diff --git a/_cite/.cache/66/50/91bf0731e6ba218a937da9fcf5aa.val b/_cite/.cache/63/5d/43f017b318df03ffdd10c248b51d.val similarity index 82% rename from _cite/.cache/66/50/91bf0731e6ba218a937da9fcf5aa.val rename to _cite/.cache/63/5d/43f017b318df03ffdd10c248b51d.val index 19776b52..be1797d1 100644 Binary files a/_cite/.cache/66/50/91bf0731e6ba218a937da9fcf5aa.val and b/_cite/.cache/63/5d/43f017b318df03ffdd10c248b51d.val differ diff --git a/_cite/.cache/cache.db b/_cite/.cache/cache.db index b1b1ef9f..953db5e4 100644 Binary files a/_cite/.cache/cache.db and b/_cite/.cache/cache.db differ diff --git a/_data/citations.yaml b/_data/citations.yaml index b4dd0032..f26de900 100644 --- a/_data/citations.yaml +++ b/_data/citations.yaml @@ -1,12 +1,45 @@ # DO NOT EDIT, GENERATED AUTOMATICALLY +- id: doi:10.64898/2026.04.12.718028 + title: 'CROssBARv2: A Unified Computational Framework for Heterogeneous Biomedical + Data Representation and LLM-Driven Exploration' + authors: + - "B\xFCnyamin \u015Een" + - Erva Ulusoy + - Melih Darcan + - "Mert Erg\xFCn" + - Sebastian Lobentanzer + - Ahmet S. Rifaioglu + - "D\xE9nes T\xFCrei" + - Julio Saez-Rodriguez + - "Tunca Do\u011Fan" + publisher: openRxiv + date: '2026-04-15' + link: https://doi.org/hbxpwg + orcid: 0000-0002-1298-9763 + plugin: orcid.py + file: orcid.yaml +- id: doi:10.64898/2026.03.17.712340 + title: 'SELFormerMM: multimodal molecular representation learning via SELFIES, structure, + text, and knowledge graph integration' + authors: + - Erva Ulusoy + - "\u015Eevval Bostanc\u0131" + - Bora Engin Deniz + - "Tunca Do\u011Fan" + publisher: openRxiv + date: '2026-03-19' + link: https://doi.org/hbtf3b + orcid: 0000-0002-1298-9763 + plugin: orcid.py + file: orcid.yaml - id: doi:10.1101/2025.11.05.686382 title: 'ECLIPSE: Exploration of Complex Ligand-Protein Interactions through Learning from Systems-level Heterogeneous Biomedical Knowledge Graphs' authors: - Heval Atas Guvenilir - "Tunca Do\u011Fan" - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2025-11-07' link: https://doi.org/g99tmt orcid: 0000-0002-1298-9763 @@ -22,7 +55,7 @@ - Aybar C. Acar - "Tunca Do\u011Fan" - M. Volkan Atalay - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2025-09-19' link: https://doi.org/g939mb orcid: 0000-0002-1298-9763 @@ -59,7 +92,7 @@ - Jaffar A. Al-Tawfiq - Qiuwei Pan publisher: Journal of Virology - date: '2025-08-11' + date: '2025-09-23' link: https://doi.org/g9x39h orcid: 0000-0002-1298-9763 plugin: orcid.py @@ -85,7 +118,7 @@ authors: - Erva Ulusoy - "Tunca Do\u011Fan" - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2025-04-24' link: https://doi.org/g9xshp orcid: 0000-0002-1298-9763 @@ -100,7 +133,7 @@ - Erva Ulusoy - "Ardan Y\u0131lmaz" - "Tunca Do\u011Fan" - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2025-04-16' link: https://doi.org/g9xshq orcid: 0000-0002-1298-9763 @@ -138,8 +171,8 @@ plugin: orcid.py file: orcid.yaml - id: doi:10.1002/pro.4988 - title: "Mutual annotation\u2010based prediction of protein domain functions with\ - \ Domain2GO" + title: "Mutual annotation\u2010based prediction of protein domain functions with\n\ + \ Domain2GO" authors: - Erva Ulusoy - "Tunca Do\u011Fan" @@ -298,7 +331,7 @@ authors: - Erva Ulusoy - "Tunca Do\u011Fan" - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2022-11-04' link: https://doi.org/g9xsh5 orcid: 0000-0002-1298-9763 @@ -327,7 +360,7 @@ authors: - Heval Atas - "Tunca Do\u011Fan" - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2022-05-01' link: https://doi.org/g9xsh7 orcid: 0000-0002-1298-9763 @@ -434,7 +467,7 @@ - Ian Baxendale - Maria Martin - Rengul Cetin-Atalay - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2021-06-14' link: https://doi.org/g9xsjc orcid: 0000-0002-1298-9763 @@ -466,7 +499,7 @@ - Kemal Turhan - Aybar C. Acar - "Tunca Do\u011Fan" - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2020-10-28' link: https://doi.org/g59tf3 orcid: 0000-0002-1298-9763 @@ -489,7 +522,7 @@ - Rengul Cetin-Atalay - Maria Martin - Volkan Atalay - publisher: Cold Spring Harbor Laboratory + publisher: openRxiv date: '2020-09-15' link: https://doi.org/gk7dm6 orcid: 0000-0002-1298-9763 diff --git a/_members/busra-ozlem-koc.md b/_members/busra-ozlem-koc.md new file mode 100644 index 00000000..33e799b3 --- /dev/null +++ b/_members/busra-ozlem-koc.md @@ -0,0 +1,18 @@ +--- +name: Büşra Özlem KOÇ +image: images/team/busra-ozlem-koc.jpg +role: undergrad +aliases: + - Büşra Ö. Koç + - Büşra Koç + - B. O. Koç + - Busra Koc +links: + email: bsrozlemkoc@gmail.com + github: https://github.com/bushushow + linkedin: https://www.linkedin.com/in/büşra-özlem-koç-500268247/ +--- + +3rd year Computer Science student at Hacettepe University. + +Interested in machine learning, bioinformatics, and computer vision.