This paper reports a fully localized, low‑resource framework that runs a trillion‑parameter biomedical large language model on a single consumer‑grade RTX 4060 laptop (32 GB system memory, 8 GB VRAM) and routine clinical workstations. The system completes an entire tumor‑paired whole‑genome sequencing workflow—from raw FASTQ input to a clinical‑grade full‑variation‑spectrum report—in 18 hours at 30× depth, achieving a 99.62 % F1 score for somatic variant detection and over 99.9 % concordance with an industrial‑standard A100 cluster pipeline. The study demonstrates that adaptive heterogeneous memory scheduling accounts for 71 % of execution time and that model optimization adds less than 9 % of detection error, establishing a low‑cost, high‑accuracy pathway for global primary medical institutions to adopt precision oncology without expensive GPU clusters.
By Rui Xiao, Yili Xu
arXiv:2608. 10506v1 Announce Type: cross Abstract: Accurate pre-deployment estimation of CNN inference cost--energy, latency, and peak memory--is increasingly critical as models are deployed on resource-constrained GPU platforms.
By Linh Nguyen, Zhixin Pan
arXiv:2602. 22822v3 Announce Type: replace Abstract: Tandem mass spectrometry (MS/MS) is central to small molecule identification, but current deep learning systems for spectrum prediction still remain difficult to evaluate and deploy in practice.
By Yunhua Zhong, Yixuan Tang, Yifan Li, Pan Liu, Zhiwen Yang, Jie Yang, Jun Xia
TopU-LBVS is a new multi‑target benchmark for ligand‑based virtual screening that addresses shortcomings of existing datasets by using hard‑negative decoys and a fixed 1:40 active‑to‑decoy ratio. It covers 93 protein targets across seven classes, provides three evaluation protocols (full, low‑data, and mini), and includes curated ChEMBL‑35 bioactivity data with property‑matched, structurally similar decoys. The benchmark demonstrates that performance drops sharply when moving from random‑decoy to hard‑negative evaluation, and it releases data, splits, code, and baseline implementations for reproducible comparison.
By Surbhi Kumar, Yuhe Zhou, Varun Shiralkar, Niu Huang, Baris Coskunuzer
ENAS is a hardware‑aware neural architecture search framework tailored for TinyML on microcontrollers. It uses a static feasibility check, a cell‑based search space with various block types and skip connections, and a three‑stage hybrid search strategy (random → top‑K → mutation) with cross‑run caching. The framework runs efficiently without GPUs, achieving significant search‑time speedups and competitive accuracy on Visual Wake Words and Melanoma Cancer benchmarks across a range of microcontrollers.
By Mohd Moin Khan, Naman Srivastava, Pandarasamy Arjunan
Accurate pre-deployment estimation of CNN inference cost--energy, latency, and peak memory--is increasingly critical as models are deployed on resource-constrained GPU platforms. Existing approaches rely on FLOPs, latency measurements, or single-device profiling as energy proxies, overlooking the non-linear interactions between architectural design and hardware load.
arXiv:2608. 19906v1 Announce Type: new Abstract: Accurately ranking active ligands for a target protein pocket from massive chemical libraries remains a central challenge in virtual screening.
By Jia-Qi Lin, Yinghua Yao, Chang-Dong Wang, Yew-Soon Ong, Yuangang Pan
TopU-LBVS is a new multi‑target benchmark for ligand‑based virtual screening that addresses shortcomings of previous datasets by using hard‑negative decoys and a fixed 1:40 active‑to‑decoy ratio. It covers 93 protein targets across seven classes, provides three evaluation protocols (full, low‑data, and mini), and includes curated ChEMBL‑35 bioactivity data with property‑matched, structurally similar decoys to reduce shortcut learning. The benchmark comes with released data, fixed splits, evaluation code, and baseline implementations for reproducible comparison of LBVS and molecular representation methods.
arXiv:2608. 07078v1 Announce Type: cross Abstract: Flexible macromolecular docking offers high-fidelity predictions of biomolecular interactions, but remains prohibitively expensive at scale.
By Xiangyu Meng, Peng Chen, Mingzhen Li, Jianmin Wang, Sen Wang, Guangming Tan, Weile Jia, Mohamed Wahib, Tao Luo, Xun Wang
arXiv:2506. 20686v2 Announce Type: replace-cross Abstract: Recent advances in biomolecular modeling have been catalyzed by models such as AlphaFold3 (AF3), which introduce science-informed changes to the transformer architecture.
By Hoa La, Ahan Gupta, Alex Morehead, Jianlin Cheng, Minjia Zhang
arXiv:2608. 02642v1 Announce Type: cross Abstract: Accelerating scientific discovery is among the most consequential applications of AI, and computational biomolecular simulation stands out as a particularly promising target within this broader effort.
By Nithishwer Mouroug Anand, Wei-Tse Hsu, Kyle Vaccaro, Eden James Gage, Jonathan David Colburn, Linda Xi Phan, Minjoon Seo, Kevin Guan, Philip C. Biggin
arXiv:2609.12551v2 Announce Type: replace-cross
Abstract: AI is beginning to make substantive contributions to LLM inference optimization. Existing AI optimizations are predominantly profiling-based....
By Ziyue Yang, Yuting Jiang, Lei Qu, Peng Cheng