Search Results - "BEISSBARTH, Tim"

Stable feature selection utilizing Graph Convolutional Neural Network and Layer-wise Relevance Propagation for biomarker discovery in breast cancer by Chereda, Hryhorii, Leha, Andreas, Beißbarth, Tim

“…High-throughput technologies are becoming increasingly important in discovering prognostic biomarkers and in identifying novel drug targets. With Mammaprint,…”
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GOstat: find statistically overrepresented Gene Ontologies within a group of genes by Beißbarth, Tim, Speed, Terence P.

“…Modern experimental techniques, as for example DNA microarrays, as a result usually produce a long list of genes, which are potentially interesting in the…”
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Text mining-based word representations for biomedical data analysis and protein-protein interaction networks in machine learning tasks by Alachram, Halima, Chereda, Hryhorii, Beißbarth, Tim, Wingender, Edgar, Stegmaier, Philip

“…Biomedical and life science literature is an essential way to publish experimental results. With the rapid growth of the number of new publications, the amount…”
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Preoperative Versus Postoperative Chemoradiotherapy for Locally Advanced Rectal Cancer: Results of the German CAO/ARO/AIO-94 Randomized Phase III Trial After a Median Follow-Up of 11 Years by Sauer, Rolf, Liersch, Torsten, Merkel, Susanne, Fietkau, Rainer, Hohenberger, Werner, Hess, Clemens, Becker, Heinz, Raab, Hans-Rudolf, Villanueva, Marie-Therese, Witzigmann, Helmut, Wittekind, Christian, Beissbarth, Tim, Rödel, Claus

“…Preoperative chemoradiotherapy (CRT) has been established as standard treatment for locally advanced rectal cancer after first results of the CAO/ARO/AIO-94…”
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Explaining decisions of graph convolutional neural networks: patient-specific molecular subnetworks responsible for metastasis prediction in breast cancer by Chereda, Hryhorii, Bleckmann, Annalen, Menck, Kerstin, Perera-Bel, Júlia, Stegmaier, Philip, Auer, Florian, Kramer, Frank, Leha, Andreas, Beißbarth, Tim

“…Contemporary deep learning approaches show cutting-edge performance in a variety of complex prediction tasks. Nonetheless, the application of deep learning in…”
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CODEX: COunterfactual Deep learning for the in silico EXploration of cancer cell line perturbations by Schrod, Stefan, Zacharias, Helena U, Beißbarth, Tim, Hauschild, Anne-Christin, Altenbuchinger, Michael

“…Abstract Motivation High-throughput screens (HTS) provide a powerful tool to decipher the causal effects of chemical and genetic perturbations on cancer cell…”
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Impact of RNA degradation on gene expression profiling by Opitz, Lennart, Salinas-Riester, Gabriela, Grade, Marian, Jung, Klaus, Jo, Peter, Emons, Georg, Ghadimi, B Michael, Beissbarth, Tim, Gaedcke, Jochen

“…Gene expression profiling is a highly sensitive technique which is used for profiling tumor samples for medical prognosis. RNA quality and degradation…”
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pwOmics: an R package for pathway-based integration of time-series omics data using public database knowledge by Wachter, Astrid, Beißbarth, Tim

“…Characterization of biological processes is progressively enabled with the increased generation of omics data on different signaling levels. Here we present a…”
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Tumor regression grading after preoperative chemoradiotherapy for locally advanced rectal carcinoma revisited: updated results of the CAO/ARO/AIO-94 trial by Fokas, Emmanouil, Liersch, Torsten, Fietkau, Rainer, Hohenberger, Werner, Beissbarth, Tim, Hess, Clemens, Becker, Heinz, Ghadimi, Michael, Mrak, Karl, Merkel, Susanne, Raab, Hans-Rudolf, Sauer, Rolf, Wittekind, Christian, Rödel, Claus

“…We previously described the prognostic impact of tumor regression grading (TRG) on the outcome of patients with rectal carcinoma treated with preoperative…”
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Differences in the Reponses to Apheresis Therapy of Patients With 3 Histopathologically Classified Immunopathological Patterns of Multiple Sclerosis by Stork, Lidia, Ellenberger, David, Beißbarth, Tim, Friede, Tim, Lucchinetti, Claudia F, Brück, Wolfgang, Metz, Imke

“…Plasma exchange and immunoadsorption are second-line apheresis therapies for patients experiencing multiple sclerosis relapses. Early active multiple sclerosis…”
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Ensemble-GNN: federated ensemble learning with graph neural networks for disease module discovery and classification by Pfeifer, Bastian, Chereda, Hryhorii, Martin, Roman, Saranti, Anna, Clemens, Sandra, Hauschild, Anne-Christin, Beißbarth, Tim, Holzinger, Andreas, Heider, Dominik

“…Abstract Summary Federated learning enables collaboration in medicine, where data is scattered across multiple centers without the need to aggregate the data…”
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Working with Ontologies by Kramer, Frank, Beißbarth, Tim

“…Ontologies are powerful and popular tools to encode data in a structured format and manage knowledge. A large variety of existing ontologies offer users access…”
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Comparative study on gene set and pathway topology-based enrichment methods by Bayerlová, Michaela, Jung, Klaus, Kramer, Frank, Klemm, Florian, Bleckmann, Annalen, Beißbarth, Tim

“…Enrichment analysis is a popular approach to identify pathways or sets of genes which are significantly enriched in the context of differentially expressed…”
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A comparative study of RNA-Seq and microarray data analysis on the two examples of rectal-cancer patients and Burkitt Lymphoma cells by Wolff, Alexander, Bayerlová, Michaela, Gaedcke, Jochen, Kube, Dieter, Beißbarth, Tim

“…Pipeline comparisons for gene expression data are highly valuable for applied real data analyses, as they enable the selection of suitable analysis strategies…”
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GOSim--an R-package for computation of information theoretic GO similarities between terms and gene products by Fröhlich, Holger, Speer, Nora, Poustka, Annemarie, Beissbarth, Tim

“…With the increased availability of high throughput data, such as DNA microarray data, researchers are capable of producing large amounts of biological data…”
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Discriminating malignant and benign clinical T1 renal masses on computed tomography: A pragmatic radiomics and machine learning approach by Uhlig, Johannes, Biggemann, Lorenz, Nietert, Manuel M., Beißbarth, Tim, Lotz, Joachim, Kim, Hyun S., Trojan, Lutz, Uhlig, Annemarie

“…The aim of this study was to discriminate malignant and benign clinical T1 renal masses on routinely acquired computed tomography (CT) images using radiomics…”
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Constructing temporal regulatory cascades in the context of development and cell differentiation by Daou, Rayan, Beißbarth, Tim, Wingender, Edgar, Gültas, Mehmet, Haubrock, Martin

“…Cell differentiation is a complex process orchestrated by sets of regulators precisely appearing at certain time points, resulting in regulatory cascades that…”
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Molecular differences of angiogenic versus vessel co-opting colorectal cancer liver metastases at single-cell resolution by Fleischer, Johannes Robert, Schmitt, Alexandra Maria, Haas, Gwendolyn, Xu, Xingbo, Zeisberg, Elisabeth Maria, Bohnenberger, Hanibal, Küffer, Stefan, Teuwen, Laure-Anne, Karras, Philipp Johannes, Beißbarth, Tim, Bleckmann, Annalen, Planque, Mélanie, Fendt, Sarah-Maria, Vermeulen, Peter, Ghadimi, Michael, Kalucka, Joanna, De Oliveira, Tiago, Conradi, Lena-Christin

“…Colorectal cancer liver metastases (CRCLM) are associated with a poor prognosis, reflected by a five-year survival rate of 14%. Anti-angiogenic therapy through…”
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PI3K: A master regulator of brain metastasis‐promoting macrophages/microglia by Blazquez, Raquel, Wlochowitz, Darius, Wolff, Alexander, Seitz, Stefanie, Wachter, Astrid, Perera‐Bel, Julia, Bleckmann, Annalen, Beißbarth, Tim, Salinas, Gabriela, Riemenschneider, Markus J., Proescholdt, Martin, Evert, Matthias, Utpatel, Kirsten, Siam, Laila, Schatlo, Bawarjan, Balkenhol, Marko, Stadelmann, Christine, Schildhaus, Hans‐Ulrich, Korf, Ulrike, Reinz, Eileen, Wiemann, Stefan, Vollmer, Elena, Schulz, Mathias, Ritter, Uwe, Hanisch, Uwe K., Pukrop, Tobias

“…Mutations and activation of the PI3K signaling pathway in breast cancer cells have been linked to brain metastases. However, here we describe that in some…”
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Impact of frailty on short- and long-term morbidity and mortality after transcatheter aortic valve implantation: risk assessment by Katz Index of activities of daily living by Puls, Miriam, Sobisiak, Bettina, Bleckmann, Annalen, Jacobshagen, Claudius, Danner, Bernhard C, Hünlich, Mark, Beißbarth, Tim, Schöndube, Friedrich, Hasenfuß, Gerd, Seipelt, Ralf, Schillinger, Wolfgang

“…Transcatheter aortic valve implantation (TAVI) represents a less invasive treatment option for elderly patients. Therefore, we aimed to determine the impact of…”
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