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Kana Shimizu

Publications and source records attributed to Kana Shimizu.

3 recordsLinked to original sources

Differentially private cross-silo federated learning

Strict privacy is of paramount importance in distributed machine learning. Federated learning, with the main idea of communicating only what is needed for learning, has been recently introduced as a general approach for distributed learning to enhance learning and improve security. However, federated learning by itself does not guarantee any privacy for data subjects. To quantify and control how much privacy is compromised in the worst-case, we can use differential privacy. In this paper we combine additively homomorphic secure summation protocols with differential privacy in the so-called cross-silo federated learning setting. The goal is to learn complex models like neural networks while guaranteeing strict privacy for the individual data subjects. We demonstrate that our proposed solutions give prediction accuracy that is comparable to the non-distributed setting, and are fast enough to enable learning models with millions of parameters in a reasonable time. To enable learning under strict privacy guarantees that need privacy amplification by subsampling, we present a general algorithm for oblivious distributed subsampling. However, we also argue that when malicious parties are present, a simple approach using distributed Poisson subsampling gives better privacy. Finally, we show that by leveraging random projections we can further scale-up our approach to larger models while suffering only a modest performance loss.

cs.CR

Differentially Private Bayesian Learning on Distributed Data

Many applications of machine learning, for example in health care, would benefit from methods that can guarantee privacy of data subjects. Differential privacy (DP) has become established as a standard for protecting learning results. The standard DP algorithms require a single trusted party to have access to the entire data, which is a clear weakness. We consider DP Bayesian learning in a distributed setting, where each party only holds a single sample or a few samples of the data. We propose a learning strategy based on a secure multi-party sum function for aggregating summaries from data holders and the Gaussian mechanism for DP. Our method builds on an asymptotically optimal and practically efficient DP Bayesian inference with rapidly diminishing extra cost.

stat.ML

Amino acid composition and thermal stability of protein structures: the free energy geography of the Protein Data Bank

We study the combined influence of amino acid composition and chain length on the thermal stability of protein structures. A new parameterization of the internal free energy is considered, as the sum of hydrophobic effect, hydrogen-bond and de-hydration energy terms. We divided a non-redundant selection of protein structures from the Protein Data Bank into three groups: i) rich in order-promoting residues (OPR proteins); ii) rich in disorder-promoting residues (DPR proteins); iii) belonging to a twilight zone (TZ proteins). We observe a partition of PDB in several groups with different internal free energies, amino acid compositions and protein lengths. Internal free energy of 96% of the proteins analyzed ranges from -2 to -6.5 kJ/mol/res. We found many DPR and OPR proteins with the same relative thermal stability. Only OPR proteins with internal energy between -4 and -6.5 kJ/mol/res are observed to have chains longer than 200 residues, with a high de-hydration energy compensated by the hydrophobic effect. DPR and TZ proteins are shorter than 200 residues and they have an internal energy above -4 kJ/mol/res, with a few exceptions among TZ proteins. Hydrogen-bonds play an important role in the stabilization of these DPR folds, often higher than contact energy. The new parameterization of internal free energy let emerge a geography of thermal stabilities of PDB structures. Amino acid composition per se is not sufficient to determine the stability of protein folds, since. DPR and TZ proteins generally have a relatively high internal free energy, and they are stabilized by hydrogen-bonds. Long DPR proteins are not observed in the PDB, because their low hydrophobicity cannot compensate the high de-hydration energy necessary to accommodate residues within a highly packed globular fold.

q-bio.GN