DeepSequence

JackL’s PhD Defense - Modeling interactions with Deep Learning

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Ph.D. Dissertation Defense by Jack Lanchantin Tuesday, July 20th, 2021 at 2:00 PM (ET), via Zoom. Committee: Vicente Ordóñez Román, Committee Chair, ...

DrQi’s tutorial talk on “Make Deep Learning Interpretable for Sequential Data Analysis in Biomedicine” (Including our work on DeepChrome - AttentiveChrome - GCNChrome - DeepMotif - DeepVHPPI - MotifTransformer)

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I gave a tutorial talk at UVA-VADC Seminar Series 2021 and at monthly NIH Data Science Showcase seminar.

ACM BCB - Transfer Learning for Predicting Virus-Host Protein Interactions for Novel Virus Sequences

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Bioinformatics - Graph Convolutional Networks for Epigenetic State Prediction Using Both Sequence and 3D Genome Data

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Bioinformatics - DeepDiff- Deep-learning for predicting Differential gene expression from histone modifications

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Tool DeepDIff: DeepDiff: Deep-learning for predicting Differential gene expression from histone modifications

Rita’s PhD Defense - Fast and Interpretable Classification of Sequential Data in Biology

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Ph.D. Dissertation Defense by Ritambhara Singh Monday, April 9, 2018 at 12:00PM in Rice 504.

Best Paper Award for Deep Motif Dashboard

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Jack’s DeepMotif paper (Deep Motif Dashboard: Visualizing and Understanding Genomic Sequences Using Deep Neural Networks ) have received the “best paper awar...

MLCB - Prototype Matching Networks for Large-Scale Multi-label Genomic Sequence Classification

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NeurIPS - AttentiveChrome-Deep Attention Model to Understand Gene Regulation by Selective Attention on Chromatin

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Tool AttentiveChrome: Attend and Predict: Using Deep Attention Model to Understand Gene Regulation by Selective Attention on Chromatin

ICLR - Memory Matching Networks for Genomic Sequence Classification

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PSB - Deep Motif Dashboard- Visualizing and Understanding Genomic Sequences Using Deep Neural Networks

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Tool Deep Motif Dashboard: Visualizing and Understanding Genomic Sequences Using Deep Neural Networks

Bioinformatics - DeepChrome- deep-learning for predicting gene expression from histone modifications

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Tool DeepChrome: deep-learning for predicting gene expression from histone modifications

AAAI - MUST-CNN- A Multilayer Shift-and-Stitch Deep Convolutional Architecture for Sequence-based Protein Structure Prediction

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Tool MUST-CNN: A Multilayer Shift-and-Stitch Deep Convolutional Architecture for Sequence-based Protein Structure Prediction

ECIR - Deep Learning for Character-based Information Extraction on Chinese and Protein Sequence

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Title: Deep Learning for Character-based Information Extraction on Chinese and Protein Sequence

Plos- A unified multitask architecture for predicting local structural properties on proteins

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Tool Multitask-ProteinTagging: A unified multitask architecture for predicting local protein properties

ECML - Systems and methods for semi-supervised relationship extraction

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Bioinformatics - Semi-supervised multi-task learning Using BioText based Labels to Augument PPI Prediction

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