PDB-Struct: A Comprehensive Benchmark for Structure-based Protein Design

1 code implementation • 30 Nov 2023 • Chuanrui Wang, Bozitao Zhong, Zuobai Zhang, Narendra Chaudhary, Sanchit Misra, Jian Tang

Structure-based protein design has attracted increasing interest, with numerous methods being introduced in recent years.

Protein Design Protein Structure Prediction

Accelerating Barnes-Hut t-SNE Algorithm by Efficient Parallelization on Multi-Core CPUs

no code implementations • 22 Dec 2022 • Narendra Chaudhary, Alexander Pivovar, Pavel Yakovlev, Andrey Gorshkov, Sanchit Misra

t-SNE remains one of the most popular embedding techniques for visualizing high-dimensional data.

Efficient and Generic 1D Dilated Convolution Layer for Deep Learning

1 code implementation • 16 Apr 2021 • Narendra Chaudhary, Sanchit Misra, Dhiraj Kalamkar, Alexander Heinecke, Evangelos Georganas, Barukh Ziv, Menachem Adelman, Bharat Kaul

Finally, we demonstrate the performance of our optimized 1D convolution layer by utilizing it in the end-to-end neural network training with real genomics datasets and achieve up to 6. 86x speedup over the oneDNN library-based implementation on Cascade Lake CPUs.

Image Classification speech-recognition +1

Tensor Processing Primitives: A Programming Abstraction for Efficiency and Portability in Deep Learning & HPC Workloads

2 code implementations • 12 Apr 2021 • Evangelos Georganas, Dhiraj Kalamkar, Sasikanth Avancha, Menachem Adelman, Deepti Aggarwal, Cristina Anderson, Alexander Breuer, Jeremy Bruestle, Narendra Chaudhary, Abhisek Kundu, Denise Kutnick, Frank Laub, Vasimuddin Md, Sanchit Misra, Ramanarayan Mohanty, Hans Pabst, Brian Retford, Barukh Ziv, Alexander Heinecke

The TPP specification is platform-agnostic, thus code expressed via TPPs is portable, whereas the TPP implementation is highly-optimized and platform-specific.