GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic
Foundation Models

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GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models

1 June 2024

Zicheng Liu

Siyuan Li

Cheng Tan

Stan Z. Li

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Papers citing "GenBench: A Benchmarking Suite for Systematic Evaluation of Genomic Foundation Models"

9 / 9 papers shown

Title
MergeDNA: Context-aware Genome Modeling with Dynamic Tokenization through Token Merging Siyuan Li Kai Yu Anna Wang Zicheng Liu Chang Yu Jingbo Zhou Qirong Yang Yucheng Guo Xiaoming Zhang Stan Z. Li 60 0 0 17 Nov 2025
NABench: Large-Scale Benchmarks of Nucleotide Foundation Models for Fitness Prediction Zhongmin Li Runze Ma Jiahao Tan Chengzi Tan Shuangjia Zheng ELM 72 0 0 04 Nov 2025
Embedding Is (Almost) All You Need: Retrieval-Augmented Inference for Generalizable Genomic Prediction Tasks Nirjhor Datta Swakkhar Shatabda M. Sohel Rahman 32 0 0 06 Aug 2025
Gene42: Long-Range Genomic Foundation Model With Dense Attention Kirill Vishniakov Boulbaba Ben Amor Engin Tekin Nancy A. ElNaker Karthik Viswanathan ... Tiago Magalhaes Natalia Vassilieva Dwarikanath Mahapatra Marco Pimentel and Shadab Khan 3DV 177 0 0 20 Mar 2025
Life-Code: Central Dogma Modeling with Multi-Omics Sequence Unification Zicheng Liu Siyuan Li Zhiyuan Chen Lei Xin Fang Wu Chang Yu Qirong Yang Yucheng Guo Yifan Yang SyDa AI4CE 440 3 0 11 Feb 2025
Does your model understand genes? A benchmark of gene properties for biological and text models Yoav Kan-Tor Michael M. Danziger Eden Zohar Matan Ninio Yishai Shimoni 167 2 0 05 Dec 2024
MOE-Enhanced Explanable Deep Manifold Transformation for Complex Data Embedding and Visualization Z. Zang Yuhao Wang Jinlin Wu Hong Liu Yue Shen Stan Z. Li Zhen Lei 814 0 0 25 Oct 2024
OmniGenBench: Automating Large-scale in-silico Benchmarking for Genomic Foundation Models Heng Yang Jack Cole Ke Li 116 1 0 02 Oct 2024
dnaGrinder: a lightweight and high-capacity genomic foundation model Qihang Zhao Chi Zhang Weixiong Zhang 138 3 0 24 Sep 2024