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Wyeth W. Wasserman

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Articles

Transcriptional reprogramming by mutated IRF4 in lymphoma - Nature Communications

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By Nikolai Schleussner, Pierre Cauchy, Vedran Franke, Oriol Fornes, Naveen Vankadari, Altuna Akalin, Ioannis Anagnostopoulos, Frederik Damm, Oliver Daumke, Stephan Grunwald, Sylvia Hartmann, Anja Fischer, KLaus Schwarz, Georg Lenz, Klaus Rajewsky, Wyeth W. Wasserman, Peter Cockerill, Claus Scheidereit, Rudolf Grosschedl, Martin Janz, Constanze Bonifer, Marco G. Casarotto, Ulrich Pannicke, Andre Weilemann
| Nature Verified
Abstract Disease-causing mutations in genes encoding transcription factors (TFs) can affect TF interactions with their cognate DNA-binding motifs. Whether and how TF mutations impact upon the binding to TF composite elements (CE) and the interaction with other TFs is unclear. Here, we report a distinct mechanism of TF alteration in human lymphomas with perturbed B cell identity, in particular classic Hodgkin lymphoma.
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ExplaiNN: interpretable and transparent neural networks for genomics - Genome Biology

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By Gherman Novakovsky, Oriol Fornes, Manu Saraswat, Sara Mostafavi, Wyeth W. Wasserman
| Genome Biology Verified
Model architectures Unless otherwise specified, each ExplaiNN unit consisted of: 1st convolutional layer with 1 filter (19 × 4), batch normalization, exponential activation, and max pooling (kernel size = 7, stride = 7) 1st fully connected layer with 100 nodes, batch normalization, ReLU activation, and 30% dropout 2nd fully connected layer with 1 node, batch normalization, and ReLU activation In the 1st convolutional layer, exponential activation was used (as opposed to ReLU), as it has been...
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The variant catalogue pipeline: A workflow to generate a background variant library from Whole Genome Sequences

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By Solenne Correard, Mohammed Abdallah, Brittany Hewitson, Wyeth W. Wasserman
| BioRxiv
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