are enriched in these accessory regions, indicating their potential role in specific pathogenicity on the host. Comparative proteomic analyses identified proteins that are secreted duringF. graminearuminfection (Paper, Scott-Craig, Adhikari, Cuomo, & Walton, 2007;Yang et al., 2012), and a ...
Code Issues Pull requests Implementation of Alpha Fold 3 from the paper: "Accurate structure prediction of biomolecular interactions with AlphaFold3" in PyTorch ai biology bio ml artificial-intelligence alphafold geneml biology-ai Updated Sep 23, 2024 Python chainer...
papers on 13 target genes from the predicted MGPs were retrieved from PubMed (as of May 2021; Fig.5b). This paper retrieval was implemented twice, once with an additional keyword of “glioma” and the second round with “cancer.” The paper retrieval showed...
“You can think of the 3D datasets as a data cube,” said NERSC engineer Annette Greiner, second author on theBMC Microbiologypaper. “The visualization tool allows you to slice the data cube in any direction. And each of these slices gives one of the 2D views: One Environment, One Organ...
Substantial progress has been made in using deep learning for cancer detection and diagnosis in medical images. Yet, there is limited success on prediction of treatment response and outcomes, which has important implications for personalized treatment st
And biology research is opaque; research teams don’t share their results until a paper is published. All these quirks make it difficult to coordinate on large problems. Natural science can learn a great deal from physics, where progress is made by proposing new models and then demonstrating ...
Recent progress in deep learning has greatly improved the prediction of RNA splicing from DNA sequence. Here, we present Pangolin, a deep learning model to predict splice site strength in multiple tissues. Pangolin outperforms state-of-the-art methods fo
(MCI) conversion models. We got very interesting results, but they had a major overlap with unpublished work of one of our colleagues on the role ofKANSL1in Alzheimer’s disease, so we never reported them. Last week, hispaperfinally made it publication (congratulations, Sepehr!) so I ...
Disorder prediction For prediction of disordered protein regions, flDPnn52 was used. Statistics and reproducibility No statistical method was used to pre-determine sample size. No data were excluded from the analyses. The experiments were not randomized. The investigators were not blinded for data ana...
Identifying the most critical opportunities and challenges in genome to phenome (G2P) research is the focus of this paper. Previously (Genome Biol, 23(1):1–11, 2022), we laid out how Agricultural Genome to Phenome Initiative (AG2PI) will coordinate activities with USA federal government ...