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| Status |
Public on Jun 22, 2021 |
| Title |
miRNA profiling in human precision-cut lung slices (PCLS) |
| Platform organism |
synthetic construct |
| Sample organism |
Homo sapiens |
| Experiment type |
Non-coding RNA profiling by array
Third-party reanalysis
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| Summary |
Transcriptome analysis revealed miRNA profiles from PCLS of tumor-free tissue comparable to normal lung tissue
Suitability of human PCLS as a model for lung-specific miRNA investigations by RTqPCR and microarray analyses
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| Overall design |
miRNA profiles from human PCLS of tumor-free tissues in n = 10 donors were obtained by GeneChip™ miRNA 4.0 Arrays. To determine their use for gene expression analysis, the miRNA profiles (tumor-free tissues) were compared to miRNA profiles (also obtained by GeneChip™ miRNA 4.0 Arrays) of n = 9 human PCLS treated with low dose (LD) 0.1 mM; medium dose (MD) 0.3 mM; and high dose (HD) 1 mM of methyl acrylate. To determine whether the expression levels of certain lung-disease associated miRNAs expressed in the human PCLS of tumor-free tissue comparable to miRNA expression levels in ‘healthy’ lung, we searched for published miRNA data from human lungs. CEL Files from GSE81203 obtained by GeneChip™ miRNA 3.0 Array were downloaded from GEO and were re-analyzed TAC 4.0, using Affymetrix default settings and RMA normalization. Lung disease-related miRNAs with average signal (log2) intensity > 6 in the human PCLS of tumor-free tissues were compared manually to corresponding average signal (log2) intensity in the ‘healthy’ lung samples (GSE81203).
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| Contributor(s) |
Reamon-Buettner SM, Niehof M |
| Citation(s) |
34215333 |
| Submission date |
Feb 26, 2021 |
| Last update date |
Jul 05, 2021 |
| Contact name |
Stella Marie Reamon-Buettner |
| E-mail(s) |
stella.reamon-buettner@item.fraunhofer.de
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| Phone |
+49 511 5350 527
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| Organization name |
Fraunhofer-ITEM
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| Department |
Preclinical Pharmacology & In Vitro Toxicology
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| Street address |
Nikolai-Fuchs Strasse1
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| City |
Hannover |
| ZIP/Postal code |
30625 |
| Country |
Germany |
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| Platforms (1) |
| GPL21572 |
[miRNA-4] Affymetrix Multispecies miRNA-4 Array [ProbeSet ID version] |
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| Samples (19)
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| GSM5111972 |
PCLS, medium control (H11-6) |
| GSM5111973 |
PCLS, medium control (H13-10) |
| GSM5111974 |
PCLS, medium control (H17-16) |
| GSM5111975 |
PCLS, medium control (H20-21) |
| GSM5111976 |
PCLS, medium control (H24-27) |
| GSM5111977 |
PCLS, medium control (H25-30) |
| GSM5111978 |
PCLS, medium control (H26-36) |
| GSM5111979 |
PCLS, low dose (D2-LD) |
| GSM5111980 |
PCLS, low dose (D3-LD) |
| GSM5111981 |
PCLS, low dose (D4-LD) |
| GSM5111982 |
PCLS, medium dose (D2-MD) |
| GSM5111983 |
PCLS, medium dose (D3-MD) |
| GSM5111984 |
PCLS, medium dose (D4-MD) |
| GSM5111985 |
PCLS, high dose (D2-HD) |
| GSM5111986 |
PCLS, high dose (D3-HD) |
| GSM5111987 |
PCLS, high dose (D4-HD) |
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| Relations |
| Reanalysis of |
GSM2149870 |
| Reanalysis of |
GSM2149871 |
| Reanalysis of |
GSM2149872 |
| Reanalysis of |
GSM2149873 |
| Reanalysis of |
GSM2149874 |
| Reanalysis of |
GSM2149875 |
| Reanalysis of |
GSM2149876 |
| Reanalysis of |
GSM2149877 |
| Reanalysis of |
GSM2149878 |
| Reanalysis of |
GSM2149879 |
| Reanalysis of |
GSM2149880 |
| Reanalysis of |
GSM2149881 |
| Reanalysis of |
GSM2149882 |
| Reanalysis of |
GSM2149883 |
| Reanalysis of |
GSM2149884 |
| Reanalysis of |
GSM2149885 |
| Reanalysis of |
GSM2149886 |
| Reanalysis of |
GSM2149887 |
| Reanalysis of |
GSM2149888 |
| Reanalysis of |
GSM2149889 |
| BioProject |
PRJNA705600 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE167705_GSM2149870_RL_B5_23.rma-dabg.chp.gz |
275.7 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149871_RL_B1_14.rma-dabg.chp.gz |
274.8 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149872_RL_A4_05.rma-dabg.chp.gz |
274.4 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149873_RL_A5_07.rma-dabg.chp.gz |
275.3 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149874_RL_B7_28.rma-dabg.chp.gz |
274.9 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149875_RL_C1_31.rma-dabg.chp.gz |
273.6 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149876_RL_A6_08.rma-dabg.chp.gz |
275.2 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149877_RL_A8_13.rma-dabg.chp.gz |
274.6 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149878_RL_B4_22.rma-dabg.chp.gz |
275.1 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149879_RL_A2_02.rma-dabg.chp.gz |
274.6 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149880_RL_A3_03.rma-dabg.chp.gz |
275.1 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149881_RL_A7_11.rma-dabg.chp.gz |
275.0 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149882_RL_B2_16.rma-dabg.chp.gz |
274.8 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149883_RL_B3_17.rma-dabg.chp.gz |
275.0 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149884_RL_B6_26.rma-dabg.chp.gz |
274.9 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149885_RL_C2_HC1.rma-dabg.chp.gz |
275.9 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149886_RL_C3_HC2.rma-dabg.chp.gz |
275.3 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149887_RL_C4_HC3.rma-dabg.chp.gz |
276.4 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149888_RL_C5_HC4.rma-dabg.chp.gz |
275.3 Kb |
(ftp)(http) |
CHP |
| GSE167705_GSM2149889_RL_C6_HC5.rma-dabg.chp.gz |
275.3 Kb |
(ftp)(http) |
CHP |
| GSE167705_RAW.tar |
19.7 Mb |
(http)(custom) |
TAR (of CEL, CHP) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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