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Sotiris Xantheas

Publications and source records attributed to Sotiris Xantheas.

3 recordsLinked to original sources

Efficient first-principles modeling of complex molecular crystals at sub-chemical accuracy

Molecules can form myriad crystalline polymorphs, each with distinct properties affecting their performance across diverse applications, from pharmaceuticals to functional materials and more. Predicting the thermodynamically most stable polymorph from first principles remains a formidable challenge. It requires methods that scale to large, technologically-relevant molecules while achieving very high accuracy (below 1 kJ/mol) on relative lattice energies. Such accuracy, often termed sub-chemical accuracy, is generally beyond the reach of the workhorse density functional theory (DFT). In this work, we introduce a framework, combining advances in correlated wavefunction theory (cWFT) and the many-body expansion, to deliver accurate, cost-effective predictions of complex molecular crystals. For 23 organic molecules and 13 ice polymorphs, we predict crystal lattice energies to within experimental uncertainties at costs comparable to hybrid DFT, while being several orders of magnitude more efficient than previous cWFT approaches. We extend this approach to a set of large, drug-like molecules including axitinib and ROY, previously inaccessible to cWFT and where DFT is insufficient, achieving sub-chemical accuracy on the relative energies between challenging polymorphs. With the reference data generated throughout this work, we have been able to further parametrize a DFT functional with unprecedented accuracy aligning with our predictions. This cWFT framework as well as DFT functional are made openly available, providing new ranking tools to facilitate efficient high-throughput screening of molecular crystal polymorphs.

cond-mat.mtrl-sci

Extreme Acceleration of Graph Neural Network-based Prediction Models for Quantum Chemistry

Molecular property calculations are the bedrock of chemical physics. High-fidelity \textit{ab initio} modeling techniques for computing the molecular properties can be prohibitively expensive, and motivate the development of machine-learning models that make the same predictions more efficiently. Training graph neural networks over large molecular databases introduces unique computational challenges such as the need to process millions of small graphs with variable size and support communication patterns that are distinct from learning over large graphs such as social networks. This paper demonstrates a novel hardware-software co-design approach to scale up the training of graph neural networks for molecular property prediction. We introduce an algorithm to coalesce the batches of molecular graphs into fixed size packs to eliminate redundant computation and memory associated with alternative padding techniques and improve throughput via minimizing communication. We demonstrate the effectiveness of our co-design approach by providing an implementation of a well-established molecular property prediction model on the Graphcore Intelligence Processing Units (IPU). We evaluate the training performance on multiple molecular graph databases with varying degrees of graph counts, sizes and sparsity. We demonstrate that such a co-design approach can reduce the training time of such molecular property prediction models from days to less than two hours, opening new possibilities for AI-driven scientific discovery.

cs.LG

Massively parallel quantum chemical density matrix renormalization group method

We present, to the best of our knowlegde, the first attempt to exploit the supercomputer platform for quantum chemical density matrix renormalization group (QC-DMRG) calculations. We have developed the parallel scheme based on the in-house MPI global memory library, which combines operator and symmetry sector parallelisms, and tested its performance on three different molecules, all typical candidates for QC-DMRG calculations. In case of the largest calculation, which is the nitrogenase FeMo cofactor cluster with the active space comprising 113 electrons in 76 orbitals and bond dimension equal to 6000, our parallel approach scales up to approximately 2000 CPU cores.

physics.chem-ph