Title
When repeats drive the vocabulary: a Byte-Pair Encoding analysis of T2T primate genomes Marina Popova Iaroslav Chelombitko Aleksey Komissarov 11 0 0 13 May 2025
Efficient Unstructured Pruning of Mamba State-Space Models for Resource-Constrained Environments Ibne Farabi Shihab Sanjeda Akter Anuj Sharma Mamba 38 0 0 13 May 2025
DNAZEN: Enhanced Gene Sequence Representations via Mixed Granularities of Coding Units Lei Mao Yuanhe Tian Yan Song 16 0 0 04 May 2025
Fast and Low-Cost Genomic Foundation Models via Outlier Removal Haozheng Luo Chenghao Qiu Maojiang Su Zhihan Zhou Zoe Mehta Guo Ye Jerry Yao-Chieh Hu Han Liu AAML 55 0 0 01 May 2025
Beating Transformers using Synthetic Cognition Alfredo Ibias Miguel Rodriguez-Galindo Hector Antona Guillem Ramirez-Miranda Enric Guinovart 31 0 0 10 Apr 2025
Leveraging State Space Models in Long Range Genomics Matvei Popov Aymen Kallala Anirudha Ramesh Narimane Hennouni Shivesh Khaitan Rick Gentry Alain-Sam Cohen Mamba 60 0 0 07 Apr 2025
HELM: Hierarchical Encoding for mRNA Language Modeling Mehdi Yazdani-Jahromi Mangal Prakash Tommaso Mansi Artem Moskalev Rui Liao 84 2 0 13 Mar 2025
Revisiting Convolution Architecture in the Realm of DNA Foundation Models Yu Bo Weian Mao Yanjun Shao Weiqiang Bai Peng Ye Xinzhu Ma Junbo Zhao Hao Chen Chunhua Shen 3DV 58 1 0 25 Feb 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 Y. Yang Stan Z. Li SyDa AI4CE 87 0 0 11 Feb 2025
Longer Attention Span: Increasing Transformer Context Length with Sparse Graph Processing Techniques Nathaniel Tomczak Sanmukh Kuppannagari 91 0 0 31 Jan 2025
BIOSCAN-5M: A Multimodal Dataset for Insect Biodiversity Zahra Gharaee Scott C. Lowe ZeMing Gong Pablo Millán Arias Nicholas Pellegrino ... Lila Kari Dirk Steinke Graham W. Taylor Paul Fieguth Angel X. Chang 44 7 0 28 Jan 2025
State-space models are accurate and efficient neural operators for dynamical systems Zheyuan Hu Nazanin Ahmadi Daryakenari Qianli Shen Kenji Kawaguchi George Karniadakis Mamba AI4CE 64 10 0 28 Jan 2025
Can linguists better understand DNA? Wang Liang 82 1 0 20 Jan 2025
Context Clues: Evaluating Long Context Models for Clinical Prediction Tasks on EHRs Michael Wornow Suhana Bedi Miguel Angel Fuentes Hernandez E. Steinberg Jason Alan Fries Christopher Ré Sanmi Koyejo N. Shah 95 4 0 09 Dec 2024
Specialized Foundation Models Struggle to Beat Supervised Baselines Zongzhe Xu Ritvik Gupta Wenduo Cheng Alexander Shen Junhong Shen Ameet Talwalkar M. Khodak AI4CE 38 6 0 05 Nov 2024
Differentially Private Kernel Density Estimation Erzhi Liu Jerry Yao-Chieh Hu Alex Reneau Zhao Song Han Liu 56 3 0 03 Sep 2024
Genomic Language Models: Opportunities and Challenges Gonzalo Benegas Chengzhong Ye C. Albors Jianan Canal Li Yun S. Song AI4CE LM&MA ELM 37 18 0 16 Jul 2024
Whole Genome Transformer for Gene Interaction Effects in Microbiome Habitat Specificity Zhufeng Li S. S. Cranganore Nicholas D. Youngblut Niki Kilbertus 34 2 0 09 May 2024
Assessing the importance of long-range correlations for deep-learning-based sleep staging Tiezhi Wang Nils Strodthoff 27 1 0 22 Feb 2024
Splicing Up Your Predictions with RNA Contrastive Learning Phil Fradkin Ruian Shi Bo Wang Brendan Frey Leo J. Lee SSL 24 0 0 12 Oct 2023
Embed-Search-Align: DNA Sequence Alignment using Transformer Models Pavan Holur K. Enevoldsen Shreyas Rajesh L. Mboning Thalia Georgiou Louis-S. Bouchard Matteo Pellegrini V. Roychowdhury 8 0 0 20 Sep 2023
FlexConv: Continuous Kernel Convolutions with Differentiable Kernel Sizes David W. Romero Robert-Jan Bruintjes Jakub M. Tomczak Erik J. Bekkers Mark Hoogendoorn J. C. V. Gemert 74 81 0 15 Oct 2021
The Power of Scale for Parameter-Efficient Prompt Tuning Brian Lester Rami Al-Rfou Noah Constant VPVLM 280 3,835 0 18 Apr 2021
Zero-Shot Text-to-Image Generation Aditya A. Ramesh Mikhail Pavlov Gabriel Goh Scott Gray Chelsea Voss Alec Radford Mark Chen Ilya Sutskever VLM 253 4,764 0 24 Feb 2021
Shortformer: Better Language Modeling using Shorter Inputs Ofir Press Noah A. Smith M. Lewis 219 88 0 31 Dec 2020
Big Bird: Transformers for Longer Sequences Manzil Zaheer Guru Guruganesh Kumar Avinava Dubey Joshua Ainslie Chris Alberti ... Philip Pham Anirudh Ravula Qifan Wang Li Yang Amr Ahmed VLM 251 2,009 0 28 Jul 2020