{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,8]],"date-time":"2026-03-08T01:40:54Z","timestamp":1772934054065,"version":"3.50.1"},"reference-count":38,"publisher":"IEEE","license":[{"start":{"date-parts":[[2025,12,8]],"date-time":"2025-12-08T00:00:00Z","timestamp":1765152000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2025,12,8]],"date-time":"2025-12-08T00:00:00Z","timestamp":1765152000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"}],"funder":[{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["2334665,2334666"],"award-info":[{"award-number":["2334665,2334666"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["1R01DK129428-01A1"],"award-info":[{"award-number":["1R01DK129428-01A1"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,12,8]]},"DOI":"10.1109\/bigdata66926.2025.11400792","type":"proceedings-article","created":{"date-parts":[[2026,3,6]],"date-time":"2026-03-06T20:57:57Z","timestamp":1772830677000},"page":"1113-1122","source":"Crossref","is-referenced-by-count":0,"title":["FACT: Gated Fusion-Augmented Causal Mask Transformer for Pseudotime Analysis"],"prefix":"10.1109","author":[{"given":"Zhen","family":"Lu","sequence":"first","affiliation":[{"name":"University of Massachusetts Boston,Department of Computer Science,Boston,United State"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chengjie","family":"Zheng","sequence":"additional","affiliation":[{"name":"University of Massachusetts Boston,Department of Computer Science,Boston,United State"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Iris","family":"Shen","sequence":"additional","affiliation":[{"name":"Winsor School,Boston,United State"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"John","family":"Quackenbush","sequence":"additional","affiliation":[{"name":"Harvard T.H. Chan School of Public Health,Department of Biostatistics,Boston,United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Viola","family":"Fanfani","sequence":"additional","affiliation":[{"name":"Harvard T.H. Chan School of Public Health,Department of Biostatistics,Boston,United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Wei","family":"Ding","sequence":"additional","affiliation":[{"name":"University of Massachusetts Boston,Department of Computer Science,Boston,United State"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ping","family":"Chen","sequence":"additional","affiliation":[{"name":"University of Massachusetts Boston,Department of Engineering,Boston,United State"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"263","reference":[{"key":"ref1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-023-42841-y"},{"key":"ref2","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-023-05179-2"},{"key":"ref3","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.134078.1"},{"key":"ref4","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.4402"},{"key":"ref5","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btv325"},{"key":"ref6","doi-asserted-by":"publisher","DOI":"10.1038\/s41592-024-02201-0"},{"key":"ref7","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-019-0071-9"},{"key":"ref8","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1012752"},{"key":"ref9","doi-asserted-by":"publisher","DOI":"10.1038\/s41592-024-02378-4"},{"key":"ref10","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-021-22197-x"},{"key":"ref11","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.2859"},{"key":"ref12","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.3971"},{"key":"ref13","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-018-4772-0"},{"issue":"2","key":"ref14","first-page":"btaf027","article-title":"Trajectory inference with cell-cell interactions (ticci): intercellular communication-aware pseudotime inference","volume":"41","author":"Names","year":"2024","journal-title":"Bioinformatics"},{"key":"ref15","article-title":"On permutation-invariant neural networks","author":"Kimura","year":"2024","journal-title":"arXiv preprint arXiv"},{"key":"ref16","first-page":"3744","article-title":"Set transformer: A framework for attention-based permutationinvariant neural networks","volume-title":"International Conference on Machine Learning","author":"Lee","year":"2019"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.1109\/BigData62323.2024.10826081"},{"key":"ref18","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-020-0591-3"},{"key":"ref19","doi-asserted-by":"publisher","DOI":"10.52202\/075280-1366"},{"key":"ref20","doi-asserted-by":"publisher","DOI":"10.52202\/075280-1826"},{"key":"ref21","doi-asserted-by":"publisher","DOI":"10.1109\/TKDE.2024.3484461"},{"key":"ref22","doi-asserted-by":"publisher","DOI":"10.52202\/079017-0821"},{"key":"ref23","article-title":"Diffsurv: Differentiable sorting for censored time-toevent data","author":"Vauvelle","year":"2023","journal-title":"arXiv preprint arXiv"},{"key":"ref24","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz682"},{"key":"ref25","doi-asserted-by":"publisher","DOI":"10.1145\/3458754"},{"key":"ref26","article-title":"Stablemask: Refining causal masking in decoderonly transformer","author":"Yin","year":"2024","journal-title":"arXiv preprint arXiv"},{"key":"ref27","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-031-36819-6_22"},{"key":"ref28","doi-asserted-by":"publisher","DOI":"10.1109\/ICCV51070.2023.01213"},{"key":"ref29","first-page":"9472","article-title":"Dags with no tears: Continuous optimization for structure learning","author":"Zheng","year":"2018","journal-title":"Advances in Neural Information Processing Systems"},{"key":"ref30","doi-asserted-by":"publisher","DOI":"10.1109\/ICCV51070.2023.01610"},{"key":"ref31","article-title":"Learning latent permutations with gumbel-sinkhorn networks","volume-title":"International Conference on Learning Representations (ICLR)","author":"Mena","year":"2018"},{"key":"ref32","doi-asserted-by":"publisher","DOI":"10.1145\/1102351.1102363"},{"issue":"1","key":"ref33","first-page":"5063","article-title":"Single-cell transcriptomics reveals novel biological and clinical insights into lung cancer progression","volume":"11","author":"Kim","year":"2020","journal-title":"Nature Communications"},{"key":"ref34","doi-asserted-by":"publisher","DOI":"10.1609\/aaai.v35i12.17325"},{"key":"ref35","article-title":"Deep set prediction networks","volume":"32","author":"Zhang","year":"2019","journal-title":"Advances in Neural Information Processing Systems"},{"key":"ref36","first-page":"18932","article-title":"Revisiting deep learning models for tabular data","volume":"34","author":"Gorishniy","year":"2021","journal-title":"Advances in neural information processing systems"},{"key":"ref37","article-title":"Deep graph contrastive representation learning","author":"Zhu","year":"2020","journal-title":"arXiv preprint arXiv"},{"key":"ref38","article-title":"Large-scale representation learning on graphs via bootstrapping","author":"Thakoor","year":"2021","journal-title":"arXiv preprint arXiv"}],"event":{"name":"2025 IEEE International Conference on Big Data (BigData)","location":"Macau, China","start":{"date-parts":[[2025,12,8]]},"end":{"date-parts":[[2025,12,11]]}},"container-title":["2025 IEEE International Conference on Big Data (BigData)"],"original-title":[],"link":[{"URL":"http:\/\/xplorestaging.ieee.org\/ielx8\/11400704\/11400712\/11400792.pdf?arnumber=11400792","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,3,7]],"date-time":"2026-03-07T06:58:28Z","timestamp":1772866708000},"score":1,"resource":{"primary":{"URL":"https:\/\/ieeexplore.ieee.org\/document\/11400792\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,12,8]]},"references-count":38,"URL":"https:\/\/doi.org\/10.1109\/bigdata66926.2025.11400792","relation":{},"subject":[],"published":{"date-parts":[[2025,12,8]]}}}