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ORCIDPatterns, Volume 6
Volume 6, Number 1, 2025
- Wentao Jiang, Heng Yuan, Wanjun Liu:
Neuron signal attenuation activation mechanism for deep learning. 101117 - Libo Qin
, Qiguang Chen, Yuhang Zhou, Zhi Chen, Yinghui Li, Lizi Liao, Min Li, Wanxiang Che, Philip S. Yu:
A survey of multilingual large language models. 101118 - Yang Zhang, Andreas Vitalis:
Benchmarking the robustness of the correct identification of flexible 3D objects using common machine learning models. 101147 - Osho Rawal, Berk Turhan, Irene Font Peradejordi, Shreya Chandrasekar, Selim Kalayci, Sacha Gnjatic, Jeffrey Johnson, Mehdi Bouhaddou, Zeynep H. Gümüs:
PhosNetVis: A web-based tool for fast kinase-substrate enrichment analysis and interactive 2D/3D network visualizations of phosphoproteomics data. 101148 - Xilin Shen, Yayan Hou, Xueer Wang, Chunyong Zhang, Jilei Liu, Hongru Shen, Wei Wang, Yichen Yang, Meng Yang, Yang Li, Jin Zhang, Yan Sun, Kexin Chen, Lei Shi, Xiangchun Li:
A deep learning model for characterizing protein-RNA interactions from sequences at single-base resolution. 101150 - Eric Nost, Gretchen Gehrke, Lourdes Vera, Steve Hansen:
Why the Environmental Data & Governance Initiative is archiving public environmental data. 101151 - Andrew L. Hufton:
How we measure our impact. 101152
Volume 6, Number 2, 2025
- Paolo Muratore, Alireza Alemi, Davide Zoccolan:
Unraveling the complexity of rat object vision requires a full convolutional network and beyond. 101149 - Tristan Pelser, Jann Michael Weinand, Patrick Kuckertz, Detlef Stolten:
ETHOS.REFLOW: An open-source workflow for reproducible renewable energy potential assessments. 101172 - Xinmei Yuan, Jiangbiao He, Yutong Li, Yu Liu, Yifan Ma, Bo Bao, Leqi Gu, Lili Li, Hui Zhang, Yucheng Jin, Long Sun:
Data-driven evaluation of electric vehicle energy consumption for generalizing standard testing to real-world driving. 101173 - Weiwei Bian, Baifeng Zhang, Zhengbo Song, Binyamin A. Knisbacher, Yee Man Chan, Chloe Bao, Chunwei Xu, Wenxian Wang, Athena Hoi Yee Chu, Chenyu Lu, Hongxian Wang, Siyu Bao, Zhenyu Gong, Hoi Yee Keung, Zi-Ying Maggie Chow, Yiping Zhang, Wah Cheuk, Gad Getz, Valentina Nardi, Mengsu Yang, William Chi Shing Cho, Jian Wang, Juxiang Chen, Zongli Zheng:
SplitFusion enables ultrasensitive gene fusion detection and reveals fusion variant-associated tumor heterogeneity. 101174 - Chaoyu Lei, Kang Dang, Sifan Song, Zilong Wang, Sien Ping Chew, Ruitong Bian, Xichen Yang, Zhouyu Guan, Claudia Isabel Marques de Abreu Lopes, Mini Hang Wang, Richard Wai Chak Choy, Xiaoyan Hu, Kenneth Ka Hei Lai, Kelvin Kam Lung Chong, Chi Pui Pang, Xuefei Song, Jionglong Su, Xiaowei Ding, Huifang Zhou:
AI-assisted facial analysis in healthcare: From disease detection to comprehensive management. 101175 - Zifan Zheng, Yezhaohui Wang, Yuxin Huang, Shichao Song, Mingchuan Yang, Bo Tang, Feiyu Xiong, Zhiyu Li:
Attention heads of large language models. 101176 - Frans van der Sluis, Egon L. van den Broek:
Model interpretability enhances domain generalization in the case of textual complexity modeling. 101177 - Qiong Wu, Nathan M. Pajor, Yiwen Lu, Charles J. Wolock, Jiayi Tong, Vitaly Lorman, Kevin B. Johnson, Jason H. Moore, Christopher B. Forrest, David A. Asch, Yong Chen:
A latent transfer learning method for estimating hospital-specific post-acute healthcare demands following SARS-CoV-2 infection. 101179 - Christopher Wiedeman, Ge Wang:
Decorrelative network architecture for robust electrocardiogram classification. 101180 - Alejandra Alvarado:
Lessons from the EU AI Act. 101183
Volume 6, Number 3, 2025
- Zhenzhen Wang, Cesar A. Santa-Maria, Aleksander S. Popel, Jeremias Sulam:
Bi-level graph learning unveils prognosis-relevant tumor microenvironment patterns in breast multiplexed digital pathology. 101178 - Joseph Paillard, Jörg F. Hipp, Denis A. Engemann:
GREEN: A lightweight architecture using learnable wavelets and Riemannian geometry for biomarker exploration with EEG signals. 101182 - Chuanpeng Dong, Feifei Zhang, Emily He, Ping Ren, Nipun Verma, Xinxin Zhu, Di Feng, James Cai, Hongyu Zhao, Sidi Chen:
Sensitive detection of synthetic response to cancer immunotherapy driven by gene paralog pairs. 101184
Volume 6, Number 4, 2025
- Pouria Saidi, Gautam Dasarathy, Visar Berisha:
Unraveling overoptimism and publication bias in ML-driven science. 101185 - Zhenyu Luo, Tingkun He, Zhaofeng Lv, Junchao Zhao, Zhining Zhang, Yongyue Wang, Wen Yi, Shangshang Lu, Kebin He, Huan Liu:
Insights into transportation CO2 emissions with big data and artificial intelligence. 101186 - Yuzhu Cai, Sheng Yin, Yuxi Wei, Chenxin Xu, Weibo Mao, Felix Juefei-Xu, Siheng Chen, Yanfeng Wang:
Ethical-Lens: Curbing malicious usages of open-source text-to-image models. 101187 - Kisan Thapa, Meric Kinali, Shichao Pei, Augustin Luna, Özgün Babur:
Strategies to include prior knowledge in omics analysis with deep neural networks. 101203 - Alejandra Alvarado, Wanying Wang, Andrew L. Hufton:
Affirming our commitment to diversity, equity, and inclusion. 101204 - Melissa D. McCradden, Mjaye L. Mazwi, Lauren Oakden-Rayner:
Can an accurate model be bad? 101205 - Paul Trauttmansdorff, Kim M. Hajek:
Data shadows: When data become tangible, material, and fragile. 101206 - Jon Rueda, Txetxu Ausín, Mark Coeckelbergh, Juan Ignacio del Valle, Francisco Lara, Belén Liedo, Joan Llorca Albareda, Heidi Mertes, Robert Ranisch, Vera Lúcia Raposo, Bernd C. Stahl, Murilo Vilaça, Íñigo de Miguel:
Why dignity is a troubling concept for AI ethics. 101207 - Melania Muñoz-García, K. C. Bansal, Yiming Bao, Sarah C. Brinkley, Elena Buzan, David Castle, Martha Lucía Cepeda-Hernández, Solenne Correard, Andrew J. Crawford, Jessica M. da Silva, Manuela da Silva, Sonigitu Ekpe, Elmostafa El Fahime, Annika Engelhardt, Davide Faggionato, Aylin S. Haas, Desiree M. Hautea, Martine Hossaert-McKey, Camila J. Mazzoni, Marcel Jaspars, Sally Katee, John Kress, Alexander Kwarteng, Darío A. Lijtmaer, Seon Lee, Isabel Lopez Noriega, Christopher Lyal, Gyanpriya Maharaj, Ann M. McCartney, Douglas Miano, Joseph Mulema, Guilherme Oliveira, Francis Osiemo Omesa, Pablo Orozco, Jörg Overmann, Anna Poetsch, Christine Prat, Débora S. Raposo, Silvia Restrepo, Fabian Rhoden, Mathieu Rouard, Mahloro Hope Serepa-Dlamini, María Alejandra Sierra Aguilera, Mutsuaki Suzuki, Christian Keambou Tiambo, Martin Wiemers, Linda Wong, Eizadora Yu, Maria Mercedes Zambrano, Jinfeng Zhou, Amber Hartman Scholz:
Navigating COP16's digital sequence information outcomes: What researchers need to do in practice. 101208 - Mingxue Guo, Tingting Zhao, Jianxi Gao, Xin Meng, Ziyou Gao:
Quantifying extreme failure scenarios in transportation systems with graph learning. 101209 - Yasuhiro Iba, Aya Kubota, Yusuke Takeda, Mehmet Oguz Derin, Shin Ikegami, Jörg Mutterlose, Takahiro Harada, Tomonori Takeuchi, Kazuki Tainaka:
Nature visible only digitally. 101210 - Yu-Xiao Liu, Mengshuo Jia, Yongxin Zhang, Jianxiao Wang, Guannan He, Shao-Long Zhong, Zhi-Min Dang:
RePower: An LLM-driven autonomous platform for power system data-guided research. 101211 - Jesus Gonzalez-Ferrer, Mohammed Andres Mostajo-Radji:
Toward automated and explainable high-throughput perturbation analysis in single cells. 101228 - Wouter A. C. van Amsterdam, Nan van Geloven, Jesse H. Krijthe, Rajesh Ranganath, Giovanni Cinà:
When accurate prediction models yield harmful self-fulfilling prophecies. 101229 - Paul Trauttmansdorff, Kim M. Hajek:
Data shadows: When data become tangible, material, and fragile. 101230
Volume 6, Number 5, 2025
- Ben Cardoen, Hanene Ben Yedder, Ivan Robert Nabi, Ghassan Hamarneh:
Closing the multichannel gap through computational reconstruction of interaction in super-resolution microscopy. 101181 - Brandon Theodorou, Anant Dadu, Mike A. Nalls, Faraz Faghri, Jimeng Sun:
SECONDGRAM: Self-conditioned diffusion with gradient manipulation for longitudinal MRI imputation. 101212 - Dong Shu, Bingbing Duan, Kai Guo, Kaixiong Zhou, Jiliang Tang, Mengnan Du:
Aligning large language models and geometric deep models for protein representation. 101227 - Md Sayed Tanveer, Dhruvik Patel, Hunter E. Schweiger, Kwaku Dad Abu-Bonsrah, Brad Watmuff, Azin Azadi, Sergey Pryshchep, Karthikeyan Narayanan, Christopher Puleo, Kannathal Natarajan, Mohammed Andres Mostajo-Radji, Brett J. Kagan, Ge Wang:
Starting a synthetic biological intelligence lab from scratch. 101232 - Pengfei Zhou, Weiqing Min, Chaoran Fu, Ying Jin, Mingyu Huang, Xiangyang Li, Shuhuan Mei, Shuqiang Jiang:
FoodSky: A food-oriented large language model that can pass the chef and dietetic examinations. 101234 - Kisan Thapa, Meric Kinali, Shichao Pei, Augustin Luna, Özgün Babur:
Strategies to include prior knowledge in omics analysis with deep neural networks. 101235
Volume 6, Number 6, 2025
- Frederik F. Flöther, Daniel Blankenberg, Maria Demidik, Karl Jansen, Raga Krishnakumar, Rajiv Krishnakumar, Nouamane Laanait, Laxmi Parida, Carl Y. Saab, Filippo Utro:
How quantum computing can enhance biomarker discovery. 101236 - Jakub Mlost, Rame Dawli, Xuan Liu, Ana Rita Costa, Iskra Pollak Dorocic:
Evaluation of unsupervised learning algorithms for the classification of behavior from pose estimation data. 101237
Volume 6, Number 7, 2025
- Antonio Bikic, Wolfram H. P. Pernice:
Emulating sensation by bridging neuromorphic computing and multisensory integration. 101238 - Karenna Ng, Bryan Briney:
Focused learning by antibody language models using preferential masking of non-templated regions. 101239 - David Moats, Chandrima Ganguly:
Bringing AI participation down to scale. 101241 - Joseph Bingham, Saman A. Zonouz, Dvir Aran:
Fine-Pruning: A biologically inspired algorithm for personalization of machine learning models. 101242 - Xinyan Liu, Hong-Jie Peng:
Harnessing explainable AI to adaptively design catalysts for lithium-sulfur batteries. 101256 - Beatrice Savoldi, Jasmijn Bastings, Luisa Bentivogli, Eva Vanmassenhove:
A decade of gender bias in machine translation. 101257 - Banghao Chen, Zhaofeng Zhang, Nicolas Langrené, Shengxin Zhu:
Unleashing the potential of prompt engineering for large language models. 101260 - Brandon Theodorou, Cao Xiao, Lucas Glass, Jimeng Sun:
MediSim: Multi-granular simulation for enriching longitudinal, multi-modal electronic health records. 101261 - Yi-Fan Li, Xiaoyong Pan, Hong-Bin Shen:
Discovering the nuclear localization signal universe through a deep learning model with interpretable attention units. 101262 - Lauren Higa, Youping Deng:
Highlighting the achievements and impact of women in data science. 101263 - Xiaoyi Chen, Haixu Tang:
Designing a large language model for chemists. 101264 - Anita Graser, Tim Sutton, Marco Bernasocchi:
The QGIS project: Spatial without compromise. 101265 - Hümeyra Husseini-Wüsthoff, Sabine Riethdorf, Andreas Schneeweiss, Andreas Trumpp, Klaus Pantel, Harriet Wikman, Maximilian Nielsen, René Werner:
Cluster-based human-in-the-loop strategy for improving machine learning-based circulating tumor cell detection in liquid biopsy. 101285 - Amy X. Lu, Wilson Yan, Kevin K. Yang, Vladimir Gligorijevic, Kyunghyun Cho, Pieter Abbeel, Richard Bonneau, Nathan C. Frey:
Tokenized and continuous embedding compressions of protein sequence and structure. 101289 - Yilin Ning, Mingxuan Liu, Nan Liu:
Advancing ethical AI in healthcare through interpretability. 101290 - Benjamin C. Lee, David Brooks, Arthur van Benthem, Mariam Elgamal, Udit Gupta, Gage Hills, Vincent Liu, Linh Thi Xuan Phan, Benjamin Pierce, Christopher Stewart, Emma Strubell, Gu-Yeon Wei, Adam Wierman, Yuan Yao, Minlan Yu:
A view of the sustainable computing landscape. 101296 - Miranda Mundt, William E. Hart, Emma S. Johnson, Bethany Nicholson, John D. Siirola:
Pyomo: Accidentally outrunning the bear. 101311 - Jose Guadalupe Hernandez, Anil Kumar Saini, Attri Ghosh, Jason H. Moore:
The tree-based pipeline optimization tool: Tackling biomedical research problems with genetic programming and automated machine learning. 101314 - Mayo Faulkner, Miles Wells:
A conversation with research software engineers at the International Brain Laboratory. 101315 - Ariel Rokem, Vani Mandava, Nicoleta Cristea, Anshul Tambay, Kristofer E. Bouchard, Carolina Berys-Gonzalez, Andy Connolly:
Open-source models for development of data and metadata standards. 101316 - Bernd Bischl, Giuseppe Casalicchio, Taniya Das, Matthias Feurer, Sebastian Fischer, Pieter Gijsbers, Subhaditya Mukherjee, Andreas C. Müller, László Németh, Luis Oala, Lennart Purucker, Sahithya Ravi, Jan N. van Rijn, Prabhant Singh, Joaquin Vanschoren, Jos van der Velde, Marcel Wever:
OpenML: Insights from 10 years and more than a thousand papers. 101317 - Jonathan de Bruin, Peter Lombaers, Casper Kaandorp, Jelle Jasper Teijema, Timo van der Kuil, Berke Yazan, Angie Dong, Rens van de Schoot:
ASReview LAB v.2: Open-source text screening with multiple agents and a crowd of experts. 101318 - Vincent J. Carey:
Bioconductor: Planning a third decade of comprehensive support for genomic data science. 101319 - Neil P. Chue Hong, Selina Aragon, Simon Hettrick, Caroline Jay:
The future of research software is the future of research. 101322 - Andrew L. Hufton:
Open-source software for data science. 101324
Volume 6, Number 8, 2025
- Ge Wang, Feng-Lei Fan:
Dimensionality and dynamics for next-generation artificial neural networks. 101231 - Nina de Lacy, Michael J. Ramshaw, Wai Yin Lam:
RiskPath: Explainable deep learning for multistep biomedical prediction in longitudinal data. 101240 - Shan Cong, Meng Zhang, Yu Song, Sihao Chang, Jing Tian, Hongji Zeng, Hongchao Ji:
Graph-sequence enhanced transformer for template-free prediction of natural product biosynthesis. 101259
Volume 6, Number 9, 2025
- Zhenyue Zhang, Bingjie Li:
Global understanding via local extraction for data clustering and visualization. 101266 - Usman Afzaal, Ziyu Su, Usama Sajjad, Thomas Stack, Hao Lu, Shuo Niu, Abdul Rehman Akbar, Metin Nafi Gürcan, Muhammad Khalid Khan Niazi:
HistoChat: Instruction-tuning multimodal vision language assistant for colorectal histopathology on limited data. 101284 - Kun Xia, Yihuang Hu, Shuntian Cai, Mengjie Lin, Mingzhi Lu, Huadong Lu, Yuhan Ye, Fenglian Lin, Liang Gao, Qingan Xia, Ruihua Tian, Weiping Lin, Lei Xie, Decheng Tan, Yapi Lu, Xunting Lin, Xiaoning Yang, Lingfeng Zhong, Lei Xu, Zhixin Zhang, Liansheng Wang, Jianlin Ren, Hongzhi Xu:
GastritisMIL: An interpretable deep learning model for the comprehensive histological assessment of chronic gastritis. 101286
Volume 6, Number 10, 2025
- Jim Achterberg, Marcel R. Haas, Bram van Dijk, Marco Spruit:
Fidelity-agnostic synthetic data generation improves utility while retaining privacy. 101287 - Ben Cao, Xue Li, Bin Wang, Tiantian He, Yanfen Zheng, Xiaokang Zhang, Qiang Zhang:
Achieving handle-level random access in an encrypted DNA archival storage system via frequency dictionary mapping coding. 101288 - Yongfan Lai, Jiabo Chen, Qinghao Zhao, Deyun Zhang, Yue Wang, Shijia Geng, Hongyan Li, Shenda Hong:
DiffuSETS: 12-Lead ECG generation conditioned on clinical text reports and patient-specific information. 101291 - Tali Malenboim, Nir Grinberg, Robert Moskovitch:
Visualization of associative exploration of temporal concepts via frequent patterns. 101292 - Ruijie Tang, Yuchen Guo, Hengrui Liang, Jianxing He, Yuerong Lizhu, Yaou Liu, Feng Xu:
S2S: A deep learning method for the radiological diagnosis of fine-grained diseases spanning screening to subtyping. 101294 - Mirko Rossini, Felix M. Weidner, Joachim Ankerhold, Hans A. Kestler:
A novel quantum algorithm for efficient attractor search in gene regulatory networks. 101295 - Jingxuan Zhang, Liwen Sun, Neal E. Ready, Wenbo Guo, Lin Lin:
cytoGPNet: Enhancing clinical outcome prediction accuracy using longitudinal cytometry data in small cohort studies. 101297 - Lisa Pilgram, Fida Kamal Dankar, Jörg Drechsler, Mark Elliot, Josep Domingo-Ferrer, Paul Francis, Murat Kantarcioglu, Linglong Kong, Bradley A. Malin, Krishnamurty Muralidhar, Puja Myles, Fabian Prasser, Jean Louis Raisaro, Chao Yan, Khaled El Emam:
A consensus privacy metrics framework for synthetic data. 101320 - Ruowang Li, Luke Benz, Rui Duan, Joshua C. Denny, Hakon Hakonarson, Jonathan D. Mosley, Jordan W. Smoller, Wei-Qi Wei, Thomas Lumley, Marylyn D. Ritchie, Jason H. Moore, Yong Chen:
A one-shot, lossless algorithm for cross-cohort learning in mixed-outcomes analysis. 101321 - Yves Bernaerts, Michael Deistler, Pedro J. Gonçalves, Jonas Beck, Marcel Stimberg, Federico Scala, Andreas S. Tolias, Jakob H. Macke, Dmitry Kobak, Philipp Berens:
Combined statistical-biophysical modeling links ion channel genes to physiology of cortical neuron types. 101323 - Ping Qiu, Qianqian Chen, Hua Qin, Shuangsang Fang, Yilin Zhang, Yanlin Zhang, Tianyi Xia, Lei Cao, Yong Zhang, Xiaodong Fang, Yuxiang Li, Luni Hu:
BioLLM: A standardized framework for integrating and benchmarking single-cell foundation models. 101326 - Erick J. Braham, Jennifer M. Ruddock, James O. Hardin:
Generating and leveraging explanations of AI/ML models in materials and manufacturing research. 101340 - Noam Kolt, Michal Shur-Ofry, Reuven Cohen:
Lessons from complex systems science for AI governance. 101341 - Antonio Bikic, Corinna Kaspar, Wolfram H. P. Pernice:
The cost of unmodeled biological complexity in artificial neural networks. 101343 - Andrew L. Hufton:
Cite what you read, read what you cite. 101344 - Pinar Alper, Flora D'anna, Bert Droesbeke, Munazah Andrabi, Rafael Andrade Buono, Federico Bianchini, Korbinian Bösl, Ishwar Chandramouliswaran, Martin Cook, Daniel Faria, Nazeefa Fatima, Rob W. W. Hooft, Niclas Jareborg, Mijke Jetten, Diana Pilvar, Gil Poires-Oliveira, Marina Popleteeva, Laura Portell-Silva, Jan Slifka, Marek Suchánek, Celia W. G. van Gelder, Danielle Welter, Ulrike Wittig, Frederik Coppens, Carole A. Goble:
RDMkit: A research data management toolkit for life sciences. 101345 - Yizhen Zheng, Huan Yee Koh, Jiaxin Ju, Madeleine Yang, Lauren T. May, Geoffrey I. Webb, Li Li, Shirui Pan, George Church:
Large language models for drug discovery and development. 101346 - Christopher Wood, Hao Wang, Wei-Jun Yang, Yongmei Xi:
Facing the possibility of consciousness in human brain organoids. 101365 - Edith Luhanga:
Human-centric AI: An interview with Edith Luhanga. 101369 - Fengli Xu, Qianyue Hao, Chenyang Shao, Zefang Zong, Yu Li, Jingwei Wang, Yunke Zhang, Jingyi Wang, Xiaochong Lan, Jiahui Gong, Tianjian Ouyang, Fanjin Meng, Yuwei Yan, Qinglong Yang, Yiwen Song, Sijian Ren, Xinyuan Hu, Jie Feng, Chen Gao, Yong Li:
Toward large reasoning models: A survey of reinforced reasoning with large language models. 101370 - Bin Feng, Zijing Liu, Hao Li, Mingjun Yang, Junjie Zou, He Cao, Yu Li, Lei Zhang, Sheng Wang:
Hierarchical affinity landscape navigation through learning a shared pocket-ligand space. 101371 - Shuxiang Cao, Zijian Zhang, Mohammed Alghadeer, Simone D. Fasciati, Michele Piscitelli, Mustafa Bakr, Peter Leek, Alán Aspuru-Guzik:
Automating quantum computing laboratory experiments with an agent-based AI framework. 101372 - Moinak Bhaduri:
Are individuals who are positive about artificial intelligence also more unsure? 101374 - Preeti Patel, Ganesh Mani:
How our advisory board members are using generative AI in teaching. 101389 - Wanjing Huang, Qiang Xu, Sheng Liu:
Linking ion channel gene expression to neuronal firing patterns through a statistical-biophysical model. 101390 - Sarthak Pati:
From screening to subtyping in a single glance. 101391
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