Halil Kilicoglu
Associate Professor
Studies biomedical natural language processing, including extracting knowledge from research papers and assessing reporting quality and citation accuracy.
Halil Kilicoglu's lab at UIUC works on knowledge, QA & retrieval and medical image analysis. 33 papers since 2023, 3 at top venues, mostly JAMIA and ACL. 9 PhD students. Applications close .
At a glance
- papers, 2023–2026
- 9/ year
- at T1 venues
- 9%
- PhD students
- 9
- MS students
- 0
- alumni listed
- —
Papers by yearfrom the lab homepage, 2023–2026
- 7 papers2026 · T1 1 · collecting
- 6 papers2025 · T1 1
- 14 papers2024 · T1 1
- 6 papers2023 · T1 0
T1 venuesOtherVenues: JAMIA, ACL, Bioinformatics, Findings of EMNLP
Research focuspaper titles that use each topic's words
- biomedical14 papers
- Knowledge, QA & retrieval8 papers
- Medical image analysis0 papers
- quality0 papers
- information sciences0 papers
Paper list
From the lab homepage.
20267 papers
- The Journal of NutritionAdvancing Whole-Person Health through Informatics: A Narrative Review of Knowledge Resources for Complementary and Integrative Health. (opens in a new tab)
- ACL (T1)BioHiCL: Hierarchical Multi-Label Contrastive Learning for Biomedical Retrieval with MeSH Labels (opens in a new tab)
- BioNLPDivide-Prompt-Refine: a Training-Free, Structure-Aware Framework for Biomedical Abstract Generation (opens in a new tab)
- DatabaseGoals and strategies for the indexing of publication types and study designs (opens in a new tab)
- ICHIRobust biomedical publication type and study design classification with knowledge-guided perturbations (opens in a new tab)
- PLOS ONEUse as Directed? A Comparison of Software Tools Intended to Check Rigor and Transparency of Published Work (opens in a new tab)
- BioNLPWhen Evidence Conflicts: Uncertainty and Order Effects in Retrieval-Augmented Biomedical Question Answering (opens in a new tab)
20256 papers
- ASIS&TAutomatic Identification of Citation Distortions in Biomedical Literature: A Case Study (opens in a new tab)
- Journal of Biomedical InformaticsBiomedRAG: A retrieval augmented large language model for biomedicine (opens in a new tab)
- JAMIA (T1)DiMB-RE: mining the scientific literature for diet-microbiome associations (opens in a new tab)
- Proceedings of the International Conference on Scientometrics & InformetricsInvestigating Information Propagation in Biomedical Literature through Citations: A Case Study (opens in a new tab)
- Scientific DataSPIRIT-CONSORT-TM: a corpus for assessing transparency of clinical trial protocol and results publications (opens in a new tab)
- CL4HealthTowards Knowledge-Guided Biomedical Lay Summarization using Large Language Models (opens in a new tab)
202414 papers
- BioinformaticsAssessing citation integrity in biomedical publications: corpus annotation and NLP models (opens in a new tab)
- Journal of Biomedical InformaticsAutomatic categorization of self-acknowledged limitations in randomized controlled trial publications (opens in a new tab)
- Journal of Biomedical SemanticsChemical entity normalization for successful translational development of Alzheimer’s disease and dementia therapeutics (opens in a new tab)
- JAMIA (T1)Complementary and Integrative Health Information in the literature: its lexicon and named entity recognition (opens in a new tab)
- Journal of Biomedical InformaticsEnhancing the coverage of SemRep using a relation classification approach (opens in a new tab)
- DatabaseIntegrating deep learning architectures for enhanced biomedical relation extraction: a pipeline approach (opens in a new tab)
- Findings of EMNLPMulti-label Sequential Sentence Classification via Large Language Model (opens in a new tab)
- Natural Language Processing in Biomedicine: A Practical GuideNLP Applications---Biomedical Literature (opens in a new tab)
- JAMA Network OpenPublication of Results of Registered Trials With Published Study Protocols, 2011-2022 (opens in a new tab)
- AMIA Annual Symposium ProceedingsPublication Type Tagging using Transformer Models and Multi-Label Classification (opens in a new tab)
- Scientific ReportsRepurposing non-pharmacological interventions for Alzheimer's disease through link prediction on biomedical literature (opens in a new tab)
- Journal of Biomedical InformaticsSemantics-enabled biomedical literature analytics (opens in a new tab)
20236 papers
- Health Research Policy and SystemsA comment-driven evidence appraisal approach to promoting research findings into practice when only uncertain evidence is available (opens in a new tab)
- AAAI’23 Workshop on Knowledge Augmented Methods for NLPCommonsense-Aware Prompting for Controllable Empathetic Dialogue Generation (opens in a new tab)
- Journal of Biomedical InformaticsDeveloping a knowledge graph for pharmacokinetic natural product-drug interactions (opens in a new tab)
- TrustNLPExamining the Causal Impact of First Names on Language Models: The Case of Social Commonsense Reasoning (opens in a new tab)
- Journal of Clinical EpidemiologyMethodology reporting improved over time in 176,469 randomized controlled trials (opens in a new tab)
- ICHIRepurposing Drugs for Alzheimer's Diseases through Link Prediction on Biomedical Literature (opens in a new tab)
Where alumni went
Alumni are not listed on the lab homepage.
Apply to UIUCFall 2027
UIUC Siebel Computer Science PhD
- Round
- Single round
- Opens
- —
- GRE
- optional
- English
- TOEFL iBT / IELTS
- Fee
- USD 90
Not yet confirmed for this intake.
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Data
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- The alumni list could not be found on the lab site.
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