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EnglishChronic Obstructive Pulmonary Disease (COPD) and Idiopathic Pulmonary Fibrosis (IPF) have contrasting clinical and pathological characteristics and interesting whole-genome transcriptomic profiles. However, data from public repositories are difficult to reprocess and reanalyze. Here, we present PulmonDB, a web-based database (http://pulmondb.liigh.unam.mx/) and R library that facilitates exploration of gene expression profiles for these diseases by integrating transcriptomic data and curated annotation from different sources. We demonstrated the value of this resource by presenting the expression of already well-known genes of COPD and IPF across multiple experiments and the results of two differential expression analyses in which we successfully identified differences and similarities. With this first version of PulmonDB, we create a new hypothesis and compare the two diseases from a transcriptomics perspective.
Villaseñor-Altamirano, A.B.; Moretto, M.; Maldonado, M.; Zayas-Del Moral, A.; Munguía-Reyes, A.; Romero, Y.; García-Sotelo, J.S.; Aguilar, L.A.; Aldana-Assad, O.; Engelen, K.; Selman, M.; Collado-Vides, J.; Balderas-Martínez, Y.I.; Medina-Rivera, A. (2020). PulmonDB: a curated lung disease gene expression database. SCIENTIFIC REPORTS, 10 (1): 514. doi: 10.1038/s41598-019-56339-5 handle: http://hdl.handle.net/10449/64831
| Citation: | Villaseñor-Altamirano, A.B.; Moretto, M.; Maldonado, M.; Zayas-Del Moral, A.; Munguía-Reyes, A.; Romero, Y.; García-Sotelo, J.S.; Aguilar, L.A.; Aldana-Assad, O.; Engelen, K.; Selman, M.; Collado-Vides, J.; Balderas-Martínez, Y.I.; Medina-Rivera, A. (2020). PulmonDB: a curated lung disease gene expression database. SCIENTIFIC REPORTS, 10 (1): 514. doi: 10.1038/s41598-019-56339-5 handle: http://hdl.handle.net/10449/64831 |
| Internal authors: | |
| Organization unit: | CRI [2016-02 - today]: UNIT OF COMPUTATIONAL BIOLOGY |
| Authors: | Villaseñor-Altamirano, A.B.; Moretto, M.; Maldonado, M.; Zayas-Del Moral, A.; Munguía-Reyes, A.; Romero, Y.; García-Sotelo, J.S.; Aguilar, L.A.; Aldana-Assad, O.; Engelen, K.; Selman, M.; Collado-Vides, J.; Balderas-Martínez, Y.I.; Medina-Rivera, A. |
| Title: | PulmonDB: a curated lung disease gene expression database |
| Journal: | SCIENTIFIC REPORTS |
| Issue Date: | 2020 |
| Scientific Disciplinary Area: | Settore BIO/11 - BIOLOGIA MOLECOLARE |
| Language: | English |
| IF: | With Impact Factor ISI |
| Publication status: | Published |
| Nature of content: | Articolo in rivista/Article |
| Digital Object Identifier (DOI): | http://dx.doi.org/10.1038/s41598-019-56339-5 |
| Appears in Collections: | 01 - Journal article |
Files in This Item:
| File | Description | Type | License | |
|---|---|---|---|---|
| 2020 SR Moretto et al.pdf | Versione editoriale (Publisher’s layout) |  | Open AccessView/Open |
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