Home   Search   Browse   Statistics   User guide   FAQs   Post question   Download   Process data  
Search results for the GEO ID: GSE12800
(Click on the check boxes provided under "Select for analysis", to initiate grouping)
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down)
GSM ID
GPL ID
Select for analysis
Title
Source name
Description
Characteristics
GSM321236
GPL96
Passage 1 Mesenchymal stem cells 5 days in culture Passage 1 Mesenchymal stem cells from bone marrow stroma cultured for 5 days Bone marrow aspirate of about 2 ml from a healthy donor 19-49 years old was used to separate plastic adherent nucleated cells. After 14 days in culture, adherent cells were recovered from the monolayer by incubation with trypsin/EDTA and replated at 100 cells/cm2. The cells were then cultured for 5 days with changes of medium every 2–3 days. The culturing of cells was done in hMSC complete medium (alpha-minimal essential medium, 20% fetal calf serum (FCS), 100 units/ml penicillin, 100 ug/ml streptomycin, 2 mM glutamine). Bone marrow aspirate of about 2 ml from a healthy donor 19-49 years old was used to separate plastic adherent nucleated cells. After 14 days in culture, adherent cells were recovered from the monolayer by incubation with trypsin/EDTA and replated at 100 cells/cm2. The cells were then cultured for 5 days with changes of medium every 2–3 days. The culturing of cells was done in hMSC complete medium (alpha-minimal essential medium, 20% fetal calf serum (FCS), 100 units/ml penicillin, 100 ug/ml streptomycin, 2 mM glutamine). Total RNA was extracted from 1 million cells using High Pure Kit (Roche Diagnostics). 8 ug of total RNA was used to synthesize double-stranded DNA (Superscript Choice System; Invitrogen). The DNA was purified by phenol/chloroform extraction and concentrated by ethanol precipitation. In vitro transcription was performed to produce biotin-labeled cRNA using a BioArray HighYield RNA transcription labeling kit (Enzo Diagnostics). Biotinylated cRNA was cleaned with the RNeasy minikit (Qiagen) and quantified. 25 ug of biotinylated cRNA was fragmented to 50–200 nucleotides and hybridized for 16 h at 45 °C into HG-U133A array. After washing, the array was stained with streptavidin/phycoerythrin (Molecular Probes). Staining signal was amplified by biotinylated anti-streptavidin (Vector Laboratories Inc.) followed by secondary staining with streptavidin/phycoerythrin. The array was scanned on a Hewlett-Packard GeneArray Scanner. The data was analyzed using Microarray Suite 5.0 (Affymetrix) and dChip 1.3+ programs. The arrays in the set were normalized against the baseline array with a median probe intensity level (Day5, [235]). Model based expression values were calculated in dChip using the signals form perfect-match and mis-match oligonucelotides. Negative values were assigned a value of 1.
GSM321237
GPL96
Passage 1 mesenchymal stem cells 10 days in culture Passage 1 mesenchymal stem cells from bone marrow stroma cultured for 10 days Bone marrow aspirate of about 2 ml from a healthy donor 19-49 years old was used to separate plastic adherent nucleated cells. After 14 days in culture, adherent cells were recovered from the monolayer by incubation with trypsin/EDTA and replated at 100 cells/cm2. The cells were then cultured for 10 days with changes of medium every 2–3 days. The culturing of cells was done in hMSC complete medium (alpha-minimal essential medium, 20% fetal calf serum (FCS), 100 units/ml penicillin, 100 ug/ml streptomycin, 2 mM glutamine). Bone marrow aspirate of about 2 ml from a healthy donor 19-49 years old was used to separate plastic adherent nucleated cells. After 14 days in culture, adherent cells were recovered from the monolayer by incubation with trypsin/EDTA and replated at 100 cells/cm2. The cells were then cultured for 10 days with changes of medium every 2–3 days. The culturing of cells was done in hMSC complete medium (alpha-minimal essential medium, 20% fetal calf serum (FCS), 100 units/ml penicillin, 100 ug/ml streptomycin, 2 mM glutamine). Total RNA was extracted from 1 million cells using High Pure Kit (Roche Diagnostics). 8 ug of total RNA was used to synthesize double-stranded DNA (Superscript Choice System; Invitrogen). The DNA was purified by phenol/chloroform extraction and concentrated by ethanol precipitation. In vitro transcription was performed to produce biotin-labeled cRNA using a BioArray HighYield RNA transcription labeling kit (Enzo Diagnostics). Biotinylated cRNA was cleaned with the RNeasy minikit (Qiagen) and quantified. 25 ug of biotinylated cRNA was fragmented to 50–200 nucleotides and hybridized for 16 h at 45 °C into HG-U133A array. After washing, the array was stained with streptavidin/phycoerythrin (Molecular Probes). Staining signal was amplified by biotinylated anti-streptavidin (Vector Laboratories Inc.) followed by secondary staining with streptavidin/phycoerythrin. The array was scanned on a Hewlett-Packard GeneArray Scanner. The data was analyzed using Microarray Suite 5.0 (Affymetrix) and dChip 1.3+ programs. The arrays in the set were normalized against the baseline array with a median probe intensity level (Day5, [235]). Model based expression values were calculated in dChip using the signals form perfect-match and mis-match oligonucelotides. Negative values were assigned a value of 1.
GSM321243
GPL96
Passage 1 mesenchymal stem cells 15 days in culture Passage 1 mesenchymal stem cells from bone marrow stroma cultured for 15 days Bone marrow aspirate of about 2 ml from a healthy donor 19-49 years old was used to separate plastic adherent nucleated cells. After 14 days in culture, adherent cells were recovered from the monolayer by incubation with trypsin/EDTA and replated at 100 cells/cm2. The cells were then cultured for 15 days with changes of medium every 2–3 days. The culturing of cells was done in hMSC complete medium (alpha-minimal essential medium, 20% fetal calf serum (FCS), 100 units/ml penicillin, 100 ug/ml streptomycin, 2 mM glutamine). Bone marrow aspirate of about 2 ml from a healthy donor 19-49 years old was used to separate plastic adherent nucleated cells. After 14 days in culture, adherent cells were recovered from the monolayer by incubation with trypsin/EDTA and replated at 100 cells/cm2. The cells were then cultured for 15 days with changes of medium every 2–3 days. The culturing of cells was done in hMSC complete medium (alpha-minimal essential medium, 20% fetal calf serum (FCS), 100 units/ml penicillin, 100 ug/ml streptomycin, 2 mM glutamine). Total RNA was extracted from 1 million cells using High Pure Kit (Roche Diagnostics). 8 ug of total RNA was used to synthesize double-stranded DNA (Superscript Choice System; Invitrogen). The DNA was purified by phenol/chloroform extraction and concentrated by ethanol precipitation. In vitro transcription was performed to produce biotin-labeled cRNA using a BioArray HighYield RNA transcription labeling kit (Enzo Diagnostics). Biotinylated cRNA was cleaned with the RNeasy minikit (Qiagen) and quantified. 25 ug of biotinylated cRNA was fragmented to 50–200 nucleotides and hybridized for 16 h at 45 °C into HG-U133A array. After washing, the array was stained with streptavidin/phycoerythrin (Molecular Probes). Staining signal was amplified by biotinylated anti-streptavidin (Vector Laboratories Inc.) followed by secondary staining with streptavidin/phycoerythrin. The array was scanned on a Hewlett-Packard GeneArray Scanner. The data was analyzed using Microarray Suite 5.0 (Affymetrix) and dChip 1.3+ programs. The arrays in the set were normalized against the baseline array with a median probe intensity level (Day5, [235]). Model based expression values were calculated in dChip using the signals form perfect-match and mis-match oligonucelotides. Negative values were assigned a value of 1.
 
 
Make groups for comparisons
(2 groups will be compared at a time)
Select GSMs and click on "Add groups"
Enter the group name here:


Select expression type
Transcripts profile based on;
A. Differential status (Up/Down regulation)
B. Absolute calls (Transcribed/Not-detected)
 
Filter results by number of probes