Global functional genomics reveals GRK5 as a cystic fibrosis therapeutic target synergistic with current modulators

Authors: Hugo M. Botelho, Miquéias Lopes-Pacheco, Madalena C. Pinto, Violeta Railean, Ines Pankonien, Mariana F. Caleiro, Luka A. Clarke, Vasco Cachatra, Beate Neumann, Christian Tischer, Cristina Moiteiro, Jiraporn Ousingsawat, Karl Kunzelmann, Rainer Pepperkok, Margarida D. Amaral

Source: iScience, Vol 28, Iss 3, Pp 111942- (2025)

Subject Terms: Cell biology, Functional genomics, Science

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2589004225002020; https://doaj.org/toc/2589-0042

Access URL: https://doaj.org/article/2bc0cff47acc422e867718e3b48d7880

What Can RNA-Based Therapy Do for Monogenic Diseases?

Authors: Luka A. Clarke, Margarida D. Amaral

Source: Pharmaceutics, Vol 15, Iss 1, p 260 (2023)

Subject Terms: personalized medicine, monogenic disorders, premature termination codon mutations, splicing mutations, mRNA, antisense oligonucleotides, Pharmacy and materia medica, RS1-441

File Description: electronic resource

Relation: https://www.mdpi.com/1999-4923/15/1/260; https://doaj.org/toc/1999-4923

Access URL: https://doaj.org/article/19f8df4aff7945b08c237b0fb156498b

Enhanced Expression of Human Epididymis Protein 4 (HE4) Reflecting Pro-Inflammatory Status Is Regulated by CFTR in Cystic Fibrosis Bronchial Epithelial Cells

Authors: Zsolt Bene, Zsolt Fejes, Tibor Gabor Szanto, Ferenc Fenyvesi, Judit Váradi, Luka A. Clarke, Gyorgy Panyi, Milan Macek, Margarida D. Amaral, István Balogh, Béla Nagy

Source: Frontiers in Pharmacology, Vol 12 (2021)

Subject Terms: cystic fibrosis, inflammation, bronchial epithelial cell, HE4, CFTR modulator, Therapeutics. Pharmacology, RM1-950

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fphar.2021.592184/full; https://doaj.org/toc/1663-9812

Access URL: https://doaj.org/article/77715d92d7524ce09a90bf902985221f

BO-LSTM: classifying relations via long short-term memory networks along biomedical ontologies

Authors: Andre Lamurias, Diana Sousa, Luka A. Clarke, Francisco M. Couto

Source: BMC Bioinformatics, Vol 20, Iss 1, Pp 1-12 (2019)

Subject Terms: Text mining, Drug-drug interactions, Deep learning, Long short term memory, Relation extraction, Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://link.springer.com/article/10.1186/s12859-018-2584-5; https://doaj.org/toc/1471-2105

Access URL: https://doaj.org/article/3e90fd38021345a8bae83949f23f90af

Measurements of Functional Responses in Human Primary Lung Cells as a Basis for Personalized Therapy for Cystic Fibrosis

Authors: Nikhil T. Awatade, Inna Uliyakina, Carlos M. Farinha, Luka A. Clarke, Karina Mendes, Amparo Solé, Juan Pastor, Maria Margarida Ramos, Margarida D. Amaral

Source: EBioMedicine, Vol 2, Iss 2, Pp 147-153 (2015)

Subject Terms: Innovative treatments, Mutation-specific therapies, Personalized medicine, Rare diseases, Medicine, Medicine (General), R5-920

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2352396414000577; https://doaj.org/toc/2352-3964

Access URL: https://doaj.org/article/c8f45f3ca0f24029b2da7b6c15d75a5c

Generating a Tolerogenic Cell Therapy Knowledge Graph from Literature

Authors: Andre Lamurias, João D. Ferreira, Luka A. Clarke, Francisco M. Couto

Source: Frontiers in Immunology, Vol 8 (2017)

Subject Terms: tolerogenic therapy, text mining, knowledge graph, cytokines, machine learning, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: http://journal.frontiersin.org/article/10.3389/fimmu.2017.01656/full; https://doaj.org/toc/1664-3224

Access URL: https://doaj.org/article/dc7252a7741a4b3d84ba86b05ac9b7e9

The replication timing of CFTR and adjacent genes.

Authors: Andreas Englmann, Luka A. Clarke, Susanne Christan, Margarida D. Amaral, Dirk Schindelhauer, Daniele Zink

Source: Chromosome Research; Mar2005, Vol. 13 Issue 2, p183-194, 12p

Subject Terms: CYSTIC fibrosis, GENES, GENETIC disorders, CHROMOSOMES

KLF4 Acts as a wt-CFTR Suppressor through an AKT-Mediated Pathway

Authors: Luis Sousa, Ines Pankonien, Luka A Clarke, Iris Silva, Karl Kunzelmann, Margarida D Amaral

Source: Cells, Vol 9, Iss 7, p 1607 (2020)

Subject Terms: cystic fibrosis, KLF2, KLF5, epithelial differentiation, AKT signaling, CFTR, Cytology, QH573-671

File Description: electronic resource

Relation: https://www.mdpi.com/2073-4409/9/7/1607; https://doaj.org/toc/2073-4409

Access URL: https://doaj.org/article/21907bc5d5b74a879ff37f6cb16cd3a8

Extracting microRNA-gene relations from biomedical literature using distant supervision.

Authors: Andre Lamurias, Luka A Clarke, Francisco M Couto

Source: PLoS ONE, Vol 12, Iss 3, p e0171929 (2017)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/1932-6203

Access URL: https://doaj.org/article/361cdfc3456a4b2289bf7da6806a5e40

GRYFUN: a web application for GO term annotation visualization and analysis in protein sets.

Authors: Hugo P Bastos, Lisete Sousa, Luka A Clarke, Francisco M Couto

Source: PLoS ONE, Vol 10, Iss 3, p e0119631 (2015)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/1932-6203

Access URL: https://doaj.org/article/740107a7164342aa99c827e83c1ac835

Annotation extension through protein family annotation coherence metrics

Authors: Hugo Paulo Bastos, Luka Alexander Clarke, Francisco eCouto

Source: Frontiers in Genetics, Vol 4 (2013)

Subject Terms: functional annotation, gene ontology, Annotation Extension, Protein Annotation Coherence, Annotation Metrics, Genetics, QH426-470

File Description: electronic resource

Relation: http://journal.frontiersin.org/Journal/10.3389/fgene.2013.00201/full; https://doaj.org/toc/1664-8021

Access URL: https://doaj.org/article/7f22848c465d4f828506295081d10b97