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565 results on '"Vera, Julio"'

1. Comparative Analysis of Radiomic Features and Gene Expression Profiles in Histopathology Data Using Graph Neural Networks

Author

Monroy, Luis Carlos Rivera, Rist, Leonhard, Eberhardt, Martin, Ostalecki, Christian, Bauer, Andreas, Vera, Julio, Breininger, Katharina, and Maier, Andreas

Subjects
Computer Science - Computer Vision and Pattern Recognition, Computer Science - Computational Engineering, Finance, and Science, Computer Science - Machine Learning
Abstract

This study leverages graph neural networks to integrate MELC data with Radiomic-extracted features for melanoma classification, focusing on cell-wise analysis. It assesses the effectiveness of gene expression profiles and Radiomic features, revealing that Radiomic features, particularly when combined with UMAP for dimensionality reduction, significantly enhance classification performance. Notably, using Radiomics contributes to increased diagnostic accuracy and computational efficiency, as it allows for the extraction of critical data from fewer stains, thereby reducing operational costs. This methodology marks an advancement in computational dermatology for melanoma cell classification, setting the stage for future research and potential developments., Comment: Paper accepted at the German Conference on Medical Image Computing 2024

Published
2023

2. Mutations in the splicing factor SF3B1 are linked to frequent emergence of HLA-DRlow/neg monocytes in lower-risk myelodysplastic neoplasms

Author

Winter, Susann, Schneider, Marie, Oelschlaegel, Uta, Maggioni, Giulia, Riva, Elena, Raddi, Marco Gabriele, Bencini, Sara, Peruzzi, Benedetta, Choy, Desmond, Antunes Dos Reis, Rita, Güse, Esther, Lischer, Christopher, Vera, Julio, Timms, Jessica A., Sompairac, Nicolas, Sockel, Katja, Poloni, Antonella, Tunger, Antje, Della Porta, Matteo Giovanni, Santini, Valeria, Schmitz, Marc, Platzbecker, Uwe, and Kordasti, Shahram

Published
2024
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3. Comparative Analysis of Radiomic Features and Gene Expression Profiles in Histopathology Data using Graph Neural Networks

Author

Monroy, Luis C. Rivera, Rist, Leonhard, Eberhardt, Martin, Ostalecki, Christian, Bauer, Andreas, Vera, Julio, Breininger, Katharina, Maier, Andreas, Gesellschaft für Informatik e.V. (GI), Maier, Andreas, editor, Deserno, Thomas M., editor, Handels, Heinz, editor, Maier-Hein, Klaus, editor, Palm, Christoph, editor, and Tolxdorff, Thomas, editor

Published
2024
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4. Employing Graph Representations for Cell-level Characterization of Melanoma MELC Samples

Author

Monroy, Luis Carlos Rivera, Rist, Leonhard, Eberhardt, Martin, Ostalecki, Christian, Baur, Andreas, Vera, Julio, Breininger, Katharina, and Maier, Andreas

Subjects
Computer Science - Computer Vision and Pattern Recognition, Computer Science - Artificial Intelligence, Computer Science - Computational Engineering, Finance, and Science
Abstract

Histopathology imaging is crucial for the diagnosis and treatment of skin diseases. For this reason, computer-assisted approaches have gained popularity and shown promising results in tasks such as segmentation and classification of skin disorders. However, collecting essential data and sufficiently high-quality annotations is a challenge. This work describes a pipeline that uses suspected melanoma samples that have been characterized using Multi-Epitope-Ligand Cartography (MELC). This cellular-level tissue characterisation is then represented as a graph and used to train a graph neural network. This imaging technology, combined with the methodology proposed in this work, achieves a classification accuracy of 87%, outperforming existing approaches by 10%., Comment: This work has been submitted to the IEEE for possible publication. Copyright may be transferred without notice, after which this version may no longer be accessible

Published
2022

11. Stringent monitoring can decrease mortality of immune checkpoint inhibitor induced cardiotoxicity

Author

Wang, Ying, primary, Ertl, Carolin, additional, Schmitt, Christina, additional, Hammann, Linda, additional, Kramer, Rafaela, additional, Grabmaier, Ulrich, additional, Schöberl, Florian, additional, Anz, David, additional, Piseddu, Ignazio, additional, Pesch, Giulia, additional, Vera, Julio, additional, Froehlich, Waltraud, additional, Weckbach, Ludwig, additional, Tomsitz, Dirk, additional, Loquai, Carmen, additional, Zimmer, Lisa, additional, Mangana, Johanna, additional, Dummer, Reinhard, additional, Gutzmer, Ralf, additional, Klespe, Kai-Christian, additional, Stege, Henner, additional, Meiss, Frank, additional, Thoms, Kai-Martin, additional, Terheyden, Patrick, additional, Bröckelmann, Paul J., additional, Johnson, Douglas B., additional, French, Lars E., additional, and Heinzerling, Lucie, additional

Published
2024
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12. Gene network-based and ensemble modeling-based selection of tumor-associated antigens with a predicted low risk of tissue damage for targeted immunotherapy

Author

Lischer, Christopher, primary, Eberhardt, Martin, additional, Flamann, Cindy, additional, Berges, Johannes, additional, Güse, Esther, additional, Wessely, Anja, additional, Weich, Adrian, additional, Retzlaff, Jimmy, additional, Dörrie, Jan, additional, Schaft, Niels, additional, Wiesinger, Manuel, additional, März, Johannes, additional, Schuler-Thurner, Beatrice, additional, Knorr, Harald, additional, Gupta, Shailendra, additional, Singh, Krishna Pal, additional, Schuler, Gerold, additional, Heppt, Markus Vincent, additional, Koch, Elias Andreas Thomas, additional, van Kleef, Nadine D, additional, Freen-van Heeren, Julian J, additional, Turksma, Annelies W, additional, Wolkenhauer, Olaf, additional, Hohberger, Bettina, additional, Berking, Carola, additional, Bruns, Heiko, additional, and Vera, Julio, additional

Published
2024
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14. Clinical determinants of long-term survival in metastatic uveal melanoma

Author

Koch, Elias A. T., Petzold, Anne, Wessely, Anja, Dippel, Edgar, Erdmann, Michael, Heinzerling, Lucie, Hohberger, Bettina, Knorr, Harald, Leiter, Ulrike, Meier, Friedegund, Mohr, Peter, Rahimi, Farnaz, Schell, Beatrice, Schlaak, Max, Terheyden, Patrick, Schuler-Thurner, Beatrice, Ugurel, Selma, Utikal, Jochen, Vera, Julio, Weichenthal, Michael, Ziller, Fabian, Berking, Carola, and Heppt, Markus V.

Published
2022
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17. Airline Workforce Scheduling Based on Multi-agent Systems

Author

Ceballos Aguilar, Nicolas, Chafloque Mesia, Juan Camilo, Mejía Vera, Julio Andrés, Nait Abdallah, Mohamed Rabie, Zambrano Rey, Gabriel Mauricio, Kacprzyk, Janusz, Series Editor, Trentesaux, Damien, editor, Borangiu, Theodor, editor, Leitão, Paulo, editor, Jimenez, Jose-Fernando, editor, and Montoya-Torres, Jairo R., editor

Published
2021
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22. Percretismo Placentario

Author

Calderón León, María Fernanda, primary, Pincay Holguín, Narciso Gotairo, additional, Alcívar de la Vera, Julio Alberto, additional, Loor Cusme, Lorena Katiusca, additional, Solorzano Acosta, Paola Vanessa, additional, Moreno Garzon, Johanna Patricia, additional, Rivera Moreira, Lily Stephania, additional, and Alencastro Chuez, Manuel Armando, additional

Published
2023
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25. Identifizierung von Biomarkern und neuen therapeutischen Zielen beim Aderhautmelanom: Identifying biomarkers and novel therapeutic targets in uveal melanoma.

Author

Wessely, Anja, Koch, Elias A. T., Vera, Julio, Berking, Carola, and Heppt, Markus V.

Abstract

Copyright of Journal der Deutschen Dermatologischen Gesellschaft is the property of Wiley-Blackwell and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

Published
2024
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26. Identifying biomarkers and novel therapeutic targets in uveal melanoma.

Author

Wessely, Anja, Koch, Elias A. T., Vera, Julio, Berking, Carola, and Heppt, Markus V.

Abstract

Summary: Uveal melanoma (UM) is an orphan cancer despite being the most common eye tumor in adults. Patients often present to skin cancer centers for treatment of metastatic disease although there are significant genetic, biological, and clinical differences from cutaneous melanoma. The treatments most commonly used for metastatic UM are tebentafusp and combined immune checkpoint blockade, both of which yield low response rates and may be accompanied by high treatment costs and significant immune‐related toxicities. Thus, it is of paramount importance to identify biomarkers and clinical profiles predictive of treatment response and to find novel therapeutic targets. The use of immune checkpoint blockade showed more favorable outcomes in patients with extrahepatic disease and normal levels of serum lactate dehydrogenase in a panel of retrospective studies, making its use more reasonable in this subgroup. To identify novel drug targets, we will analyze the expression and relevance of neural crest transcription factors in patient bio‐specimens using next‐generation nanopore sequencing. Computer algorithms and network‐based analysis will facilitate the identification of druggable targets which will subsequently be validated in patient‐derived short‐term cell cultures. This approach will help to find novel and personalized treatments for UM. [ABSTRACT FROM AUTHOR]

Published
2024
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27. Transcription factor Fra-1 targets arginase-1 to enhance macrophage-mediated inflammation in arthritis

Author

Hannemann, Nicole, Cao, Shan, Eriksson, Daniel, Schnelzer, Anne, Jordan, Jutta, Schleicher, Martin EberhardUlrike, Rech, Jurgen, Ramming, Andreas, Uebe, Steffen, Ekici, Arif, Canete, Juan D., Chen, Xiaoxiang, Bauerle, Tobias, Vera, Julio, Bogdan, Christian, and Bozec, Georg Schetand Aline

Subjects
Interleukins -- Analysis, Macrophages -- Analysis, Rheumatoid factor -- Analysis, Inflammation -- Analysis, Genes -- Analysis, Arthritis -- Analysis, DNA binding proteins -- Analysis, Arginine, Antigens, Luciferase, Journalists, Wounds, Health care industry
Abstract

The polarization of macrophages is regulated by transcription factors, such as NF-[kappa]B and activator protein 1 (AP-1). In this manuscript, we delineated the role of the transcription factor Fos-related antigen 1 (Fra-1) during macrophage activation and development of arthritis. Network level interaction analysis of microarray data derived from Fra-1- or Fra-2-deficient macrophages revealed a central role of Fra-1, but not of Fra-2, in orchestrating the expression of genes related to wound response, Toll-like receptor activation, and interleukin signaling. ChIP sequencing and standard ChIP analyses of macrophages identified arginase 1 (Arg1) as a target of Fra-1. Luciferase reporter assays revealed that Fra-1 downregulated Arg1 expression by direct binding to the promoter region. Using macrophage-specific Fra-1- or Fra-2-deficient mice, we observed enhanced expression and activity of Arg1 and a reduction of arthritis in the absence of Fra-1, but not of Fra-2. This phenotype was reversed by treatment with the arginase inhibitor [N.sup.[omega]]-hydroxy-nor-l-arginine, while L-arginine supplementation increased arginase activity and alleviated arthritis, supporting the notion that reduced arthritis in macrophage-specific Fra-1-deficient mice resulted from enhanced Arg1 expression and activity. Moreover, patients with active rheumatoid arthritis (RA) showed increased Fra-1 expression in the peripheral blood and elevated Fra-1 protein in synovial macrophages compared with RA patients in remission. In addition, the Fra-1/ARG1 ratio in synovial macrophages was related to RA disease activity. In conclusion, these data suggest that Fra-1 orchestrates the inflammatory state of macrophages by inhibition of Arg1 expression and thereby impedes the resolution of inflammation., Introduction Macrophages are remarkably diverse in their plasticity, allowing adaptation to a broad range of environmental stimuli. They participate in various processes essential for homeostatic functions and development, but also [...]

Published
2019
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28. Locally renewing resident synovial macrophages provide a protective barrier for the joint

Author

Culemann, Stephan, Grüneboom, Anika, Nicolás-Ávila, José Ángel, Weidner, Daniela, Lämmle, Katrin Franziska, Rothe, Tobias, Quintana, Juan A., Kirchner, Philipp, Krljanac, Branislav, Eberhardt, Martin, Ferrazzi, Fulvia, Kretzschmar, Elke, Schicht, Martin, Fischer, Kim, Gelse, Kolja, Faas, Maria, Pfeifle, René, Ackermann, Jochen A., Pachowsky, Milena, Renner, Nina, Simon, David, Haseloff, Reiner F., Ekici, Arif B., Bäuerle, Tobias, Blasig, Ingolf E., Vera, Julio, Voehringer, David, Kleyer, Arnd, Paulsen, Friedrich, Schett, Georg, Hidalgo, Andrés, and Krönke, Gerhard

Published
2019
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32. Supplemental Figures and Tables from The IKZF1–IRF4/IRF5 Axis Controls Polarization of Myeloma-Associated Macrophages

Author

Mougiakakos, Dimitrios, primary, Bach, Christian, primary, Böttcher, Martin, primary, Beier, Fabian, primary, Röhner, Linda, primary, Stoll, Andrej, primary, Rehli, Michael, primary, Gebhard, Claudia, primary, Lischer, Christopher, primary, Eberhardt, Martin, primary, Vera, Julio, primary, Büttner-Herold, Maike, primary, Bitterer, Katrin, primary, Balzer, Heidi, primary, Leffler, Magdalena, primary, Jitschin, Simon, primary, Hundemer, Michael, primary, Awwad, Mohamed H.S., primary, Busch, Martin, primary, Stenger, Steffen, primary, Völkl, Simon, primary, Schütz, Christian, primary, Krönke, Jan, primary, Mackensen, Andreas, primary, and Bruns, Heiko, primary

Published
2023
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33. Data from The IKZF1–IRF4/IRF5 Axis Controls Polarization of Myeloma-Associated Macrophages

Author

Mougiakakos, Dimitrios, primary, Bach, Christian, primary, Böttcher, Martin, primary, Beier, Fabian, primary, Röhner, Linda, primary, Stoll, Andrej, primary, Rehli, Michael, primary, Gebhard, Claudia, primary, Lischer, Christopher, primary, Eberhardt, Martin, primary, Vera, Julio, primary, Büttner-Herold, Maike, primary, Bitterer, Katrin, primary, Balzer, Heidi, primary, Leffler, Magdalena, primary, Jitschin, Simon, primary, Hundemer, Michael, primary, Awwad, Mohamed H.S., primary, Busch, Martin, primary, Stenger, Steffen, primary, Völkl, Simon, primary, Schütz, Christian, primary, Krönke, Jan, primary, Mackensen, Andreas, primary, and Bruns, Heiko, primary

Published
2023
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34. Mutations in the splicing factor SF3B1are linked to frequent emergence of HLA-DRlow/negmonocytes in lower-risk myelodysplastic neoplasms

Author

Winter, Susann, Schneider, Marie, Oelschlaegel, Uta, Maggioni, Giulia, Riva, Elena, Raddi, Marco Gabriele, Bencini, Sara, Peruzzi, Benedetta, Choy, Desmond, Antunes Dos Reis, Rita, Güse, Esther, Lischer, Christopher, Vera, Julio, Timms, Jessica A., Sompairac, Nicolas, Sockel, Katja, Poloni, Antonella, Tunger, Antje, Della Porta, Matteo Giovanni, Santini, Valeria, Schmitz, Marc, Platzbecker, Uwe, and Kordasti, Shahram

Published
2024
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40. Supervised Cluster Analysis of miRNA Expression Data Using Rough Hypercuboid Partition Matrix

Author

Paul, Sushmita, Vera, Julio, Hutchison, David, Series editor, Kanade, Takeo, Series editor, Kittler, Josef, Series editor, Kleinberg, Jon M., Series editor, Mattern, Friedemann, Series editor, Mitchell, John C., Series editor, Naor, Moni, Series editor, Pandu Rangan, C., Series editor, Steffen, Bernhard, Series editor, Terzopoulos, Demetri, Series editor, Tygar, Doug, Series editor, Weikum, Gerhard, Series editor, Kryszkiewicz, Marzena, editor, Bandyopadhyay, Sanghamitra, editor, Rybinski, Henryk, editor, and Pal, Sankar K., editor

Published
2015
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44. Free Article from Systems Biologists Seek Fuller Integration of Systems Biology Approaches in New Cancer Research Programs

Author

Wolkenhauer, Olaf, primary, Auffray, Charles, primary, Baltrusch, Simone, primary, Blüthgen, Nils, primary, Byrne, Helen, primary, Cascante, Marta, primary, Ciliberto, Andrea, primary, Dale, Trevor, primary, Drasdo, Dirk, primary, Fell, David, primary, Ferrell, James E., primary, Gallahan, Daniel, primary, Gatenby, Robert, primary, Günther, Ulrich, primary, Harms, Brian D., primary, Herzel, Hanspeter, primary, Junghanss, Christian, primary, Kunz, Manfred, primary, van Leeuwen, Ingeborg, primary, Lenormand, Philippe, primary, Levi, Francis, primary, Linnebacher, Michael, primary, Lowengrub, John, primary, Maini, Philip K., primary, Malik, Arif, primary, Rateitschak, Katja, primary, Sansom, Owen, primary, Schäfer, Reinhold, primary, Schürrle, Karsten, primary, Sers, Christine, primary, Schnell, Santiago, primary, Shibata, Darryl, primary, Tyson, John, primary, Vera, Julio, primary, White, Michael, primary, Zhivotovsky, Boris, primary, and Jaster, Robert, primary

Published
2023
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46. Data from Systems Biologists Seek Fuller Integration of Systems Biology Approaches in New Cancer Research Programs

Author

Wolkenhauer, Olaf, primary, Auffray, Charles, primary, Baltrusch, Simone, primary, Blüthgen, Nils, primary, Byrne, Helen, primary, Cascante, Marta, primary, Ciliberto, Andrea, primary, Dale, Trevor, primary, Drasdo, Dirk, primary, Fell, David, primary, Ferrell, James E., primary, Gallahan, Daniel, primary, Gatenby, Robert, primary, Günther, Ulrich, primary, Harms, Brian D., primary, Herzel, Hanspeter, primary, Junghanss, Christian, primary, Kunz, Manfred, primary, van Leeuwen, Ingeborg, primary, Lenormand, Philippe, primary, Levi, Francis, primary, Linnebacher, Michael, primary, Lowengrub, John, primary, Maini, Philip K., primary, Malik, Arif, primary, Rateitschak, Katja, primary, Sansom, Owen, primary, Schäfer, Reinhold, primary, Schürrle, Karsten, primary, Sers, Christine, primary, Schnell, Santiago, primary, Shibata, Darryl, primary, Tyson, John, primary, Vera, Julio, primary, White, Michael, primary, Zhivotovsky, Boris, primary, and Jaster, Robert, primary

Published
2023
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