Bioinformatics

Dynamic Data Independent Acquisition Mass Spectrometry with Real-Time Retrospective Alignment
Lilian R Heil, Philip M Remes, Jesse D Canterbury, Ping Yip, William D Barshop, Christine C Wu, Michael J MacCoss

bioRxiv 2022.11.29.518428; doi: https://doi.org/10.1101/2022.11.29.518428 New Results

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TMvisDB: resource for transmembrane protein annotation and 3D visualization
Céline Marquet, Anastasia Grekova, Leen Houri, Michael Bernhofer, Luisa Jimenez-Soto, Tim Karl, Michael Heinzinger, Christian Dallago, Burkhard Rost

bioRxiv 2022.11.30.518551; doi: https://doi.org/10.1101/2022.11.30.518551 New Results

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Predicting Immune Escape with Pretrained Protein Language Model Embeddings
Kyle Swanson, Howard Chang, James Zou

bioRxiv 2022.11.30.518466; doi: https://doi.org/10.1101/2022.11.30.518466 New Results

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Finemap-MiXeR: A variational Bayesian approach for genetic finemapping
Bayram Cevdet Akdeniz, Oleksandr Frei, Alexey Shadrin, Dmitry Vetrov, Dmitry Kropotov, Anders Dale, Eivind Hovig, Ole Andreassen

bioRxiv 2022.11.30.518509; doi: https://doi.org/10.1101/2022.11.30.518509 New Results

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Statistical tests to detect differences between codon-specific Ramachandran plots
Javier González-Delgado, Pablo Mier, Pau Bernadó, Pierre Neuvial, Juan Cortés

bioRxiv 2022.11.29.518303; doi: https://doi.org/10.1101/2022.11.29.518303 New Results

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HTRX: an R package for learning non-contiguous haplotypes associated with a phenotype
Yaoling Yang, Daniel John Lawson

bioRxiv 2022.11.29.518395; doi: https://doi.org/10.1101/2022.11.29.518395 New Results

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Does Inter-Protein Contact Prediction Benefit from Multi-Modal Data and Auxiliary Tasks?
Arghamitra Talukder, Rujie Yin, Yuanfei Sun, Yang Shen, Yuning You

bioRxiv 2022.11.29.518454; doi: https://doi.org/10.1101/2022.11.29.518454 New Results

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Improving Protein Subcellular Localization Prediction with Structural Prediction & Graph Neural Networks
Geoffroy Dubourg-Felonneau, Arash Abbasi, Eyal Akiva, Lawrence Lee

bioRxiv 2022.11.29.518403; doi: https://doi.org/10.1101/2022.11.29.518403 New Results

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Gene Set Scoring on the Nearest Neighbor Graph (gssnng) for Single Cell RNA-seq (scRNA-seq)
David L Gibbs, Michael K Strasser, Sui Huang

bioRxiv 2022.11.29.518384; doi: https://doi.org/10.1101/2022.11.29.518384 New Results

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Contrastive learning of protein representations with graph neural networks for structural and functional annotations
Jiaqi Luo, Yunan Luo

bioRxiv 2022.11.29.518451; doi: https://doi.org/10.1101/2022.11.29.518451 New Results

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Bioinformatics

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