scLong: a billion-parameter foundation model for capturing long-range gene context in single-cell transcriptomics.
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| Title: | scLong: a billion-parameter foundation model for capturing long-range gene context in single-cell transcriptomics. |
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| Authors: | Bai D; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE., Mo S; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE., Zhang R; Department of Electrical and Computer Engineering, University of California San Diego, La Jolla, CA, USA., Luo Y; Machine Learning Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA, USA., Gao J; Department of Medicine, University of California San Diego, La Jolla, CA, USA., Yang JP; Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA, USA., Wu Q; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA., Rahmani H; Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA., Amariuta T; Department of Medicine, University of California San Diego, La Jolla, CA, USA.; Halıcıoğlu Data Science Institute, University of California San Diego, La Jolla, CA, USA., Grotjahn D; Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA., Zhong S; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA., Lewis N; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA.; Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA, USA., Wang W; Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA, USA.; Department of Cellular and Molecular Medicine, School of Medicine, University of California San Diego, La Jolla, CA, USA., Ideker T; Department of Medicine, University of California San Diego, La Jolla, CA, USA.; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA., Xie P; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE. p1xie@ucsd.edu.; Department of Electrical and Computer Engineering, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; Department of Medicine, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; Halıcıoğlu Data Science Institute, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; School of Biological Sciences, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu., Xing E; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE. epxing@cs.cmu.edu.; Machine Learning Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA, USA. epxing@cs.cmu.edu. |
| Source: | Nature communications [Nat Commun] 2026 Feb 05; Vol. 17 (1). Date of Electronic Publication: 2026 Feb 05. |
| Publication Type: | Journal Article |
| Journal Info: | Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE |
| Database: | MEDLINE Ultimate |
| FullText | Text: Availability: 0 |
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| Header | DbId: mdl DbLabel: MEDLINE Ultimate An: 41639087 AccessLevel: 2 PubType: Academic Journal PubTypeId: academicJournal PreciseRelevancyScore: 0 |
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| Items | – Name: Title Label: Title Group: Ti Data: scLong: a billion-parameter foundation model for capturing long-range gene context in single-cell transcriptomics. – Name: Author Label: Authors Group: Au Data: <searchLink fieldCode="AU" term="%22Bai+D%22">Bai D</searchLink>; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE.<br /><searchLink fieldCode="AU" term="%22Mo+S%22">Mo S</searchLink>; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE.<br /><searchLink fieldCode="AU" term="%22Zhang+R%22">Zhang R</searchLink>; Department of Electrical and Computer Engineering, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Luo+Y%22">Luo Y</searchLink>; Machine Learning Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA, USA.<br /><searchLink fieldCode="AU" term="%22Gao+J%22">Gao J</searchLink>; Department of Medicine, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Yang+JP%22">Yang JP</searchLink>; Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Wu+Q%22">Wu Q</searchLink>; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Rahmani+H%22">Rahmani H</searchLink>; Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Amariuta+T%22">Amariuta T</searchLink>; Department of Medicine, University of California San Diego, La Jolla, CA, USA.; Halıcıoğlu Data Science Institute, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Grotjahn+D%22">Grotjahn D</searchLink>; Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Zhong+S%22">Zhong S</searchLink>; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Lewis+N%22">Lewis N</searchLink>; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA.; Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Wang+W%22">Wang W</searchLink>; Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA, USA.; Department of Cellular and Molecular Medicine, School of Medicine, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Ideker+T%22">Ideker T</searchLink>; Department of Medicine, University of California San Diego, La Jolla, CA, USA.; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA.<br /><searchLink fieldCode="AU" term="%22Xie+P%22">Xie P</searchLink>; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE. p1xie@ucsd.edu.; Department of Electrical and Computer Engineering, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; Department of Medicine, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; Department of Bioengineering, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; Halıcıoğlu Data Science Institute, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.; School of Biological Sciences, University of California San Diego, La Jolla, CA, USA. p1xie@ucsd.edu.<br /><searchLink fieldCode="AU" term="%22Xing+E%22">Xing E</searchLink>; Mohamed bin Zayed University of Artificial Intelligence, Masdar City, Abu Dhabi, UAE. epxing@cs.cmu.edu.; Machine Learning Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA, USA. epxing@cs.cmu.edu. – Name: TitleSource Label: Source Group: Src Data: <searchLink fieldCode="JN" term="%22101528555%22">Nature communications</searchLink> [Nat Commun] 2026 Feb 05; Vol. 17 (1). <i>Date of Electronic Publication: </i>2026 Feb 05. – Name: TypePub Label: Publication Type Group: TypPub Data: Journal Article – Name: TitleSource Label: Journal Info Group: Src Data: <i>Publisher: </i><searchLink fieldCode="PB" term="%22Nature+Pub%2E+Group%22">Nature Pub. Group </searchLink><i>Country of Publication: </i>England <i>NLM ID: </i>101528555 <i>Publication Model: </i>Electronic <i>Cited Medium: </i>Internet <i>ISSN: </i>2041-1723 (Electronic) <i>Linking ISSN: </i><searchLink fieldCode="IS" term="%2220411723%22">20411723 </searchLink><i>NLM ISO Abbreviation: </i>Nat Commun <i>Subsets: </i>MEDLINE |
| PLink | https://search.ebscohost.com/login.aspx?direct=true&site=eds-live&db=mdl&AN=41639087 |
| RecordInfo | BibRecord: BibEntity: Identifiers: – Type: doi Value: 10.1038/s41467-026-69102-y Languages: – Code: eng Text: English Titles: – TitleFull: scLong: a billion-parameter foundation model for capturing long-range gene context in single-cell transcriptomics. Type: main BibRelationships: HasContributorRelationships: – PersonEntity: Name: NameFull: Bai D – PersonEntity: Name: NameFull: Mo S – PersonEntity: Name: NameFull: Zhang R – PersonEntity: Name: NameFull: Luo Y – PersonEntity: Name: NameFull: Gao J – PersonEntity: Name: NameFull: Yang JP – PersonEntity: Name: NameFull: Wu Q – PersonEntity: Name: NameFull: Rahmani H – PersonEntity: Name: NameFull: Amariuta T – PersonEntity: Name: NameFull: Grotjahn D – PersonEntity: Name: NameFull: Zhong S – PersonEntity: Name: NameFull: Lewis N – PersonEntity: Name: NameFull: Wang W – PersonEntity: Name: NameFull: Ideker T – PersonEntity: Name: NameFull: Xie P – PersonEntity: Name: NameFull: Xing E IsPartOfRelationships: – BibEntity: Dates: – D: 05 M: 02 Text: 2026 Feb 05 Type: published Y: 2026 Identifiers: – Type: issn-electronic Value: 2041-1723 Numbering: – Type: volume Value: 17 – Type: issue Value: 1 Titles: – TitleFull: Nature communications Type: main |
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