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| Status |
Public on May 19, 2021 |
| Title |
Whole-genome methylation study of congenital lung malformations in children |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by genome tiling array
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| Summary |
The treatment of asymptomatic patients with congenital pulmonary malformations (CPMs) remains controversial, partially because the relationship between congenital lung malformations and malignancy is still undefined. Change in methylation pattern is a crucial event in human cancer, including lung cancer. We therefore studied all differentially methylated regions (DMRs) in a series of CPMs in an attempt to find methylation anomalies in genes already described in association with malignancy. The DNA extracted from resected congenital lung malformations and control lung tissue was screened using Illumina MethylationEPIC arrays. Comparison between the group of malformed samples or the malformed samples of same histology or each malformed sample and the controls, and between a pleuropulmonary blastoma (PPB) and controls were performed. All differentially methylated regions (DMRs) with an adjusted p value < 0,05 were studied. Every comparison highlighted a number of DMRs closed to genes involved either in cell proliferation or in embryonic development or included in the Cancer Gene Census. Their abnormal methylation had been already described in lung tumors. The presence of methylation abnormalities is suggestive of a correlation between congenital lung malformations and some step of malignant transformation.
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| Overall design |
29 total fresh-frozen paediatric lung samples: 8 healthy lung tissues, 1 Pleuropulmonary Blastoma sample, 20 Congenital Pulmonary Malformation tissues
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| Contributor(s) |
Patrizi S, Pederiva F, d'Adamo AP |
| Citation(s) |
34262872 |
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| Submission date |
May 18, 2021 |
| Last update date |
Aug 18, 2021 |
| Contact name |
Sara Patrizi |
| E-mail(s) |
sara.patrizi94@gmail.com
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| Organization name |
University of Trieste
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| Street address |
via dell'Istria 65
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| City |
Trieste |
| ZIP/Postal code |
34137 |
| Country |
Italy |
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| Platforms (1) |
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| Samples (29)
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| GSM5320711 |
Congenital Pulmonary Malformation, patient 1 |
| GSM5320712 |
Congenital Pulmonary Malformation, patient 2 |
| GSM5320713 |
Congenital Pulmonary Malformation, patient 3 |
| GSM5320714 |
Congenital Pulmonary Malformation, patient 4 |
| GSM5320715 |
Congenital Pulmonary Malformation, patient 5 |
| GSM5320716 |
Congenital Pulmonary Malformation, patient 6 |
| GSM5320717 |
Congenital Pulmonary Malformation, patient 7 |
| GSM5320718 |
Congenital Pulmonary Malformation, patient 8 |
| GSM5320719 |
Congenital Pulmonary Malformation, patient 9 |
| GSM5320720 |
Congenital Pulmonary Malformation, patient 10, malformation A |
| GSM5320721 |
Congenital Pulmonary Malformation, patient 10, malformation B |
| GSM5320722 |
Congenital Pulmonary Malformation, patient 11 |
| GSM5320723 |
Congenital Pulmonary Malformation, patient 12 |
| GSM5320724 |
Congenital Pulmonary Malformation, patient 13 |
| GSM5320725 |
Congenital Pulmonary Malformation, patient 14 |
| GSM5320726 |
Congenital Pulmonary Malformation, patient 15 |
| GSM5320727 |
Congenital Pulmonary Malformation, patient 16 |
| GSM5320728 |
Congenital Pulmonary Malformation, patient 17 |
| GSM5320729 |
Congenital Pulmonary Malformation, patient 18, malformation A |
| GSM5320730 |
Congenital Pulmonary Malformation, patient 18, malformation B |
| GSM5320731 |
Healthy lung tissue, patient PM21 |
| GSM5320732 |
Pleuropulmonary Blastoma tissue, patient PM23 |
| GSM5320733 |
Healthy lung tissue, patient 9 |
| GSM5320734 |
Healthy lung tissue, patient 10 |
| GSM5320735 |
Healthy lung tissue, patient 11 |
| GSM5320736 |
Healthy lung tissue, patient 12 |
| GSM5320737 |
Healthy lung tissue, patient 13 |
| GSM5320738 |
Healthy lung tissue, patient 14 |
| GSM5320739 |
Healthy lung tissue, patient 17 |
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| Relations |
| BioProject |
PRJNA730816 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE174625_RAW.tar |
574.8 Mb |
(http)(custom) |
TAR (of IDAT) |
| GSE174625_matrix_processed.txt.gz |
169.5 Mb |
(ftp)(http) |
TXT |
| GSE174625_matrix_signal_intensities.txt.gz |
126.4 Mb |
(ftp)(http) |
TXT |
| Processed data are available on Series record |
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