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1 | 1 | # DO NOT EDIT, GENERATED AUTOMATICALLY |
2 | 2 |
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| 3 | +- id: doi:10.64898/2026.03.17.712340 |
| 4 | + title: 'SELFormerMM: multimodal molecular representation learning via SELFIES, structure, |
| 5 | + text, and knowledge graph integration' |
| 6 | + authors: |
| 7 | + - Erva Ulusoy |
| 8 | + - "\u015Eevval Bostanc\u0131" |
| 9 | + - Bora Engin Deniz |
| 10 | + - "Tunca Do\u011Fan" |
| 11 | + publisher: openRxiv |
| 12 | + date: '2026-03-19' |
| 13 | + link: https://doi.org/hbtf3b |
| 14 | + orcid: 0000-0002-1298-9763 |
| 15 | + plugin: orcid.py |
| 16 | + file: orcid.yaml |
3 | 17 | - id: doi:10.1101/2025.11.05.686382 |
4 | 18 | title: 'ECLIPSE: Exploration of Complex Ligand-Protein Interactions through Learning |
5 | 19 | from Systems-level Heterogeneous Biomedical Knowledge Graphs' |
6 | 20 | authors: |
7 | 21 | - Heval Atas Guvenilir |
8 | 22 | - "Tunca Do\u011Fan" |
9 | | - publisher: Cold Spring Harbor Laboratory |
| 23 | + publisher: openRxiv |
10 | 24 | date: '2025-11-07' |
11 | 25 | link: https://doi.org/g99tmt |
12 | 26 | orcid: 0000-0002-1298-9763 |
|
22 | 36 | - Aybar C. Acar |
23 | 37 | - "Tunca Do\u011Fan" |
24 | 38 | - M. Volkan Atalay |
25 | | - publisher: Cold Spring Harbor Laboratory |
| 39 | + publisher: openRxiv |
26 | 40 | date: '2025-09-19' |
27 | 41 | link: https://doi.org/g939mb |
28 | 42 | orcid: 0000-0002-1298-9763 |
|
59 | 73 | - Jaffar A. Al-Tawfiq |
60 | 74 | - Qiuwei Pan |
61 | 75 | publisher: Journal of Virology |
62 | | - date: '2025-08-11' |
| 76 | + date: '2025-09-23' |
63 | 77 | link: https://doi.org/g9x39h |
64 | 78 | orcid: 0000-0002-1298-9763 |
65 | 79 | plugin: orcid.py |
|
85 | 99 | authors: |
86 | 100 | - Erva Ulusoy |
87 | 101 | - "Tunca Do\u011Fan" |
88 | | - publisher: Cold Spring Harbor Laboratory |
| 102 | + publisher: openRxiv |
89 | 103 | date: '2025-04-24' |
90 | 104 | link: https://doi.org/g9xshp |
91 | 105 | orcid: 0000-0002-1298-9763 |
|
100 | 114 | - Erva Ulusoy |
101 | 115 | - "Ardan Y\u0131lmaz" |
102 | 116 | - "Tunca Do\u011Fan" |
103 | | - publisher: Cold Spring Harbor Laboratory |
| 117 | + publisher: openRxiv |
104 | 118 | date: '2025-04-16' |
105 | 119 | link: https://doi.org/g9xshq |
106 | 120 | orcid: 0000-0002-1298-9763 |
|
138 | 152 | plugin: orcid.py |
139 | 153 | file: orcid.yaml |
140 | 154 | - id: doi:10.1002/pro.4988 |
141 | | - title: "Mutual annotation\u2010based prediction of protein domain functions with\ |
142 | | - \ <scp>Domain2GO</scp>" |
| 155 | + title: "Mutual annotation\u2010based prediction of protein domain functions with\n\ |
| 156 | + \ <scp>Domain2GO</scp>" |
143 | 157 | authors: |
144 | 158 | - Erva Ulusoy |
145 | 159 | - "Tunca Do\u011Fan" |
|
298 | 312 | authors: |
299 | 313 | - Erva Ulusoy |
300 | 314 | - "Tunca Do\u011Fan" |
301 | | - publisher: Cold Spring Harbor Laboratory |
| 315 | + publisher: openRxiv |
302 | 316 | date: '2022-11-04' |
303 | 317 | link: https://doi.org/g9xsh5 |
304 | 318 | orcid: 0000-0002-1298-9763 |
|
327 | 341 | authors: |
328 | 342 | - Heval Atas |
329 | 343 | - "Tunca Do\u011Fan" |
330 | | - publisher: Cold Spring Harbor Laboratory |
| 344 | + publisher: openRxiv |
331 | 345 | date: '2022-05-01' |
332 | 346 | link: https://doi.org/g9xsh7 |
333 | 347 | orcid: 0000-0002-1298-9763 |
|
434 | 448 | - Ian Baxendale |
435 | 449 | - Maria Martin |
436 | 450 | - Rengul Cetin-Atalay |
437 | | - publisher: Cold Spring Harbor Laboratory |
| 451 | + publisher: openRxiv |
438 | 452 | date: '2021-06-14' |
439 | 453 | link: https://doi.org/g9xsjc |
440 | 454 | orcid: 0000-0002-1298-9763 |
|
466 | 480 | - Kemal Turhan |
467 | 481 | - Aybar C. Acar |
468 | 482 | - "Tunca Do\u011Fan" |
469 | | - publisher: Cold Spring Harbor Laboratory |
| 483 | + publisher: openRxiv |
470 | 484 | date: '2020-10-28' |
471 | 485 | link: https://doi.org/g59tf3 |
472 | 486 | orcid: 0000-0002-1298-9763 |
|
489 | 503 | - Rengul Cetin-Atalay |
490 | 504 | - Maria Martin |
491 | 505 | - Volkan Atalay |
492 | | - publisher: Cold Spring Harbor Laboratory |
| 506 | + publisher: openRxiv |
493 | 507 | date: '2020-09-15' |
494 | 508 | link: https://doi.org/gk7dm6 |
495 | 509 | orcid: 0000-0002-1298-9763 |
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