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Search results for the GEO ID: GSE3075
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GPL ID
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Description
Characteristics
GSM67523
GPL339
wild-type mouse 1 lumbar spinal cord wild-type littermate of B6.BKS Ighmbp2nmd-2J mice 6 weeks of age male We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age. Frozen tissue was stored at -80°C. Total RNA was purified from tissue, using the EUROZol Kit (EuroClone Ltd., United Kingdom) following the manufacturer’s instructions. Total RNA (5 ug) was reverse-transcribed with a cDNA synthesis kit in the presence of SuperScript II RT (Invitrogen-Life Technologies, Inc.) and an oligo dT-T7 primer (Affymetrix Inc., Santa Clara, CA). After phenol/chloroform extraction and ethanol precipitation, the cDNA pellet was air-dried and re-suspended in 12 uL of diethyl pyrocarbonate-treated water and quantified by spectrophotometer measurement. An aliquot of each sample was conserved for gel electrophoresis and for inspection of RNA quality (i.e., 28S:18S RNA ratio). 10 ul was used for the IVT (In Vitro Transcription) amplification reaction, in the presence of biotinylated nucleotides (Enzo Biochem Inc.). Labeled cRNA (15 ug) was fragmented by incubation at 94°C for 35 minutes in fragmentation buffer (GeneChip Sample Cleanup, Qiagen) and the fragmented cRNA was then hybridized competitively against the Affymetrix 430 2.0 Array oligonucleotide array. Hybridization occurred at 47°C overnight. The arrays were scanned using a GeneArray 2500 Scanner (Affymetrix) and analyzed using MicroArray Suite 5.0 (Affymetrix). All experiments were validated after direct measures of cRNA quality: 5':3' ratios for beta-actin and for GAPDH (determined from Affymetrix chip hybridization analysis) are indirect indicators of overall RNA preservation. The default parameters were used for the statistical algorithm and for probe set scaling. The target intensity was set to 1,000 to normalize expression levels across all samples.
GSM67524
GPL339
wild-type mouse 2 lumbar spinal cord wild-type littermate of B6.BKS Ighmbp2nmd-2J mice 6 weeks of age male We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age.
GSM67525
GPL339
wild-type mouse 3 lumbar spinal cord wild-type littermate of B6.BKS Ighmbp2nmd-2J mice 6 weeks of age male We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age.
GSM67526
GPL339
nmd untreated 1 lumbar spinal cord B6.BKS Ighmbp2nmd-2J mouse 6 weeks of age male We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age. Frozen tissue was stored at -80°C. Total RNA was purified from tissue, using the EUROZol Kit (EuroClone Ltd., United Kingdom) following the manufacturer’s instructions. Total RNA (5 ug) was reverse-transcribed with a cDNA synthesis kit in the presence of SuperScript II RT (Invitrogen-Life Technologies, Inc.) and an oligo dT-T7 primer (Affymetrix Inc., Santa Clara, CA). After phenol/chloroform extraction and ethanol precipitation, the cDNA pellet was air-dried and re-suspended in 12 uL of diethyl pyrocarbonate-treated water and quantified by spectrophotometer measurement. An aliquot of each sample was conserved for gel electrophoresis and for inspection of RNA quality (i.e., 28S:18S RNA ratio). 10 ul was used for the IVT (In Vitro Transcription) amplification reaction, in the presence of biotinylated nucleotides (Enzo Biochem Inc.). Labeled cRNA (15 ug) was fragmented by incubation at 94°C for 35 minutes in fragmentation buffer (GeneChip Sample Cleanup, Qiagen) and the fragmented cRNA was then hybridized competitively against the Affymetrix 430 2.0 Array oligonucleotide array. Hybridization occurred at 47°C overnight. The arrays were scanned using a GeneArray 2500 Scanner (Affymetrix) and analyzed using MicroArray Suite 5.0 (Affymetrix). All experiments were validated after direct measures of cRNA quality: 5':3' ratios for beta-actin and for GAPDH (determined from Affymetrix chip hybridization analysis) are indirect indicators of overall RNA preservation. The default parameters were used for the statistical algorithm and for probe set scaling. The target intensity was set to 1,000 to normalize expression levels across all samples.
GSM67529
GPL339
nmd untreated 2 lumbar spinal cord B6.BKS Ighmbp2nmd-2J mouse 6 weeks of age male We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age. Frozen tissue was stored at -80°C. Total RNA was purified from tissue, using the EUROZol Kit (EuroClone Ltd., United Kingdom) following the manufacturer’s instructions. Total RNA (5 ug) was reverse-transcribed with a cDNA synthesis kit in the presence of SuperScript II RT (Invitrogen-Life Technologies, Inc.) and an oligo dT-T7 primer (Affymetrix Inc., Santa Clara, CA). After phenol/chloroform extraction and ethanol precipitation, the cDNA pellet was air-dried and re-suspended in 12 uL of diethyl pyrocarbonate-treated water and quantified by spectrophotometer measurement. An aliquot of each sample was conserved for gel electrophoresis and for inspection of RNA quality (i.e., 28S:18S RNA ratio). 10 ul was used for the IVT (In Vitro Transcription) amplification reaction, in the presence of biotinylated nucleotides (Enzo Biochem Inc.). Labeled cRNA (15 ug) was fragmented by incubation at 94°C for 35 minutes in fragmentation buffer (GeneChip Sample Cleanup, Qiagen) and the fragmented cRNA was then hybridized competitively against the Affymetrix 430 2.0 Array oligonucleotide array. Hybridization occurred at 47°C overnight. The arrays were scanned using a GeneArray 2500 Scanner (Affymetrix) and analyzed using MicroArray Suite 5.0 (Affymetrix). All experiments were validated after direct measures of cRNA quality: 5':3' ratios for beta-actin and for GAPDH (determined from Affymetrix chip hybridization analysis) are indirect indicators of overall RNA preservation. The default parameters were used for the statistical algorithm and for probe set scaling. The target intensity was set to 1,000 to normalize expression levels across all samples.
GSM67530
GPL339
nmd untreated 3 lumbar spinal cord B6.BKS Ighmbp2nmd-2J mouse 6 weeks of age male We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age. Frozen tissue was stored at -80°C. Total RNA was purified from tissue, using the EUROZol Kit (EuroClone Ltd., United Kingdom) following the manufacturer’s instructions. Total RNA (5 ug) was reverse-transcribed with a cDNA synthesis kit in the presence of SuperScript II RT (Invitrogen-Life Technologies, Inc.) and an oligo dT-T7 primer (Affymetrix Inc., Santa Clara, CA). After phenol/chloroform extraction and ethanol precipitation, the cDNA pellet was air-dried and re-suspended in 12 uL of diethyl pyrocarbonate-treated water and quantified by spectrophotometer measurement. An aliquot of each sample was conserved for gel electrophoresis and for inspection of RNA quality (i.e., 28S:18S RNA ratio). 10 ul was used for the IVT (In Vitro Transcription) amplification reaction, in the presence of biotinylated nucleotides (Enzo Biochem Inc.). Labeled cRNA (15 ug) was fragmented by incubation at 94°C for 35 minutes in fragmentation buffer (GeneChip Sample Cleanup, Qiagen) and the fragmented cRNA was then hybridized competitively against the Affymetrix 430 2.0 Array oligonucleotide array. Hybridization occurred at 47°C overnight. The arrays were scanned using a GeneArray 2500 Scanner (Affymetrix) and analyzed using MicroArray Suite 5.0 (Affymetrix). All experiments were validated after direct measures of cRNA quality: 5':3' ratios for beta-actin and for GAPDH (determined from Affymetrix chip hybridization analysis) are indirect indicators of overall RNA preservation. The default parameters were used for the statistical algorithm and for probe set scaling. The target intensity was set to 1,000 to normalize expression levels across all samples.
GSM67531
GPL339
nmd treated 1 lumbar spinal cord B6.BKS Ighmbp2nmd-2J mouse 6 weeks of age male Intratechally transplanted with Spinal cord derived Neural Stem Cells We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age.
GSM67532
GPL339
nmd treated 2 lumbar spinal cord B6.BKS Ighmbp2nmd-2J mouse 6 weeks of age male Intratechally transplanted with Spinal cord derived Neural Stem Cells We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age.
GSM67533
GPL339
nmd treated 3 lumbar spinal cord B6.BKS Ighmbp2nmd-2J mouse 6 weeks of age male Intratechally transplanted with Spinal cord derived Neural Stem Cells We analyzed the lumbar spinal cord tract of transplanted nmd mice (n=3), untransplanted nmd mice (n=3) and wild-type mice (n=3) (all mice are of male gender). The latter groups underwent surgical procedure with vehicle. The surgical procedure and spinal cord-derived neural stem cell transplantation (intratechal injection) were done at P1 and the animals were sacrificed at 6 weeks of age.
 
 
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