 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Mar 07, 2016 |
| Title |
Temporal analysis of RNA turnover in Interferon Gamma treated bone marrow-derived macrophages |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
|
| Summary |
Interferon gamma treatment of macrophages results in hundreds if not thousands of alterations in gene expression and an antiviral state being established in these cells. Little is known about relationship between transcript synthesis, abundance and decay in macrophages during the first hours after interferon gamma treatment and how these factors influence the antiviral cellular phenotype.
Microarrays were used to analyse alterations in transcript synthesis and abundance in BMDM treated with Interferon Gamma for 8h.
|
| |
|
| Overall design |
Bone Marrow derived macrophages (BMDM) were grown using L929 conditioned medium. On day 7, BMDM were mock-treated (16x 15cm dishes) or treated (16x 15cm dishes) with 10U/ml interferon gamma at time zero. 4-thiouridine (4sU) was then used to label newly transcribed RNA every 30 minutes for 8h (0 to 30, 30 to 60 etc. to give 16 discrete successive labellings) in mock and interferon gamma-treated samples. 16x Mock and 16x treated total samples were then isolated (32 in total) and newly transcribed RNA isolated from each total RNA sample using a protocol described in Dolken et al (PMID: 18658122). For analysis, 32 (16x mock and 16x treated) newly-transcribed RNA samples (every 30 minutes for complete 8h time course) and 16 (8x mock and 8x treated) total RNA samples (every hour for 8h time course) were hybridized to Affymetrix GeneST v1.0 arrays.
|
| |
|
| Contributor(s) |
Robertson KA, Ghazal P |
| Citation(s) |
26938778 |
| |
| Submission date |
Nov 14, 2014 |
| Last update date |
Mar 04, 2019 |
| Contact name |
Peter Ghazal |
| E-mail(s) |
p.ghazal@ed.ac.uk
|
| Phone |
+44 131 242 6284
|
| Organization name |
University of Edinburgh
|
| Department |
Division of Infection and Pathway Medicine
|
| Street address |
49 Little France Crescent
|
| City |
Edinburgh |
| State/province |
Lothian |
| ZIP/Postal code |
EH16 4SB |
| Country |
United Kingdom |
| |
|
| Platforms (1) |
| GPL6246 |
[MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [transcript (gene) version] |
|
| Samples (47)
|
| GSM1545103 |
BMDM t=0 to 30 mins, Mock, newly transcribed RNA |
| GSM1545104 |
BMDM t=0 to 30 mins, Ifng, newly transcribed RNA |
| GSM1545105 |
BMDM t=30 to 60 mins, Mock, newly transcribed RNA |
| GSM1545106 |
BMDM t=30 to 60 mins, Ifng, newly transcribed RNA |
| GSM1545107 |
BMDM t=60 to 90 mins, Mock, newly transcribed RNA |
| GSM1545108 |
BMDM t=60 to 90 mins, Ifng, newly transcribed RNA |
| GSM1545109 |
BMDM t=90 to 120 mins, Mock, newly transcribed RNA |
| GSM1545110 |
BMDM t=90 to 120 mins, Ifng, newly transcribed RNA |
| GSM1545111 |
BMDM t=120 to 150 mins, Mock, newly transcribed RNA |
| GSM1545112 |
BMDM t=120 to 150 mins, Ifng, newly transcribed RNA |
| GSM1545113 |
BMDM t=150 to 180 mins, Mock, newly transcribed RNA |
| GSM1545114 |
BMDM t=150 to 180 mins, Ifng, newly transcribed RNA |
| GSM1545115 |
BMDM t=180 to 210 mins, Mock, newly transcribed RNA |
| GSM1545116 |
BMDM t=180 to 210 mins, Ifng, newly transcribed RNA |
| GSM1545117 |
BMDM t=210 to 240 mins, Mock, newly transcribed RNA |
| GSM1545118 |
BMDM t=210 to 240 mins, Ifng, newly transcribed RNA |
| GSM1545119 |
BMDM t=240 to 270 mins, Mock, newly transcribed RNA |
| GSM1545120 |
BMDM t=270 to 300 mins, Mock, newly transcribed RNA |
| GSM1545121 |
BMDM t=270 to 300 mins, Ifng, newly transcribed RNA |
| GSM1545122 |
BMDM t=300 to 330 mins, Mock, newly transcribed RNA |
| GSM1545123 |
BMDM t=300 to 330 mins, Ifng, newly transcribed RNA |
| GSM1545124 |
BMDM t=330 to 360 mins, Mock, newly transcribed RNA |
| GSM1545125 |
BMDM t=330 to 360 mins, Ifng, newly transcribed RNA |
| GSM1545126 |
BMDM t=360 to 390 mins, Mock, newly transcribed RNA |
| GSM1545127 |
BMDM t=360 to 390 mins, Ifng, newly transcribed RNA |
| GSM1545128 |
BMDM t=390 to 420 mins, Mock, newly transcribed RNA |
| GSM1545129 |
BMDM t=390 to 420 mins, Ifng, newly transcribed RNA |
| GSM1545130 |
BMDM t=420 to 450 mins, Mock, newly transcribed RNA |
| GSM1545131 |
BMDM t=420 to 450 mins, Ifng, newly transcribed RNA |
| GSM1545132 |
BMDM t=450 to 480 mins, Mock, newly transcribed RNA |
| GSM1545133 |
BMDM t=450 to 480 mins, Ifng, newly transcribed RNA |
| GSM1545134 |
BMDM t=0 to 30 mins, Mock, total RNA |
| GSM1545135 |
BMDM t=0 to 30 mins, Ifng, total RNA |
| GSM1545136 |
BMDM t=60 to 90 mins, Mock, total RNA |
| GSM1545137 |
BMDM t=60 to 90 mins, Ifng, total RNA |
| GSM1545138 |
BMDM t=120 to 150 mins, Mock, total RNA |
| GSM1545139 |
BMDM t=120 to 150 mins, Ifng, total RNA |
| GSM1545140 |
BMDM t=180 to 210 mins, Mock, total RNA |
| GSM1545141 |
BMDM t=180 to 210 mins, Ifng, total RNA |
| GSM1545142 |
BMDM t=240 to 270 mins, Mock, total RNA |
| GSM1545143 |
BMDM t=240 to 270 mins, Ifng, total RNA |
| GSM1545144 |
BMDM t=300 to 330 mins, Mock, total RNA |
| GSM1545145 |
BMDM t=300 to 330 mins, Ifng, total RNA |
| GSM1545146 |
BMDM t=360 to 390 mins, Mock, total RNA |
| GSM1545147 |
BMDM t=360 to 390 mins, Ifng, total RNA |
| GSM1545148 |
BMDM t=420 to 450 mins, Mock, total RNA |
| GSM1545149 |
BMDM t=420 to 450 mins, Ifng, total RNA |
|
| Relations |
| BioProject |
PRJNA267204 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE63290_RAW.tar |
169.9 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
|
|
|
|
 |
Less...
More...