BXD15

    89

    F

    UTHSC RW

    62

    KA7288-15cFB

    BXD15

    89

    F

    UTHSC RW

    63

    KA7288-15cMC

    BXD15

    89

    M

    UTHSC RW

    64

    KA7288-15cMD

    BXD15

    89

    M

    UTHSC RW

    65

    062509.01-16cFA

    BXD16

    68

    F

    UTHSC RW

    66

    KA7267-16cMA

    BXD16

    91

    M

    UTHSC RW

    67

    KA7267-16cMB

    BXD16

    91

    M

    UTHSC RW

    68

    KA6686-18cFB

    BXD18

    65

    F

    UTHSC RW

    69

    KA6686-18cFC

    BXD18

    65

    F

    UTHSC RW

    70

    KA6686-18cME

    BXD18

    65

    M

    UTHSC RW

    71

    KA6686-18cMF

    BXD18

    65

    M

    UTHSC RW

    72

    KA6676-19cFB

    BXD19

    63

    F

    UTHSC RW

    73

    KA6676-19cFC

    BXD19

    63

    F

    UTHSC RW

    74

    KA6676-19cME

    BXD19

    63

    M

    UTHSC RW

    75

    KA6676-19cMF

    BXD19

    63

    M

    UTHSC RW

    76

    060409.05-20cFA

    BXD20

    67

    F

    UTHSC RW

    77

    060409.06-20cFB

    BXD20

    67

    F

    UTHSC RW

    78

    021909.03-20cMA

    BXD20

    64

    M

    UTHSC RW

    79

    021909.04-20cMB

    BXD20

    64

    M

    UTHSC RW

    80

    82609.02-21cFC

    BXD21

    65

    F

    JAX

    81

    82609.03-21cFD

    BXD21

    65

    F

    JAX

    82

    121709.01-21cMA

    BXD21

    80

    M

    JAX

    83

    121709.02-21cMB

    BXD21

    80

    M

    JAX

    84

    121709.03-22cFA

    BXD22

    62

    F

    JAX

    85

    121709.04-22cFB

    BXD22

    62

    F

    JAX

    86

    092308_03-22cMA

    BXD22

    118

    M

    UTHSC RW

    87

    092308_04-22cMB

    BXD22

    118

    M

    UTHSC RW

    88

    80409.01-24AcFA

    BXD24A

    72

    F

    UTHSC RW

    89

    080409_02_24AcFB

    BXD24A

    72

    F

    UTHSC RW

    90

    82609.26-24AcFC

    BXD24A

    64

    F

    UTHSC RW

    91

    81209.03-24AcMC

    BXD24A

    62

    M

    UTHSC RW

    92

    KA6678-24cFA

    BXD24

    62

    F

    UTHSC RW

    93

    KA6678-24cFB

    BXD24

    62

    F

    UTHSC RW

    94

    KA6678-24cME

    BXD24

    62

    M

    UTHSC RW

    95

    KA6678-24cMF

    BXD24

    62

    M

    UTHSC RW

    96

    060409.07-27cFA

    BXD27

    63

    F

    UTHSC RW

    97

    060409.08-27cFB

    BXD27

    63

    F

    UTHSC RW

    98

    80409.03-27cMA

    BXD27

    74

    M

    UTHSC RW

    99

    80409.04-27cMB

    BXD27

    74

    M

    UTHSC RW

    100

    JAX-28cFA

    BXD28

    67

    F

    JAX

    101

    JAX-28cFB

    BXD28

    67

    F

    JAX

    102

    JAX-28cMC

    BXD28

    67

    M

    JAX

    103

    JAX-28cMD

    BXD28

    67

    M

    JAX

    104

    82609.11-29cFA

    BXD29

    66

    F

    JAX

    105

    82609.12-29cFB

    BXD29

    66

    F

    JAX

    106

    82609.04-29cMA

    BXD29

    66

    M

    JAX

    107

    82609.05-29cMB

    BXD29

    66

    M

    JAX

    108

    JAX-31cMB

    BXD 31

    56

    M

    JAX

    109

    JAX-31cFC

    BXD 31

    69

    F

    JAX

    110

    JAX-31cFD

    BXD 31

    69

    F

    JAX

    111

    011309.03-32cFA

    BXD32

    62

    F

    UTHSC RW

    112

    011309.04-32cFB

    BXD32

    62

    F

    UTHSC RW

    113

    KA7318-32cFC

    BXD32

    71

    F

    UTHSC RW

    114

    KA7319-32cMA

    BXD32

    74

    M

    UTHSC RW

    115

    KA7319-32cMB

    BXD32

    74

    M

    UTHSC RW

    116

    100909.07-33cFA

    BXD33

    65

    F

    JAX

    117

    100909.08-33cFB

    BXD33

    65

    F

    JAX

    118

    022609.01-33cMA

    BXD33

    92

    M

    UTHSC RW

    119

    022609.02-33cMB

    BXD33

    92

    M

    UTHSC RW

    120

    KA7416-34cFA

    BXD34

    97

    F

    UTHSC RW

    121

    KA7416-34cFB

    BXD34

    97

    F

    UTHSC RW

    122

    KA6321-34cMA

    BXD34

    66

    M

    UTHSC RW

    123

    KA6321-34cMB

    BXD34

    66

    M

    UTHSC RW

    124

    060409.01-36cFA

    BXD36

    63

    F

    UTHSC RW

    125

    060409.02-36cFB

    BXD36

    63

    F

    UTHSC RW

    126

    060409.03-36cMC

    BXD36

    63

    M

    UTHSC RW

    127

    KA6702-38cFA

    BXD38

    63

    F

    UTHSC RW

    128

    KA6702-38cFB

    BXD38

    63

    F

    UTHSC RW

    129

    82609.24-38cFA

    BXD38

    85

    F

    UTHSC RW

    130

    82609.25-38cFB

    BXD38

    85

    F

    UTHSC RW

    131

    100909.03-38cMA

    BXD38

    61

    M

    JAX

    132

    100909.04-38cMB

    BXD38

    61

    M

    JAX

    133

    022609.05-39cFA

    BXD39

    65

    F

    UTHSC RW

    134

    022609.06-39cFB

    BXD39

    65

    F

    UTHSC RW

    135

    31209.01-39cMC

    BXD39

    67

    M

    UTHSC RW

    136

    92409.01-40cFA

    BXD40

    64

    F

    UTHSC RW

    137

    92409.02-40cFB

    BXD40

    64

    F

    UTHSC RW

    138

    KA6173-40cMA

    BXD40

    59

    M

    UTHSC RW

    139

    KA6173-40cMB

    BXD40

    59

    M

    UTHSC RW

    140

    KA6173-40cMC

    BXD40

    59

    M

    UTHSC RW

    141

    091809.01-42cFA

    BXD42

    73

    F

    UTHSC RW

    142

    091809.02-42cFB

    BXD42

    73

    F

    UTHSC RW

    143

    021909.01-42cFA

    BXD42

    89

    F

    UTHSC RW

    144

    011309.06-42cMA

    BXD42

    67

    M

    UTHSC RW

    145

    011309.07-42cMB

    BXD42

    67

    M

    UTHSC RW

    146

    110408_02-43cFA

    BXD43

    61

    F

    UTHSC RW

    147

    110408_03-43cFB

    BXD43

    61

    F

    UTHSC RW

    148

    KA6158-43cMA

    BXD43

    66

    M

    UTHSC RW

    149

    KA6158-43cMB

    BXD43

    66

    M

    UTHSC RW

    150

    100308_01-44cFA

    BXD44

    67

    F

    UTHSC RW

    151

    102208_02-44cMD

    BXD44

    64

    M

    UTHSC RW

    152

    103009.03-45cFA

    BXD45

    68

    F

    UTHSC RW

    153

    103009.04-45cFB

    BXD45

    68

    F

    UTHSC RW

    154

    022609.03-45cFA

    BXD45

    78

    F

    UTHSC RW

    155

    022609.04-45cFB

    BXD45

    78

    F

    UTHSC RW

    156

    40309.05-45cMB

    BXD45

    65

    M

    UTHSC RW

    157

    40209.05-48cFB

    BXD48

    58

    F

    VAMC

    158

    40209.06-48cFC

    BXD48

    58

    F

    VAMC

    159

    81209.04-48cMA

    BXD48

    82

    M

    UTHSC RW

    160

    81209.05-48cMB

    BXD48

    82

    M

    UTHSC RW

    161

    81209.08-49cFA

    BXD49

    70

    F

    VAMC

    162

    81209.09-49cFB

    BXD49

    70

    F

    VAMC

    163

    40209.01-49cMA

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    About downloading this data set:

    This data set is available as a bulk download in several formats. The data are available as either strain means or the individual arrays. Due to the involved normalization procedures required to correct for batch effects we strongly recommend not using the raw CEL files without special statistical procedures.

    About the array platform:

    Illumina MouseWG-6 v2.0 arrays: The Illumina Sentrix Mouse-6 BeadChip uses 50-nucleotide probes to interrogate approximately 46,000 sequences from the mouse transcriptome. For each array, the RNA was pooled from two retinas.

    About data values and data processing:

    Values of all 45,281 probe sets in this data set range from a low of 6.25 (Rho GTPase activating protein 11A, Arhgap11a, probe ID ILMN_2747167) to a high of 18.08 (Ubiquitin B, Ubb, probe ID ILMN_2516699). This corresponds to 11.83 units or a 1 to 3641 dynamic range of expression (2^11.83). We normalized raw signal values using Beadstudio’s rank invariant normalization algorithm. BXD62 was the strain used as the control group

    Normalization:

    All normalization was performed by William E. Orr in the HEI Vision Core Facility

    1. Computed the log base 2 of each raw signal value
    2. Calculated the mean and standard Deviation of each Mouse WG-6 v2.0 array
    3. Normalized each array using the formula, 2 (z-score of log2 [intensity]) The result is to produce arrays that have a mean of 8, a variance of 4, and a standard deviation of 2. The advantage is that a two-fold difference in expression level corresponds approximately to a 1 unit difference.
    4. computed the mean of the values for the set of microarrays for each strain. Technical replicates were averaged before computing the mean for independent biological samples.

    Funding Support for the HEI Retina Dataset:

    The HEI Retinal Database is supported by National Eye Institute Grants:

  • R01EY017841 (Dr. Eldon E. Geisert, PI)

  • P030EY13080 (NEI Vision Core Grant), and

  • A Unrestricted Grand from Research to Prevent Blindness (Dr. Barrett Haik, PI)
  • Information about this text file:

    Dataset was uploaded to GeneNetwork by Arthur Centeno and Xiaodong Zhou, April 7, 2010. This text file was generated by Justin P. Templeton April 2010 from a previous version by RWW and EEG.

    References

    Rogojina AT, Orr WE, Song BK, Geisert EE, Jr.: Comparing the use of Affymetrix to spotted oligonucleotide microarrays using two retinal pigment epithelium cell lines. Molecular vision 2003, 9:482-496.(Link)

    Vazquez-Chona F, Song BK, Geisert EE, Jr.: Temporal changes in gene expression after injury in the rat retina. Investigative ophthalmology & visual science 2004, 45(8):2737-2746.(Link)

    GEO Series Data: This section to be used for GEO submission of the whole series of arrays

    GSE Series No GEO series number

    Status Private on April, 2010

    Organism(s) Mus musculus

    Experiment type Expression profiling by array

    Overall design We used pooled RNA samples of retinas, usually two independent pools--two male, two female pool--for most lines of mice.

    Contributor(s) Eldon E. Geisert, Lu Lu, Natalie E. Freeman-Anderson, Justin P. Templeton, Robert W. Williams


    Submission date Not yet submitted to GEO.
    Contact name Eldon E. Geisert
    E-mails EGeisert@uthsc.edu
    Phone 901-448-7740
    FAX 901-448-5028
    URL GeneNetwork BXD HEI RETINA
    Organization name University of Tennessee Health Science Center
    Department(s) Department of Ophthalmology
    Laboratory(s) Geisert, Lu, Wiliams Labs
    Street address 930 Madison Avenue
    City Memphis
    State/province TN
    ZIP/Postal code 38163
    Country USA

    Platforms (1) GPLXXXX Illumina Mouse Whole Genome 6 version 2.0