Benchmarking of cell type deconvolution pipelines for transcriptomics data
Avila Cobos, Francisco, Alquicira-Hernandez, José, Powell, Joseph E., Mestdagh, Pieter, De Preter, Katleen
Published in Nature communications (06.11.2020)
Published in Nature communications (06.11.2020)
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Journal Article
Long noncoding RNA expression profiling in cancer: Challenges and opportunities
Lorenzi, Lucía, Avila Cobos, Francisco, Decock, Anneleen, Everaert, Celine, Helsmoortel, Hetty, Lefever, Steve, Verboom, Karen, Volders, Pieter‐Jan, Speleman, Frank, Vandesompele, Jo, Mestdagh, Pieter
Published in Genes chromosomes & cancer (01.04.2019)
Published in Genes chromosomes & cancer (01.04.2019)
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Journal Article
MicroRNA Profiling Reveals a Role for MicroRNA-218-5p in the Pathogenesis of Chronic Obstructive Pulmonary Disease
Conickx, Griet, Mestdagh, Pieter, Avila Cobos, Francisco, Verhamme, Fien M, Maes, Tania, Vanaudenaerde, Bart M, Seys, Leen J M, Lahousse, Lies, Kim, Richard Y, Hsu, Alan C, Wark, Peter A, Hansbro, Philip M, Joos, Guy F, Vandesompele, Jo, Bracke, Ken R, Brusselle, Guy G
Published in American journal of respiratory and critical care medicine (01.01.2017)
Published in American journal of respiratory and critical care medicine (01.01.2017)
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Journal Article
Asthma inflammatory phenotypes show differential microRNA expression in sputum
Maes, Tania, PhD, Cobos, Francisco Avila, MSc, Schleich, Florence, MD, PhD, Sorbello, Valentina, PhD, Henket, Monique, MLT, De Preter, Katleen, PhD, Bracke, Ken R., PhD, Conickx, Griet, Pharm, Mesnil, Claire, PhD, Vandesompele, Jo, PhD, Lahousse, Lies, PhD, Bureau, Fabrice, PhD, Mestdagh, Pieter, PhD, Joos, Guy F., MD, PhD, Ricciardolo, Fabio L.M., MD, PhD, Brusselle, Guy G., MD, PhD, Louis, Renaud, MD, PhD
Published in Journal of allergy and clinical immunology (01.05.2016)
Published in Journal of allergy and clinical immunology (01.05.2016)
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Journal Article
Web Resource
microRNA profiling in lung tissue and bronchoalveolar lavage of cigarette smoke-exposed mice and in COPD patients: a translational approach
Conickx, Griet, Avila Cobos, Francisco, van den Berge, Maarten, Faiz, Alen, Timens, Wim, Hiemstra, Pieter S., Joos, Guy F., Brusselle, Guy G., Mestdagh, Pieter, Bracke, Ken R.
Published in Scientific reports (09.10.2017)
Published in Scientific reports (09.10.2017)
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Journal Article
A comprehensive custom panel evaluation for routine hereditary cancer testing: improving the yield of germline mutation detection
Velázquez, Carolina, Lastra, Enrique, Avila Cobos, Francisco, Abella, Luis, de la Cruz, Virginia, Hernando, Blanca Ascensión, Hernández, Lara, Martínez, Noemí, Infante, Mar, Durán, Mercedes
Published in Journal of translational medicine (10.06.2020)
Published in Journal of translational medicine (10.06.2020)
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Journal Article
Robust sequential biophysical fractionation of blood plasma to study variations in the biomolecular landscape of systemically circulating extracellular vesicles across clinical conditions
Vergauwen, Glenn, Tulkens, Joeri, Pinheiro, Cláudio, Avila Cobos, Francisco, Dedeyne, Sándor, De Scheerder, Marie‐Angélique, Vandekerckhove, Linos, Impens, Francis, Miinalainen, Ilkka, Braems, Geert, Gevaert, Kris, Mestdagh, Pieter, Vandesompele, Jo, Denys, Hannelore, De Wever, Olivier, Hendrix, An
Published in Journal of extracellular vesicles (01.08.2021)
Published in Journal of extracellular vesicles (01.08.2021)
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Journal Article
Computational deconvolution of transcriptomics data from mixed cell populations
Avila Cobos, Francisco, Vandesompele, Jo, Mestdagh, Pieter, De Preter, Katleen
Published in Bioinformatics (01.06.2018)
Published in Bioinformatics (01.06.2018)
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Journal Article
A comprehensive inventory of TLX1 controlled long non-coding RNAs in T-cell acute lymphoblastic leukemia through polyA+ and total RNA sequencing
Verboom, Karen, Van Loocke, Wouter, Volders, Pieter-Jan, Decaesteker, Bieke, Avila Cobos, Francisco, Bornschein, Simon, de Bock, Charles E, Kalender Atak, Zeynep, Clappier, Emmanuelle, Aerts, Stein, Cools, Jan, Soulier, Jean, Taghon, Tom, Van Vlierberghe, Pieter, Vandesompele, Jo, Speleman, Frank, Durinck, Kaat
Published in Haematologica (Roma) (01.12.2018)
Published in Haematologica (Roma) (01.12.2018)
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Journal Article
Zipper plot: visualizing transcriptional activity of genomic regions
Avila Cobos, Francisco, Anckaert, Jasper, Volders, Pieter-Jan, Everaert, Celine, Rombaut, Dries, Vandesompele, Jo, De Preter, Katleen, Mestdagh, Pieter
Published in BMC bioinformatics (02.05.2017)
Published in BMC bioinformatics (02.05.2017)
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Journal Article
Comprehensive RNA dataset of tissue and plasma from patients with esophageal cancer or precursor lesions
Schoofs, Kathleen, Philippron, Annouck, Avila Cobos, Francisco, Koster, Jan, Lefever, Steve, Anckaert, Jasper, De Looze, Danny, Vandesompele, Jo, Pattyn, Piet, De Preter, Katleen
Published in Scientific data (14.03.2022)
Published in Scientific data (14.03.2022)
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Journal Article
Germline Genetic Findings Which May Impact Therapeutic Decisions in Families with a Presumed Predisposition for Hereditary Breast and Ovarian Cancer
Velázquez, Carolina, K., De Leeneer, Esteban-Cardeñosa, Eva M., Avila Cobos, Francisco, Lastra, Enrique, Abella, Luis E., de la Cruz, Virginia, Lobatón, Carmen D., Claes, Kathleen B., Durán, Mercedes, Infante, Mar
Published in Cancers (03.08.2020)
Published in Cancers (03.08.2020)
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Journal Article
Charting Extracellular Transcriptomes in The Human Biofluid RNA Atlas
Hulstaert, Eva, Morlion, Annelien, Avila Cobos, Francisco, Verniers, Kimberly, Nuytens, Justine, Vanden Eynde, Eveline, Yigit, Nurten, Anckaert, Jasper, Geerts, Anja, Hindryckx, Pieter, Jacques, Peggy, Brusselle, Guy, Bracke, Ken R., Maes, Tania, Malfait, Thomas, Derveaux, Thierry, Ninclaus, Virginie, Van Cauwenbergh, Caroline, Roelens, Kristien, Roets, Ellen, Hemelsoet, Dimitri, Tilleman, Kelly, Brochez, Lieve, Kuersten, Scott, Simon, Lukas M., Karg, Sebastian, Kautzky-Willers, Alexandra, Leutner, Michael, Nöhammer, Christa, Slaby, Ondrej, Prins, Roméo Willinge, Koster, Jan, Lefever, Steve, Schroth, Gary P., Vandesompele, Jo, Mestdagh, Pieter
Published in Cell reports (Cambridge) (29.12.2020)
Published in Cell reports (Cambridge) (29.12.2020)
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Journal Article
Effective methods for bulk RNA-seq deconvolution using scnRNA-seq transcriptomes
Cobos, Francisco Avila, Panah, Mohammad Javad Najaf, Epps, Jessica, Long, Xiaochen, Man, Tsz-Kwong, Chiu, Hua-Sheng, Chomsky, Elad, Kiner, Evgeny, Krueger, Michael J, di Bernardo, Diego, Voloch, Luis, Molenaar, Jan, van Hooff, Sander R, Westermann, Frank, Jansky, Selina, Redell, Michele L, Mestdagh, Pieter, Sumazin, Pavel
Published in Genome Biology (01.08.2023)
Published in Genome Biology (01.08.2023)
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Journal Article
Subpar reporting of pre-analytical variables in RNA-focused blood plasma studies
Van Der Schueren, Céleste, Decruyenaere, Philippe, Avila Cobos, Francisco, Bult, Johanna, Deleu, Jill, Dipalo, Laudonia Lidia, Helsmoortel, Hetty Hilde, Hulstaert, Eva, Morlion, Annelien, Ramos Varas, Elena, Schoofs, Kathleen, Trypsteen, Wim, Vanden Eynde, Eveline, Van Droogenbroeck, Hanne, Verniers, Kimberly, Vandesompele, Jo, Decock, Anneleen
Published in Molecular oncology (02.04.2024)
Published in Molecular oncology (02.04.2024)
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Journal Article
Publisher Correction: The RNA Atlas expands the catalog of human non-coding RNAs
Lorenzi, Lucia, Chiu, Hua-Sheng, Avila Cobos, Francisco, Gross, Stephen, Volders, Pieter-Jan, Cannoodt, Robrecht, Nuytens, Justine, Vanderheyden, Katrien, Anckaert, Jasper, Lefever, Steve, Tay, Aidan P., de Bony, Eric J., Trypsteen, Wim, Gysens, Fien, Vromman, Marieke, Goovaerts, Tine, Hansen, Thomas Birkballe, Kuersten, Scott, Nijs, Nele, Taghon, Tom, Vermaelen, Karim, Bracke, Ken R., Saeys, Yvan, De Meyer, Tim, Deshpande, Nandan P., Anande, Govardhan, Chen, Ting-Wen, Wilkins, Marc R., Unnikrishnan, Ashwin, De Preter, Katleen, Kjems, Jørgen, Koster, Jan, Schroth, Gary P., Vandesompele, Jo, Sumazin, Pavel, Mestdagh, Pieter
Published in Nature biotechnology (01.11.2021)
Published in Nature biotechnology (01.11.2021)
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Journal Article
The RNA Atlas expands the catalog of human non-coding RNAs
Lorenzi, Lucia, Chiu, Hua-Sheng, Avila Cobos, Francisco, Gross, Stephen, Volders, Pieter-Jan, Cannoodt, Robrecht, Nuytens, Justine, Vanderheyden, Katrien, Anckaert, Jasper, Lefever, Steve, Tay, Aidan P., de Bony, Eric J., Trypsteen, Wim, Gysens, Fien, Vromman, Marieke, Goovaerts, Tine, Hansen, Thomas Birkballe, Kuersten, Scott, Nijs, Nele, Taghon, Tom, Vermaelen, Karim, Bracke, Ken R., Saeys, Yvan, De Meyer, Tim, Deshpande, Nandan P., Anande, Govardhan, Chen, Ting-Wen, Wilkins, Marc R., Unnikrishnan, Ashwin, De Preter, Katleen, Kjems, Jørgen, Koster, Jan, Schroth, Gary P., Vandesompele, Jo, Sumazin, Pavel, Mestdagh, Pieter
Published in Nature biotechnology (01.11.2021)
Published in Nature biotechnology (01.11.2021)
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Journal Article
A neuronal enhancer network upstream of MEF2C is compromised in patients with Rett-like characteristics
D’haene, Eva, Bar-Yaacov, Reut, Bariah, Inbar, Vantomme, Lies, Van Loo, Sien, Cobos, Francisco Avila, Verboom, Karen, Eshel, Reut, Alatawna, Rawan, Menten, Björn, Birnbaum, Ramon Y, Vergult, Sarah
Published in Human molecular genetics (01.03.2019)
Published in Human molecular genetics (01.03.2019)
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Journal Article
A neuronal enhancer network upstream of MEF2C is compromised in patients with Rett like characteristics
D’haene, Eva, Bar-Yaacov, Reut, Bariah, Inbar, Vantomme, Lies, Van Loo, Sien, Cobos, Francisco Avila, Verboom, Karen, Eshel, Reut, Alatawna, Rawan, Menten, Björn, Birnbaum, Ramon Y, Vergult, Sarah
Published in Human molecular genetics (27.03.2020)
Published in Human molecular genetics (27.03.2020)
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Journal Article