GraphEC has a higher TM-score compared to CLEAN in over 82% of the proteins found by Foldseek. B The alignment of ESMFold-predicted structures with low sequence similarity, where Q6GIA3 represents the enzyme in the training set, and P96284 represents the protein from Swiss-Prot with less ...
To assess cluster purity, we followed a two-step approach. First, we calculated the average LDDT and TM score per cluster to assess the structural similarity. For this, we aligned the representative to the cluster members using the structurealign -e INF -a module in Foldseek and reported the...
For example, protein structures with a resolution (or MolProbity score) of 1 Å or lower are considered very high quality, while values above 3 Å are considered to have significantly less accurate structure information. We assess structural quality metrics before and after AF2-prescribed energy...
polygenic risk scoreobesityOBJECTIVEObesity is a key predictor of type 2 diabetes (T2D). However, metabolic complications are not solely due to increased BMI. We hypothesized that differences between genetically predicted BMI and observed BMI (BMI-diff) could reflect deviation from individual set ...
The TM-score distributions between SARS-CoV-2 and SARS-CoV were quite similar, while MERS-CoV was more similar to a greater number of proteins (Fig. 2A). The MERS-CoV RBM returned 3,954 structures with a TM-score of over 0.5 (~top 1% of TM-scores) out of 245,055 total RBM-chain...
Pleural fluid RPTM: Reads per ten million References Nohl A, Hamsen U, Jensen KO, Sprengel K, Ziegenhain F, Lefering R, Dudda M, Schildhauer TA, Wegner A. Incidence, impact and risk factors for multidrug-resistant organisms (MDRO) in patients with major trauma: a European Multicenter...
The experiments show that a few metrics, such as distance precision, have a high correlation with the model accuracy measure TM-score (Pearson's correlation coefficient >0.7). In addition, the metrics are applied to rank the distance prediction groups in CASP14. The ranking by our metrics ...
Acute kidney injury (AKI) is commonly encountered in patients hospitalized for decompensated cirrhosis and is associated with prolonged hospital stays, increased treatment burden, and even mortality. The present study aimed to determine the prevalence of and develop a predictive nomogram for AKI in pati...
2d. Over the course of the iterations, 3 domains move from a TM-score below 0.5 to a TM-score above 0.5. The benefits of using distance constraints rather than contact constraints were also examined. DMPfold was run with 8 Å constraints for residue pairs with a cumulative likelihood ...
In this example, you’d need to get at least 733 for both sections to earn New York’s state qualifying score. Of course, scoring a little lower or higher on either section could still get you there. If you're much stronger in math than you are in writing, then you could aim for ...