MZ
Marinka Zitnik
cs.LGcs.AIq-bio.QMstat.MLbioinformaticsq-bio.MNcs.CLArtificial Intelligencecs.SIcs.HC
On Valency
published · living versionsW_r98kgkse·v1 · currentpublished
Learning developmental dynamics from lineage context
with Gokul Gowri, Nic Fishman, William N. Colgan, Minming Wang +8
1 version
W_hnuae4q8·v1published
Preprints & journals
198 papers in the corpus · 2013–2026Error-Controlled Decision Policies for Medical Foundation Models.42926583 · Moon, Intae, Jin, Ying, Saleh, Mustafa et al.2026 · 0 citationsmedRxiv : the preprint server for health sciences. 2026
Agentic discovery of blood biomarker from distilled private health records2610.04749v1 · Seffi Cohen, Liat Antwarg Friedman, Amir Anisman et al.2026 · 0 citationsarXiv
When Do Biological Reasoning Models Use Their Biological Inputs?2610.00898v1 · Ada Fang, Nikitha Thoduguli, Lukas Fesser et al.2026 · 0 citationsarXiv
World models for biomedicine.42753693 · Noori, Ayush, Fishman, Nic, Fang, Ada et al.2026 · 0 citationsCell. 2026;189(19):5845-5869
Differential transport patterns by race and ethnicity in very low birth weight infants.42722771 · Kunz, Sarah N, Zitnik, Marinka, Helkey, Daniel et al.2026 · 0 citationsJournal of perinatology : official journal of the California Perinatal Association. 2026
Reflecting on 25 years of cancer research: transformative advances and unmet expectations.42711451 · Balmain, Allan, Bernards, René, Clevers, Hans et al.2026 · 0 citationsNature reviews. Cancer. 2026;26(10):750-755
Do LLMs Know What to Ask and When? Evaluating Multi-Turn Information Seeking2608.14808v1 · Yepeng Huang, Jiawen Zhang, Michelle Dai et al.2026 · 0 citationsarXiv
MatrAIx: Simulating the World with 8.3 Billion Persona Agents2608.04205v1 · Xiaomin Li, Yuexing Hao, Jianheng Hou et al.2026 · 2 citationsarXiv
Activity-cliff awareness enables robust graph learning for molecular property prediction.42680733 · Cui, Chao, Su, Xiaorui, Zhang, Zaixi et al.2026 · 3 citationsNature communications. 2026;17(1)
Kidney function and kidney failure prediction in a large multiethnic population2607.22504v1 · James A. Diao, Morgan Sanchez, Adir Sommer et al.2026 · 0 citationsarXiv
Geranium: Multimodal Retrieval of Genomics Data Visualizations.41973568 · Nguyen, Huyen N, L'Yi, Sehi, Smits, Thomas C et al.2026 · 0 citationsIEEE transactions on visualization and computer graphics. 2026;32(7):6447-6463
An AI agent for treatment reasoning over a biomedical tool universe2606.28692v1 · Shanghua Gao, Ayush Noori, Richard Zhu et al.2026 · 0 citationsarXiv
How Post-Training Shapes Biological Reasoning Models2606.16517v2 · Lukas Fesser, Hanlin Zhang, Michelle M. Li et al.2026 · 0 citationsarXiv
Embeddings of clinical codes enable knowledge-grounded AI in medicine.42277300 · Johnson, Ruth, Gottlieb, Uri, Shaham, Galit et al.2026 · 2 citationsNPJ digital medicine. 2026;9(1)
Benchmarking AI Agents for Addressing Scientific Challenges Across Scales2606.12736v1 · Tianyu Liu, Allen Xin Wang, Antonia Panescu et al.2026 · 1 citationarXiv
AutoScientists: Self-Organizing Agent Teams for Long-Running Scientific Experimentation2605.28655v1 · Shanghua Gao, Ada Fang, Marinka Zitnik2026 · 0 citationsarXiv
StereoPep: Do Molecular Models Understand Stereochemistry? A Benchmark on Synthetic Diastereomeric Peptides10.26434/chemrxiv.15003812/v1 · Michael Desgagné, Amirabbas Kazeminia, Kübra Kaygisiz et al.2026 · 0 citationsChemRxiv
PhylaFlow: Hybrid Flow Matching in Billera-Holmes-Vogtmann Tree Space for Phylogenetic Inference2605.21859v1 · Yasha Ektefaie, Leo Cui, Shrey Jain et al.2026 · 0 citationsarXiv
Toward AI-Powered Cancer Etiology Research.41972758 · Ji, Mengmeng, Zhang, Linying, Zitnik, Marinka et al.2026 · 0 citationsCancer discovery. 2026;16(5):841-846
Unifying biomedical knowledge in a modern multimodal graph2604.27269v3 · Lucas Vittor, Ayush Noori, Inaki Arango et al.2026 · 0 citationsarXiv
Evaluating Relational Reasoning in LLMs with REL2604.12176v2 · Lukas Fesser, Yasha Ektefaie, Ada Fang et al.2026 · 0 citationsarXiv
Phenotypic prediction of missense variants via deep contrastive learning.41981312 · Wen, Jun, Zeng, Sihang, Bonzel, Clara-Lea et al.2026 · 1 citationNature biomedical engineering. 2026
Generalist biological artificial intelligence in modeling the language of life.41862602 · Rao, Vishwanatha M, Zhang, Serena, Plosky, Brian S et al.2026 · 9 citationsNature biotechnology. 2026;44(6):918-933
Unifying the odyssey: artificial intelligence for rare disease diagnosis and therapy.41940139 · Ho, Mai-Lan, Zitnik, Marinka, Azachi, Ronen et al.2026 · 4 citationsHealth and technology. 2026
Qworld: Question-Specific Evaluation Criteria for LLMs2603.23522v2 · Shanghua Gao, Yuchang Su, Pengwei Sui et al.2026 · 0 citationsarXiv
Distribution-Conditioned Transport2603.04736v2 · Nic Fishman, Gokul Gowri, Paolo L. B. Fischer et al.2026 · 0 citationsarXiv
When Sensors Fail: Temporal Sequence Models for Robust PPO under Sensor Drift2603.04648v2 · Kevin Vogt-Lowell, Theodoros Tsiligkaridis, Rodney Lafuente-Mercado et al.2026 · 0 citationsarXiv
Greater than the sum of Its Parts: Building Substructure into Protein Encoding Models.41822145 · Calef, Robert, Liang, Arthur, Kellis, Manolis et al.2026 · 0 citationsArXiv. 2026
Language models reveal evidence gaps in variants of uncertain significance.41867208 · Li, Weijiang, Bhat, Vineel, Yu, Tian et al.2026 · 0 citationsmedRxiv : the preprint server for health sciences. 2026
Adaptive Time Series Reasoning via Segment Selection2602.18645v3 · Shvat Messica, Jiawen Zhang, Kevin Li et al.2026 · 0 citationsarXiv
Generative Artificial Intelligence for Biology: Toward Unifying Models, Algorithms, and Modalities10.26434/chemrxiv.10002066/v3 · Xiner Li, Xingyu Su, Yuchao Lin et al.2026 · 1 citationChemRxiv
GNN101: Visual Learning of Graph Neural Networks in Your Web Browser.41269816 · Lu, Yilin, Chen, Chongwei, Chen, Yuxin et al.2025 · 1 citationIEEE transactions on visualization and computer graphics. 2025;PP
Scaling medical AI across clinical contexts.41634392 · Li, Michelle M, Reis, Ben Y, Rodman, Adam et al.2026 · 14 citationsNature medicine. 2026;32(2):439-448
Autonomous Knowledge Graph Exploration with Adaptive Breadth-Depth Retrieval2601.13969v2 · Joaqu'in Polonuer, Lucas Vittor, Inaki Arango et al.2026 · 0 citationsarXiv
Medea: An omics AI agent for therapeutic discovery.41648610 · Sui, Pengwei, Li, Michelle M, Gao, Shanghua et al.2026 · 7 citationsbioRxiv : the preprint server for biology. 2026
Beyond Affinity: A Benchmark of 1D, 2D, and 3D Methods Reveals Critical Trade-offs in Structure-Based Drug Design2601.14283v1 · Kangyu Zheng, Kai Zhang, Jiale Tan et al.2026 · 0 citationsarXiv
Quantum-machine-assisted drug discovery.42380605 · Zhou, Yidong, Chen, Jintai, Cheng, Jinglei et al.2026 · 12 citationsnpj drug discovery. 2026;3(1)
Greater than the Sum of Its Parts: Building Substructure into Protein Encoding Models2512.18114v2 · Robert Calef, Arthur Liang, Manolis Kellis et al.2025 · 0 citationsarXiv
Graph AI generates neurological hypotheses validated in molecular, organoid, and clinical systems2512.13724v1 · Ayush Noori, Joaqu'in Polonuer, Katharina Meyer et al.2025 · 0 citationsarXiv
CONCERT predicts niche-aware perturbation responses in spatial transcriptomics.41292874 · Lin, Xiang, Kong, Zhenglun, Ghosh, Soumya et al.2025 · 4 citationsbioRxiv : the preprint server for biology. 2025
Protein Structure Tokenization via Geometric Byte Pair Encoding2511.11758v2 · Michael Sun, Weize Yuan, Gang Liu et al.2025 · 2 citationsarXiv
ProCyon: A multimodal foundation model for protein phenotypes.41279541 · Queen, Owen, Huang, Yepeng, Calef, Robert et al.2025 · 12 citationsbioRxiv : the preprint server for biology. 2025
Evolutionary Reasoning Does Not Arise in Standard Usage of Protein Language Models.39896621 · Ektefaie, Yasha, Shen, Andrew, Jain, Lavik et al.2025 · 0 citationsbioRxiv : the preprint server for biology. 2025
Autonomous Agents for Scientific Discovery: Orchestrating Scientists, Language, Code, and Physics2510.09901v2 · Lianhao Zhou, Hongyi Ling, Cong Fu et al.2025 · 1 citationarXiv
A global log for medical AI2510.04033v2 · Ayush Noori, Aaron E. Boussina, Hai Ho Bich et al.2025 · 2 citationsarXiv
KnowGuard: Knowledge-Driven Abstention for Multi-Round Clinical Reasoning2509.24816v1 · Xilin Dang, Kexin Chen, Xiaorui Su et al.2025 · 0 citationsarXiv
ToolUniverse: An open platform for democratizing AI scientists2509.23426v3 · Shanghua Gao, Richard Zhu, Pengwei Sui et al.2025 · 8 citationsarXiv
InfEHR: Clinical phenotype resolution through deep geometric learning on electronic health records.41006287 · Kauffman, Justin, Holmes, Emma, Vaid, Akhil et al.2025 · 7 citationsNature communications. 2025;16(1):8475
TrialBench: Multi-Modal AI-Ready Datasets for Clinical Trial Prediction.41006354 · Chen, Jintai, Hu, Yaojun, Cai, Mingchen et al.2025 · 15 citationsScientific data. 2025;12(1):1564
Multimodal AI predicts clinical outcomes of drug combinations from preclinical data.40093363 · Huang, Yepeng, Su, Xiaorui, Ullanat, Varun et al.2025 · 4 citationsArXiv. 2025
Career total: at least 315 works. 198 are in this corpus.Showing the 50 most recent.
Profile built from the corpus for this byline.
Author records are still filling in while the Hub is in alpha. If this is your page, you'll be able to claim it soon. Spot a mistake? Tell us.