Predicted output by AlphaFold indicating expected position error of protein structures
Predicted Aligned Error
Filename extension
.json
Internet media type
application/json
Developed by
DeepMind, EMBL-EBI
Type of format
Bioinformatics
Website
https://alphafold.ebi.ac.uk/faq
The Predicted Aligned Error (PAE) is a quantitative output produced by AlphaFold, a protein structure prediction system developed by DeepMind.[1] PAE estimates the expected positional error for each residue in a predicted protein structure if it were aligned to a corresponding residue in the true protein structure. This measurement helps scientists assess the confidence in the relative positions and orientations of different parts of the predicted protein model.[2]
^"AlphaFold Protein Structure Database". alphafold.ebi.ac.uk. 2023-06-12. Archived from the original on 2023-06-13. Retrieved 2023-06-12.
^"AlphaFold Error Estimates". www.rbvi.ucsf.edu. Archived from the original on 2023-06-13. Retrieved 2023-06-12.
and 24 Related for: Predicted Aligned Error information
"predicted_aligned_error": [[0, 1, 4, 7, 9, ...], ...], "max_predicted_aligned_error": 31.75 } ] In the JSON file, the field predicted_aligned_error provides...
of observed values of the variable being predicted, with Y ^ {\displaystyle {\hat {Y}}} being the predicted values (e.g. as from a least-squares fit)...
make comparisons between predicted values that use different scales. The mean absolute error is a common measure of forecast error in time series analysis...
dependent variables are predicted, rather than a single scalar variable. If the explanatory variables are measured with error then errors-in-variables models...
Wiktionary, the free dictionary. PAE may refer to: PredictedAlignedError, AlphaFold output file format for errors of protein structure prediction Physical Address...
n {\displaystyle {\begin{aligned}{\text{Precision}}&={\frac {tp}{tp+fp}}\\{\text{Recall}}&={\frac {tp}{tp+fn}}\,\end{aligned}}} Recall in this context...
response (or expected response) and predicted response, also known as mean outcome (or expected outcome) and predicted outcome, are values of the dependent...
(SSR) or the sum of squared estimate of errors (SSE), is the sum of the squares of residuals (deviations predicted from actual empirical values of data)...
the predicted state from the previous estimate and similarly the function h can be used to compute the predicted measurement from the predicted state...
is at position A (the left-hand side is predicted as negative by the model, the right-hand side is predicted as positive by the model). When the dotted...
whereas the predicted response is y ^ 0 = x 0 T β ^ {\displaystyle {\hat {y}}_{0}=x_{0}^{\mathrm {T} }{\hat {\beta }}} . Clearly the predicted response is...
minima in the sum of squares. Under the condition that the errors are uncorrelated with the predictor variables, LLSQ yields unbiased estimates, but even under...
{\begin{aligned}C_{Y_{k}|X_{k}}&=AC_{X_{k}|Y_{1},\ldots ,Y_{k-1}}A^{T}+C_{Z}=AC_{e_{k-1}}A^{T}+C_{Z}.\end{aligned}}} . The difference between the predicted value...
'ex post' tracking error. If a model is used to predict tracking error, it is called 'ex ante' tracking error. Ex-post tracking error is more useful for...
the predicted state from the previous estimate and similarly the function h can be used to compute the predicted measurement from the predicted state...
residuals (see also Errors and residuals) ε ^ i {\displaystyle {\widehat {\varepsilon }}_{i}} (differences between actual and predicted values of the dependent...
X ) . {\displaystyle {\begin{aligned}\sigma (c)&=0\\\sigma (X+c)&=\sigma (X),\\\sigma (cX)&=|c|\sigma (X).\end{aligned}}} The standard deviation of the...
(dependent variable) Y which cannot be explained, i.e., which is not correctly predicted, by the explanatory variables X. Suppose we are given a regression function...
{\displaystyle {\begin{aligned}f_{n}(x_{t})={\dfrac {1}{(1+x_{t}^{n})}}\,,\qquad n\in {\mathbb {N} },\;x\in {\mathbb {R} }.\end{aligned}}} The short term behaviour...