Isotonic regression

An example of isotonic regression (solid red line) compared to linear regression on the same data, both fit to minimize the mean squared error. The free-form property of isotonic regression means the line can be steeper where the data are steeper; the isotonicity constraint means the line does not decrease.

In statistics and numerical analysis, isotonic regression or monotonic regression is the technique of fitting a free-form line to a sequence of observations such that the fitted line is non-decreasing (or non-increasing) everywhere, and lies as close to the observations as possible.

Applications

Isotonic regression has applications in statistical inference. For example, one might use it to fit an isotonic curve to the means of some set of experimental results when an increase in those means according to some particular ordering is expected. A benefit of isotonic regression is that it is not constrained by any functional form, such as the linearity imposed by linear regression, as long as the function is monotonic increasing.

Another application is nonmetric multidimensional scaling, ^[1] where a low-dimensional embedding for data points is sought such that order of distances between points in the embedding matches order of dissimilarity between points. Isotonic regression is used iteratively to fit ideal distances to preserve relative dissimilarity order.

Isotonic regression is also used in probabilistic classification to calibrate the predicted probabilities of supervised machine learning models. ^[2]

Isotonic regression for the simply ordered case with univariate ${\displaystyle x,y}$ has been applied to estimating continuous dose-response relationships in fields such as anesthesiology and toxicology. Narrowly speaking, isotonic regression only provides point estimates at observed values of ${\displaystyle x.}$ Estimation of the complete dose-response curve without any additional assumptions is usually done via linear interpolation between the point estimates. ^[3]

Software for computing isotone (monotonic) regression has been developed for R, ^{[4] [5] [6]} Stata, and Python. ^[7]

Problem statement and algorithms

Let ${\displaystyle (x_{1},y_{1}),\ldots ,(x_{n},y_{n})}$ be a given set of observations, where the ${\displaystyle y_{i}\in \mathbb {R} }$ and the ${\displaystyle x_{i}}$ fall in some partially ordered set. For generality, each observation ${\displaystyle (x_{i},y_{i})}$ may be given a weight ${\displaystyle w_{i}\geq 0}$, although commonly ${\displaystyle w_{i}=1}$ for all ${\displaystyle i}$.

Isotonic regression seeks a weighted least-squares fit ${\displaystyle {\hat {y}}_{i}\approx y_{i}}$ for all ${\displaystyle i}$, subject to the constraint that ${\displaystyle {\hat {y}}_{i}\leq {\hat {y}}_{j}}$ whenever ${\displaystyle x_{i}\leq x_{j}}$. This gives the following quadratic program (QP) in the variables ${\displaystyle {\hat {y}}_{1},\ldots ,{\hat {y}}_{n}}$:

${\displaystyle \min \sum _{i=1}^{n}w_{i}({\hat {y}}_{i}-y_{i})^{2}}$ subject to ${\displaystyle {\hat {y}}_{i}\leq {\hat {y}}_{j}{\text{ for all }}(i,j)\in E}$

where ${\displaystyle E=\{(i,j):x_{i}\leq x_{j}\}}$ specifies the partial ordering of the observed inputs ${\displaystyle x_{i}}$ (and may be regarded as the set of edges of some directed acyclic graph (dag) with vertices ${\displaystyle 1,2,\ldots n}$). Problems of this form may be solved by generic quadratic programming techniques.

In the usual setting where the ${\displaystyle x_{i}}$ values fall in a totally ordered set such as ${\displaystyle \mathbb {R} }$, we may assume WLOG that the observations have been sorted so that ${\displaystyle x_{1}\leq x_{2}\leq \cdots \leq x_{n}}$, and take ${\displaystyle E=\{(i,i+1):1\leq i<n\}}$. In this case, a simple iterative algorithm for solving the quadratic program is the pool adjacent violators algorithm. Conversely, Best and Chakravarti ^[8] studied the problem as an active set identification problem, and proposed a primal algorithm. These two algorithms can be seen as each other's dual, and both have a computational complexity of ${\displaystyle O(n)}$ on already sorted data. ^[8]

To complete the isotonic regression task, we may then choose any non-decreasing function ${\displaystyle f(x)}$ such that ${\displaystyle f(x_{i})={\hat {y}}_{i}}$ for all i. Any such function obviously solves

${\displaystyle \min _{f}\sum _{i=1}^{n}w_{i}(f(x_{i})-y_{i})^{2}}$ subject to ${\displaystyle f}$ being nondecreasing

and can be used to predict the ${\displaystyle y}$ values for new values of ${\displaystyle x}$. A common choice when ${\displaystyle x_{i}\in \mathbb {R} }$ would be to interpolate linearly between the points ${\displaystyle (x_{i},{\hat {y}}_{i})}$, as illustrated in the figure, yielding a continuous piecewise linear function:

${\displaystyle f(x)={\begin{cases}{\hat {y}}_{1}&{\text{if }}x\leq x_{1}\\{\hat {y}}_{i}+{\frac {x-x_{i}}{x_{i+1}-x_{i}}}({\hat {y}}_{i+1}-{\hat {y}}_{i})&{\text{if }}x_{i}\leq x\leq x_{i+1}\\{\hat {y}}_{n}&{\text{if }}x\geq x_{n}\end{cases}}}$

Centered isotonic regression

As this article's first figure shows, in the presence of monotonicity violations the resulting interpolated curve will have flat (constant) intervals. In dose-response applications it is usually known that ${\displaystyle f(x)}$ is not only monotone but also smooth. The flat intervals are incompatible with ${\displaystyle f(x)}$'s assumed shape, and can be shown to be biased. A simple improvement for such applications, named centered isotonic regression (CIR), was developed by Oron and Flournoy and shown to substantially reduce estimation error for both dose-response and dose-finding applications. ^[9] Both CIR and the standard isotonic regression for the univariate, simply ordered case, are implemented in the R package "cir". ^[4] This package also provides analytical confidence-interval estimates.

References

1. Kruskal, J. B. (1964). "Nonmetric Multidimensional Scaling: A numerical method". Psychometrika. 29 (2): 115–129. doi:10.1007/BF02289694. S2CID   11709679.
2. Niculescu-Mizil, Alexandru; Caruana, Rich (2005). "Predicting good probabilities with supervised learning". In De Raedt, Luc; Wrobel, Stefan (eds.). Proceedings of the Twenty-Second International Conference on Machine Learning (ICML 2005), Bonn, Germany, August 7–11, 2005. ACM International Conference Proceeding Series. Vol. 119. Association for Computing Machinery. pp. 625–632. doi:10.1145/1102351.1102430.
3. Stylianou, MP; Flournoy, N (2002). "Dose finding using the biased coin up-and-down design and isotonic regression". Biometrics. 58 (1): 171–177. doi:10.1111/j.0006-341x.2002.00171.x. PMID   11890313. S2CID   8743090.
4. Oron, Assaf. "Package 'cir'". CRAN. R Foundation for Statistical Computing. Retrieved 26 December 2020.
5. Leeuw, Jan de; Hornik, Kurt; Mair, Patrick (2009). "Isotone Optimization in R: Pool-Adjacent-Violators Algorithm (PAVA) and Active Set Methods". Journal of Statistical Software. 32 (5): 1–24. doi: 10.18637/jss.v032.i05 . ISSN   1548-7660.
6. Xu, Zhipeng; Sun, Chenkai; Karunakaran, Aman. "Package UniIsoRegression" (PDF). CRAN. R Foundation for Statistical Computing. Retrieved 29 October 2021.
7. Pedregosa, Fabian; et al. (2011). "Scikit-learn:Machine learning in Python". Journal of Machine Learning Research. 12: 2825–2830. arXiv: 1201.0490 . Bibcode:2011JMLR...12.2825P.
8. Best, Michael J.; Chakravarti, Nilotpal (1990). "Active set algorithms for isotonic regression; A unifying framework". Mathematical Programming. 47 (1–3): 425–439. doi:10.1007/bf01580873. ISSN   0025-5610. S2CID   31879613.
9. Oron, AP; Flournoy, N (2017). "Centered Isotonic Regression: Point and Interval Estimation for Dose-Response Studies". Statistics in Biopharmaceutical Research. 9 (3): 258–267. arXiv: 1701.05964 . doi:10.1080/19466315.2017.1286256. S2CID   88521189.

Further reading

• Robertson, T.; Wright, F. T.; Dykstra, R. L. (1988). Order restricted statistical inference. New York: Wiley. ISBN   978-0-471-91787-8.
• Barlow, R. E.; Bartholomew, D. J.; Bremner, J. M.; Brunk, H. D. (1972). Statistical inference under order restrictions; the theory and application of isotonic regression. New York: Wiley. ISBN   978-0-471-04970-8.
• Shively, T.S., Sager, T.W., Walker, S.G. (2009). "A Bayesian approach to non-parametric monotone function estimation". Journal of the Royal Statistical Society, Series B. 71 (1): 159–175. CiteSeerX   10.1.1.338.3846 . doi:10.1111/j.1467-9868.2008.00677.x. S2CID   119761196.
• Wu, W. B.; Woodroofe, M.; Mentz, G. (2001). "Isotonic regression: Another look at the changepoint problem". Biometrika. 88 (3): 793–804. doi:10.1093/biomet/88.3.793.