{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,29]],"date-time":"2026-07-29T15:59:29Z","timestamp":1785340769178,"version":"3.55.0"},"publisher-location":"New York, NY, USA","reference-count":56,"publisher":"ACM","license":[{"start":{"date-parts":[[2026,6,30]],"date-time":"2026-06-30T00:00:00Z","timestamp":1782777600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2026,6,30]]},"DOI":"10.1145\/3807503.3819492","type":"proceedings-article","created":{"date-parts":[[2026,7,29]],"date-time":"2026-07-29T02:55:27Z","timestamp":1785293727000},"page":"1-10","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["PepEDiff: Out-of-Distribution Sampling Peptide Binder Design via Protein Embedding Diffusion"],"prefix":"10.1145","author":[{"ORCID":"https:\/\/orcid.org\/0009-0000-1408-125X","authenticated-orcid":false,"given":"Po-Yu","family":"Liang","sequence":"first","affiliation":[{"name":"Computer Science Department, University of Cincinnati, Cincinnati, Ohio, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0009-6884-3921","authenticated-orcid":false,"given":"Tibo","family":"Duran","sequence":"additional","affiliation":[{"name":"University of California, Riverside, Riverside, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6505-1998","authenticated-orcid":false,"given":"Jun","family":"Bai","sequence":"additional","affiliation":[{"name":"Computer Science Department, University of Cincinnati, Cincinnati, Ohio, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"320","published-online":{"date-parts":[[2026,7,28]]},"reference":[{"key":"e_1_3_3_1_2_2","unstructured":"2025. UniProt: the universal protein knowledgebase in 2025. Nucleic acids research 53 D1 (2025) D609\u2013D617."},{"key":"e_1_3_3_1_3_2","doi-asserted-by":"crossref","unstructured":"Mark\u00a0James Abraham Teemu Murtola Roland Schulz Szil\u00e1rd P\u00e1ll Jeremy\u00a0C Smith Berk Hess and Erik Lindahl. 2015. GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers. SoftwareX 1 (2015) 19\u201325.","DOI":"10.1016\/j.softx.2015.06.001"},{"key":"e_1_3_3_1_4_2","doi-asserted-by":"crossref","unstructured":"Michelle\u00a0R Arkin Yinyan Tang and James\u00a0A Wells. 2014. Small-molecule inhibitors of protein-protein interactions: progressing toward the reality. Chemistry & biology 21 9 (2014) 1102\u20131114.","DOI":"10.1016\/j.chembiol.2014.09.001"},{"key":"e_1_3_3_1_5_2","doi-asserted-by":"crossref","unstructured":"Herman\u00a0JC Berendsen J-Ra\u00fal Grigera and Tjerk\u00a0P Straatsma. 1987. The missing term in effective pair potentials. Journal of Physical Chemistry 91 24 (1987) 6269\u20136271.","DOI":"10.1021\/j100308a038"},{"key":"e_1_3_3_1_6_2","doi-asserted-by":"crossref","unstructured":"Helen\u00a0M Berman John Westbrook Zukang Feng Gary Gilliland Talapady\u00a0N Bhat Helge Weissig Ilya\u00a0N Shindyalov and Philip\u00a0E Bourne. 2000. The protein data bank. Nucleic acids research 28 1 (2000) 235\u2013242.","DOI":"10.1093\/nar\/28.1.235"},{"key":"e_1_3_3_1_7_2","doi-asserted-by":"crossref","unstructured":"Brooke\u00a0N Bullock Andrea\u00a0L Jochim and Paramjit\u00a0S Arora. 2011. Assessing helical protein interfaces for inhibitor design. Journal of the American Chemical Society 133 36 (2011) 14220\u201314223.","DOI":"10.1021\/ja206074j"},{"key":"e_1_3_3_1_8_2","doi-asserted-by":"crossref","unstructured":"Oliviero Carugo and Kristina Djinovi\u0107-Carugo. 2013. Half a century of Ramachandran plots. Biological Crystallography 69 8 (2013) 1333\u20131341.","DOI":"10.1107\/S090744491301158X"},{"key":"e_1_3_3_1_9_2","doi-asserted-by":"crossref","unstructured":"Swaroop Chatterjee Pablo\u00a0G Debenedetti Frank\u00a0H Stillinger and Ruth\u00a0M Lynden-Bell. 2008. A computational investigation of thermodynamics structure dynamics and solvation behavior in modified water models. The Journal of chemical physics 128 12 (2008).","DOI":"10.1063\/1.2841127"},{"key":"e_1_3_3_1_10_2","doi-asserted-by":"crossref","unstructured":"Sidhartha Chaudhury Sergey Lyskov and Jeffrey\u00a0J Gray. 2010. PyRosetta: a script-based interface for implementing molecular modeling algorithms using Rosetta. Bioinformatics 26 5 (2010) 689\u2013691.","DOI":"10.1093\/bioinformatics\/btq007"},{"key":"e_1_3_3_1_11_2","volume-title":"NeurIPS 2025 AI for Science Workshop","author":"Chen Tong","unstructured":"Tong Chen, Zachary Quinn, Yinuo Zhang, and Pranam Chatterjee. [n. d.]. moPPIt-v3: Motif-specific peptides generated via multi-objective-guided discrete flow matching. In NeurIPS 2025 AI for Science Workshop."},{"key":"e_1_3_3_1_12_2","doi-asserted-by":"crossref","unstructured":"Haozhe Cui Mawieh Hamad and Eyad Elkord. 2025. TIGIT in cancer: from mechanism of action to promising immunotherapeutic strategies. Cell Death & Disease 16 1 (2025) 664.","DOI":"10.1038\/s41419-025-07984-4"},{"key":"e_1_3_3_1_13_2","doi-asserted-by":"crossref","unstructured":"Justas Dauparas Ivan Anishchenko Nathaniel Bennett Hua Bai Robert\u00a0J Ragotte Lukas\u00a0F Milles Basile\u00a0IM Wicky Alexis Courbet Rob\u00a0J de Haas Neville Bethel et\u00a0al. 2022. Robust deep learning\u2013based protein sequence design using ProteinMPNN. Science 378 6615 (2022) 49\u201356.","DOI":"10.1126\/science.add2187"},{"key":"e_1_3_3_1_14_2","doi-asserted-by":"crossref","unstructured":"Tibo Duran and Bodhisattwa Chaudhuri. 2024. Where Might Artificial Intelligence Be Going in Pharmaceutical Development?993\u2013995\u00a0pages.","DOI":"10.1021\/acs.molpharmaceut.4c00112"},{"key":"e_1_3_3_1_15_2","doi-asserted-by":"crossref","unstructured":"Ahmed Elnaggar Michael Heinzinger Christian Dallago Ghalia Rehawi Yu Wang Llion Jones Tom Gibbs Tamas Feher Christoph Angerer Martin Steinegger et\u00a0al. 2021. Prottrans: Toward understanding the language of life through self-supervised learning. IEEE transactions on pattern analysis and machine intelligence 44 10 (2021) 7112\u20137127.","DOI":"10.1109\/TPAMI.2021.3095381"},{"key":"e_1_3_3_1_16_2","doi-asserted-by":"crossref","unstructured":"Joe\u00a0G Greener Lewis Moffat and David\u00a0T Jones. 2018. Design of metalloproteins and novel protein folds using variational autoencoders. Scientific reports 8 1 (2018) 16189.","DOI":"10.1038\/s41598-018-34533-1"},{"key":"e_1_3_3_1_17_2","doi-asserted-by":"crossref","unstructured":"Anvita Gupta and James Zou. 2019. Feedback GAN for DNA optimizes protein functions. Nature Machine Intelligence 1 2 (2019) 105\u2013111.","DOI":"10.1038\/s42256-019-0017-4"},{"key":"e_1_3_3_1_18_2","doi-asserted-by":"crossref","unstructured":"Samaneh Hashemi Parisa Vosough Saeed Taghizadeh and Amir Savardashtaki. 2024. Therapeutic peptide development revolutionized: Harnessing the power of artificial intelligence for drug discovery. Heliyon 10 22 (2024).","DOI":"10.1016\/j.heliyon.2024.e40265"},{"key":"e_1_3_3_1_19_2","doi-asserted-by":"crossref","unstructured":"Steven Henikoff and Jorja\u00a0G Henikoff. 1992. Amino acid substitution matrices from protein blocks. Proceedings of the National Academy of Sciences 89 22 (1992) 10915\u201310919.","DOI":"10.1073\/pnas.89.22.10915"},{"key":"e_1_3_3_1_20_2","unstructured":"Jonathan Ho Ajay Jain and Pieter Abbeel. 2020. Denoising diffusion probabilistic models. Advances in neural information processing systems 33 (2020) 6840\u20136851."},{"key":"e_1_3_3_1_21_2","unstructured":"Hoffmann-La Roche. 2025. A Study of Tiragolumab in Combination With Atezolizumab Compared With Placebo in Combination With Atezolizumab in Patients With Previously Untreated Locally Advanced Unresectable or Metastatic PD-L1-Selected Non-Small Cell Lung Cancer (SKYSCRAPER-01). https:\/\/clinicaltrials.gov\/ct2\/show\/NCT04294810. ClinicalTrials.gov Identifier: NCT04294810. Last Update Posted: July 24 2025."},{"key":"e_1_3_3_1_22_2","unstructured":"Hoffmann-La Roche. 2025. A Study of Tiragolumab in Combination With Atezolizumab Plus Pemetrexed and Carboplatin\/Cisplatin Versus Pembrolizumab Plus Pemetrexed and Carboplatin\/Cisplatin in Participants With Previously Untreated Advanced Non-Squamous Non-Small Cell Lung Cancer (SKYSCRAPER-06). https:\/\/clinicaltrials.gov\/ct2\/show\/NCT04619797. ClinicalTrials.gov Identifier: NCT04619797. Last Update Posted: September 8 2025."},{"key":"e_1_3_3_1_23_2","doi-asserted-by":"crossref","unstructured":"Jacob\u00a0N Israelachvili. 1973. Van der Waals forces in biological systems. Quarterly reviews of biophysics 6 4 (1973) 341\u2013387.","DOI":"10.1017\/S0033583500001566"},{"key":"e_1_3_3_1_24_2","doi-asserted-by":"crossref","unstructured":"Shuwen Jin Zihan Zeng Xiyan Xiong Baicheng Huang Li Tang Hongsheng Wang Xiao Ma Xiaochun Tang Guoqing Shao Xingxu Huang et\u00a0al. 2025. AMPGen: an evolutionary information-reserved and diffusion-driven generative model for de novo design of antimicrobial peptides. Communications Biology 8 1 (2025) 1\u201314.","DOI":"10.1038\/s42003-025-08282-7"},{"key":"e_1_3_3_1_25_2","doi-asserted-by":"crossref","unstructured":"William\u00a0L Jorgensen David\u00a0S Maxwell and Julian Tirado-Rives. 1996. Development and testing of the OPLS all-atom force field on conformational energetics and properties of organic liquids. Journal of the american chemical society 118 45 (1996) 11225\u201311236.","DOI":"10.1021\/ja9621760"},{"key":"e_1_3_3_1_26_2","doi-asserted-by":"crossref","unstructured":"John Jumper Richard Evans Alexander Pritzel Tim Green Michael Figurnov Olaf Ronneberger Kathryn Tunyasuvunakool Russ Bates Augustin \u017d\u00eddek Anna Potapenko et\u00a0al. 2021. Highly accurate protein structure prediction with AlphaFold. nature 596 7873 (2021) 583\u2013589.","DOI":"10.1038\/s41586-021-03819-2"},{"key":"e_1_3_3_1_27_2","doi-asserted-by":"crossref","unstructured":"Wolfgang Kabsch and Christian Sander. 1983. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers: Original Research on Biomolecules 22 12 (1983) 2577\u20132637.","DOI":"10.1002\/bip.360221211"},{"key":"e_1_3_3_1_28_2","doi-asserted-by":"crossref","unstructured":"Shankar Kumar John\u00a0M Rosenberg Djamal Bouzida Robert\u00a0H Swendsen and Peter\u00a0A Kollman. 1992. The weighted histogram analysis method for free-energy calculations on biomolecules. I. The method. Journal of computational chemistry 13 8 (1992) 1011\u20131021.","DOI":"10.1002\/jcc.540130812"},{"key":"e_1_3_3_1_29_2","first-page":"109","volume-title":"Methods in enzymology","author":"Leaver-Fay Andrew","year":"2013","unstructured":"Andrew Leaver-Fay, Matthew\u00a0J O\u2019meara, Mike Tyka, Ron Jacak, Yifan Song, Elizabeth\u00a0H Kellogg, James Thompson, Ian\u00a0W Davis, Roland\u00a0A Pache, Sergey Lyskov, et\u00a0al. 2013. Scientific benchmarks for guiding macromolecular energy function improvement. In Methods in enzymology. Vol.\u00a0523. Elsevier, 109\u2013143."},{"key":"e_1_3_3_1_30_2","doi-asserted-by":"crossref","unstructured":"Po-Yu Liang Xueting Huang Tibo Duran Andrew\u00a0J Wiemer and Jun Bai. 2024. Exploring latent space for generating peptide analogs using protein language models. 842\u2013847\u00a0pages.","DOI":"10.1109\/BIBM62325.2024.10821777"},{"key":"e_1_3_3_1_31_2","doi-asserted-by":"crossref","unstructured":"Christopher\u00a0A Lipinski Franco Lombardo Beryl\u00a0W Dominy and Paul\u00a0J Feeney. 2012. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings. Advanced drug delivery reviews 64 (2012) 4\u201317.","DOI":"10.1016\/j.addr.2012.09.019"},{"key":"e_1_3_3_1_32_2","doi-asserted-by":"crossref","unstructured":"Zhenjie Luo Aoyun Geng Leyi Wei Quan Zou Feifei Cui and Zilong Zhang. 2025. CPL-Diff: A Diffusion Model for De Novo Design of Functional Peptide Sequences with Fixed Length. Advanced Science 12 20 (2025) 2412926.","DOI":"10.1002\/advs.202412926"},{"key":"e_1_3_3_1_33_2","unstructured":"Merck Sharp & Dohme LLC. 2025. Coformulation of Pembrolizumab\/Vibostolimab (MK-7684A) Versus Pembrolizumab (MK-3475) Monotherapy for Programmed Cell Death 1 Ligand 1 (PD-L1) Positive Metastatic Non-Small Cell Lung Cancer (MK-7684A-003 KEYVIBE-003). https:\/\/clinicaltrials.gov\/ct2\/show\/NCT04738487. ClinicalTrials.gov Identifier: NCT04738487. Last Update Posted: August 26 2025."},{"key":"e_1_3_3_1_34_2","unstructured":"Merck Sharp & Dohme LLC. 2025. Study of Pembrolizumab\/Vibostolimab Coformulation (MK-7684A) in Combination With Chemotherapy Versus Pembrolizumab Plus Chemotherapy in Participants With Metastatic Non-Small Cell Lung Cancer (MK-7684A-007\/KEYVIBE-007). https:\/\/clinicaltrials.gov\/ct2\/show\/NCT05226598. ClinicalTrials.gov Identifier: NCT05226598. Last Update Posted: February 11 2025."},{"key":"e_1_3_3_1_35_2","doi-asserted-by":"crossref","unstructured":"Saul\u00a0B Needleman and Christian\u00a0D Wunsch. 1970. A general method applicable to the search for similarities in the amino acid sequence of two proteins. Journal of molecular biology 48 3 (1970) 443\u2013453.","DOI":"10.1016\/0022-2836(70)90057-4"},{"key":"e_1_3_3_1_36_2","unstructured":"Alexander\u00a0Quinn Nichol and Prafulla Dhariwal. 2021. Improved denoising diffusion probabilistic models. 8162\u20138171\u00a0pages."},{"key":"e_1_3_3_1_37_2","doi-asserted-by":"crossref","unstructured":"Marian Novotny and Gerard\u00a0J Kleywegt. 2005. A survey of left-handed helices in protein structures. Journal of molecular biology 347 2 (2005) 231\u2013241.","DOI":"10.1016\/j.jmb.2005.01.037"},{"key":"e_1_3_3_1_38_2","doi-asserted-by":"crossref","unstructured":"Saro Passaro Gabriele Corso Jeremy Wohlwend Mateo Reveiz Stephan Thaler Vignesh Ram\u00a0Somnath Noah Getz Tally Portnoi Julien Roy Hannes Stark et\u00a0al. 2025. Boltz-2: Towards Accurate and Efficient Binding Affinity Prediction. BioRxiv (2025) 2025\u201306.","DOI":"10.1101\/2025.06.14.659707"},{"key":"e_1_3_3_1_39_2","doi-asserted-by":"crossref","unstructured":"Marta Pelay-Gimeno Adrian Glas Oliver Koch and Tom\u00a0N Grossmann. 2015. Structure-based design of inhibitors of protein\u2013protein interactions: mimicking peptide binding epitopes. Angewandte Chemie International Edition 54 31 (2015) 8896\u20138927.","DOI":"10.1002\/anie.201412070"},{"key":"e_1_3_3_1_40_2","doi-asserted-by":"publisher","unstructured":"U.\u00a0A. Ramagopal H. Guo D. Samanta S.\u00a0G. Nathenson S.\u00a0C. Almo and New York Structural Genomics Research\u00a0Consortium (NYSGRC). 2010. Structure of T-cell immunoreceptor with immunoglobulin and ITIM domains (TIGIT). 10.2210\/pdb3q0h\/pdbPDB ID: 3Q0H. Deposited 2010-12-15; Released 2011-02-16.","DOI":"10.2210\/pdb3q0h\/pdb"},{"key":"e_1_3_3_1_41_2","doi-asserted-by":"crossref","unstructured":"P\u00a0Douglas Renfrew Timothy\u00a0W Craven Glenn\u00a0L Butterfoss Kent Kirshenbaum and Richard Bonneau. 2014. A rotamer library to enable modeling and design of peptoid foldamers. Journal of the American Chemical Society 136 24 (2014) 8772\u20138782.","DOI":"10.1021\/ja503776z"},{"key":"e_1_3_3_1_42_2","doi-asserted-by":"crossref","unstructured":"Komal Sharma Krishna\u00a0K Sharma Anku Sharma and Rahul Jain. 2023. Peptide-based drug discovery: Current status and recent advances. Drug Discovery Today 28 2 (2023) 103464.","DOI":"10.1016\/j.drudis.2022.103464"},{"key":"e_1_3_3_1_43_2","doi-asserted-by":"crossref","unstructured":"Kim\u00a0T Simons Ingo Ruczinski Charles Kooperberg Brian\u00a0A Fox Chris Bystroff and David Baker. 1999. Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteins. Proteins: Structure Function and Bioinformatics 34 1 (1999) 82\u201395.","DOI":"10.1002\/(SICI)1097-0134(19990101)34:1<82::AID-PROT7>3.0.CO;2-A"},{"key":"e_1_3_3_1_44_2","doi-asserted-by":"crossref","unstructured":"Martin Steinegger and Johannes S\u00f6ding. 2017. MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets. Nature biotechnology 35 11 (2017) 1026\u20131028.","DOI":"10.1038\/nbt.3988"},{"key":"e_1_3_3_1_45_2","doi-asserted-by":"crossref","unstructured":"Katharina\u00a0F Stengel Kristin Harden-Bowles Xin Yu Lionel Rouge Jianping Yin La\u00ebtitia Comps-Agrar Christian Wiesmann J\u00a0Fernando Bazan Dan\u00a0L Eaton and Jane\u00a0L Grogan. 2012. Structure of TIGIT immunoreceptor bound to poliovirus receptor reveals a cell\u2013cell adhesion and signaling mechanism that requires cis-trans receptor clustering. Proceedings of the National Academy of Sciences 109 14 (2012) 5399\u20135404.","DOI":"10.1073\/pnas.1120606109"},{"key":"e_1_3_3_1_46_2","doi-asserted-by":"publisher","unstructured":"A. Stengl M. Zahn and J.O. de Meirelles. 2010. Crystal structure of the human TIGIT in complex with its human poliovirus receptor ligand. RCSB Protein Data Bank. 10.2210\/pdb3Q0H\/pdb","DOI":"10.2210\/pdb3Q0H\/pdb"},{"key":"e_1_3_3_1_47_2","doi-asserted-by":"crossref","unstructured":"Glenn\u00a0M Torrie and John\u00a0P Valleau. 1977. Nonphysical sampling distributions in Monte Carlo free-energy estimation: Umbrella sampling. Journal of computational physics 23 2 (1977) 187\u2013199.","DOI":"10.1016\/0021-9991(77)90121-8"},{"key":"e_1_3_3_1_48_2","unstructured":"A Vaswani. 2017. Attention is all you need. Advances in Neural Information Processing Systems (2017)."},{"key":"e_1_3_3_1_49_2","doi-asserted-by":"crossref","unstructured":"Fangping Wan Daphne Kontogiorgos-Heintz and Cesar de\u00a0la Fuente-Nunez. 2022. Deep generative models for peptide design. Digital Discovery 1 3 (2022) 195\u2013208.","DOI":"10.1039\/D1DD00024A"},{"key":"e_1_3_3_1_50_2","doi-asserted-by":"crossref","unstructured":"Fanhao Wang Yuzhe Wang Laiyi Feng Changsheng Zhang and Luhua Lai. 2024. Target-specific de novo peptide binder design with DiffPepBuilder. Journal of Chemical Information and Modeling 64 24 (2024) 9135\u20139149.","DOI":"10.1021\/acs.jcim.4c00975"},{"key":"e_1_3_3_1_51_2","doi-asserted-by":"crossref","unstructured":"Lei Wang Nanxi Wang Wenping Zhang Xurui Cheng Zhibin Yan Gang Shao Xi Wang Rui Wang and Caiyun Fu. 2022. Therapeutic peptides: current applications and future directions. Signal transduction and targeted therapy 7 1 (2022) 48.","DOI":"10.1038\/s41392-022-00904-4"},{"key":"e_1_3_3_1_52_2","doi-asserted-by":"crossref","unstructured":"Xuefei Wang Duan Ni Yaqin Liu and Shaoyong Lu. 2021. Rational design of peptide-based inhibitors disrupting protein-protein interactions. Frontiers in chemistry 9 (2021) 682675.","DOI":"10.3389\/fchem.2021.682675"},{"key":"e_1_3_3_1_53_2","doi-asserted-by":"crossref","unstructured":"Joseph\u00a0L Watson David Juergens Nathaniel\u00a0R Bennett Brian\u00a0L Trippe Jason Yim Helen\u00a0E Eisenach Woody Ahern Andrew\u00a0J Borst Robert\u00a0J Ragotte Lukas\u00a0F Milles et\u00a0al. 2022. Broadly applicable and accurate protein design by integrating structure prediction networks and diffusion generative models. BioRxiv (2022) 2022\u201312.","DOI":"10.1101\/2022.12.09.519842"},{"key":"e_1_3_3_1_54_2","unstructured":"Fanglei Xue Andrew Kubaney Zhichun Guo Joseph\u00a0K Min Ge Liu Yi Yang and David Baker. 2025. Improving Protein Sequence Design through Designability Preference Optimization. arXiv preprint arXiv:https:\/\/arXiv.org\/abs\/2506.00297 (2025)."},{"key":"e_1_3_3_1_55_2","unstructured":"Fei Ye Zaixiang Zheng Dongyu Xue Yuning Shen Lihao Wang Yiming Ma Yan Wang Xinyou Wang Xiangxin Zhou and Quanquan Gu. 2024. Proteinbench: A holistic evaluation of protein foundation models. arXiv preprint arXiv:https:\/\/arXiv.org\/abs\/2409.06744 (2024)."},{"key":"e_1_3_3_1_56_2","doi-asserted-by":"crossref","unstructured":"Chengxin Zhang Xi Zhang Peter\u00a0L Freddolino and Yang Zhang. 2024. BioLiP2: an updated structure database for biologically relevant ligand\u2013protein interactions. Nucleic Acids Research 52 D1 (2024) D404\u2013D412.","DOI":"10.1093\/nar\/gkad630"},{"key":"e_1_3_3_1_57_2","doi-asserted-by":"crossref","unstructured":"Yang Zhang and Jeffrey Skolnick. 2004. Scoring function for automated assessment of protein structure template quality. Proteins: Structure Function and Bioinformatics 57 4 (2004) 702\u2013710.","DOI":"10.1002\/prot.20264"}],"event":{"name":"BCB '26: 17th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","location":"Rende (CS) Italy","acronym":"BCB '26","sponsor":["SIGBio ACM Special Interest Group on Bioinformatics"]},"container-title":["Proceedings of the 17th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics"],"original-title":[],"link":[{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/3807503.3819492","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,7,29]],"date-time":"2026-07-29T15:14:09Z","timestamp":1785338049000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/3807503.3819492"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,6,30]]},"references-count":56,"alternative-id":["10.1145\/3807503.3819492","10.1145\/3807503"],"URL":"https:\/\/doi.org\/10.1145\/3807503.3819492","relation":{},"subject":[],"published":{"date-parts":[[2026,6,30]]},"assertion":[{"value":"2026-07-28","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}