Feature analysis of training dataset For the quantitative analysis of structural features the sequence around CAGE tag-cluster representatives was converted into numerical profiles (Supplementary Fig. 5). Each di- or tri-nucleotide was assigned a value derived from extensive biochemical studies summarized...
Using the CAGE dataset published from the FANTOM3 project in RIKEN, we applied the model to inference of the regulatory networks of Mus musculus . For the purpose of the feasibility study, we compared inferred networks from the CAGE dataset with those from microarray dataset. Based on the ...
In general, CAGE is designed for steady-state problems so would not work well with dynamic models. One workaround that you could use if you are doing feature fill is to create a dataset with predictions from your dynamic neural network and import the data set to CAGE. if you have other ...
I have filtered the dataset to remove alignment and bias. This makes the model more compliant. You are advised to implement your own alignment layer before exposing the model as a service. It will be highly compliant with any requests, even unethical ones. Please read my blog post about ...
3D models were generated independently for each dataset to avoid bias. Particles from 2D classification were further classified in 3D, and the best 3D class refined and post-processed in RELION-3.0. Rigid-body fitting of the previously crystallized OP cage structure was performed using ChimeraX49....
Of note, although we found varied stoichiometry per single GroEL:ES complex, overall substrate binding per GroEL:ES complex in this dataset was still less than 1. This suggests that the previous mass spectroscopy analysis (Duijn et al., 2007) may represent the global average of substrate ...
Supplementary information Supplementary Information Description of Additional Supplementary Files Dataset 1 Dataset 2 Rights and permissions Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in...
Pre-experiment training and dataset In the pre-experimental phase, we trained the monkeys to move one by one from any part of the cage to the section where the setup was installed (experimental cage). In this stage, the monkeys were brought into the experimental cage individually for 120 min...
within super-enhancers. Our NET-CAGE dataset derived from human and mouse cells expands the FANTOM5 atlas of transcribed enhancers, with broad applicability to biomedical research. Access options Access Nature and 54 other Nature Portfolio journals...
We quantitatively validate our approach against three prior methods on a novel dataset consisting of 14,000 semantic grasps for 44 objects, 7 tasks, and 6 different object states. Our approach outperformed all baselines by statistically significant margins, producing new insights into the importance ...