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Platform GPL16159 Query DataSets for GPL16159
Status Public on Aug 08, 2013
Title IMP Genomics Mouse 58MM
Technology type spotted DNA/cDNA
Distribution non-commercial
Organism Mus musculus
Manufacturer IMP Genomics Mouse
Manufacture protocol Prepare in house spotted DNA Microarrays PCRs and Printing Dilution plates: Prepare 96 well pates and label them ( eg. 1130 Dil) Aliquot 95 µl dd water into each well (roboter “95µl verteilen”) Pipette 5µl from the copy plate into the Dilution plate (roboter “dilution plate”). (If you do not perform immediately: Heat for 10 min at 94°C ( PCR machine) Spin down Freeze away or perform PCR reaction) PCRmix for a 96 well plate: 550µl 10x buffer (100mM Tris.HCl pH8.3, 500mM KCl) 11µl UNI-primer (1µg/µl CCCAGTCACGACGTTG) 11µl REV-primer (1µg/µl CACAGGAAACAGCTATG) 11µl 1M MgCl2 (has to be adjusted to Taq used) 44µl 25mM dNTPs 110µl Taq 1887µl dd water 2514µl 3M Betaine 5138µl total Volume (45µl per well) PCR Reaction: Transfer 5µl of the working dilution (see bacteria growth) to PCR-plate (MJResearch, skirted plate) containing 45µl PCRmix, seal plate with sealing sheet (ABGene AB-0558) Spin down PCR program: 94°C 1min 35X 94°C 30sec 52°C 30sec 72°C 1min 30sec 72°C 5min Load 5µl PCR product on a 1% agarose gel for quality control Preparation for printing the PCR products: Concentrate PCR products in a Speedvac (Determine time until no further reduction of volume is seen, in our case it is at least 4 hours when using 8 plates per batch, final volume is approximately 6-7 µl) Add 6µl 6xSSC Shake vigorously up to 3 hours at 4°C (we use a modified vortex, probably mixing with pipetting robot before transfer into 384 well plates will do) Transfer into 384 well plates Store PCR-plates at –80°C Spot onto Schott Nexterion A slides Slide Blocking: Fixation: Put slides 30 min on 80°C heating plate and cross link with 600mJ(Schott) or 60mJ with Poly-lysine slides Blocking: Dissolve 1.37 g Succinic Anhydride in 90ml N-Methyl - Pyrrolidone Add 2.5 ml N-methylimidazol (FLUKA) Immediately pour it into a slide chamber and incubate slides for 1 hour with slight agitation transfer slide into 0.1 % SDS for 20sec. transfer into H2O for 20sec Denature: Slides are briefly washed in water (or DCE) and incubated for 4 min in a boiling water bath After a brief rinse in 95% EtOH spin slides 4 min 1200rpm for drying For 30 slides in a big chamber with 300 ml blocking solution: (4,11 g SA in 270 ml NMP and 7,5 ml NMI)??????
Submission date Oct 10, 2012
Last update date Jan 30, 2013
Contact name Roman R Stocsits
Organization name IMP - Research Institute of Molecular Pathology
Lab Jan-Michael Peters' Lab
Street address Campus-Vienna-Biocenter 1
City Vienna
ZIP/Postal code 1030
Country Austria
Samples (16) GSM1017652, GSM1017653, GSM1017654, GSM1017655, GSM1017656, GSM1017657 
Series (2)
GSE41460 Wapl controls higher-order chromatin structure in interphase chromosomes (gene expression)
GSE41603 Wapl controls higher-order chromatin structure in interphase chromosomes

Data table header descriptions
CLONE_ID clone identifier
Unigene_ID Unigene identifier
MGI_Marker_ID MGI marker identifier
Symbol Gene symbol

Data table
ID CLONE_ID ORF Unigene_ID MGI_Marker_ID Symbol
1 1130A1 109346 Mm.247537 MGI:1914816 Ankrd39
2 1130A11 54324 Mm.320978 MGI:1858952 Arhgef5
3 1130A3 74561 Mm.290028 MGI:1921811 Nkx6-3
4 1130B10 68018 MGI:1915268 Col4a3bp
5 1130B12 20945 Mm.439686 MGI:106178 Svs6
6 1130B3 67307 Mm.368563 MGI:1914557 3110049J23Rik
7 1130B7 77707 Mm.393410 MGI:1924957 9130604C24Rik
8 1130B9 78240 Mm.99424 MGI:1925490 Cst11
9 1130C1 77673 MGI:1924923 Defb41
10 1130C10 68044 Mm.32656 MGI:1915294 Chac2
11 1130C11 77705 Mm.159975 MGI:1924955 9230104L09Rik
12 1130C12 77685 MGI:1924935 9230104J12Rik
13 1130C2 77682 Mm.449456 MGI:1924932 9230102O04Rik
14 1130C4 77683 Mm.24176 MGI:1924933 Ehmt1
15 1130C5 77701 Mm.99123 MGI:1924951 Lcn12
16 1130C6 77704 Mm.159974 MGI:1924954 Lcn9
17 1130C7 109335 Mm.367727 MGI:1925931 9230102K24Rik
18 1130C8 77674 Mm.281961 MGI:1924924 Defb12
19 1130D1 77688 MGI:1924938 9230104K21Rik
20 1130D10 78076 Mm.196708 MGI:2135945 Lcn8

Total number of rows: 23695

Table truncated, full table size 1080 Kbytes.

Download family Format
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Supplementary data files not provided

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