Multi-context genetic modeling of transcriptional regulation resolves novel disease loci
Transcriptome-wide association studies (TWAS) often ignore the specificity and sharing of effects across contexts (e.g., tissues). Here, the authors describe a method to split genetic effects into context-shared and context-specific terms. They apply their method to tissue and single-cell RNA-seq an...
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2022-09-01
|
| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-022-33212-0 |
| _version_ | 1811253503194038272 |
|---|---|
| author | Mike Thompson Mary Grace Gordon Andrew Lu Anchit Tandon Eran Halperin Alexander Gusev Chun Jimmie Ye Brunilda Balliu Noah Zaitlen |
| author_facet | Mike Thompson Mary Grace Gordon Andrew Lu Anchit Tandon Eran Halperin Alexander Gusev Chun Jimmie Ye Brunilda Balliu Noah Zaitlen |
| author_sort | Mike Thompson |
| collection | DOAJ |
| description | Transcriptome-wide association studies (TWAS) often ignore the specificity and sharing of effects across contexts (e.g., tissues). Here, the authors describe a method to split genetic effects into context-shared and context-specific terms. They apply their method to tissue and single-cell RNA-seq and show improved power in TWAS. |
| first_indexed | 2024-04-12T16:52:58Z |
| format | Article |
| id | doaj.art-a40a64f23b1e496faf8be74f3f60563c |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-04-12T16:52:58Z |
| publishDate | 2022-09-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-a40a64f23b1e496faf8be74f3f60563c2022-12-22T03:24:21ZengNature PortfolioNature Communications2041-17232022-09-0113111510.1038/s41467-022-33212-0Multi-context genetic modeling of transcriptional regulation resolves novel disease lociMike Thompson0Mary Grace Gordon1Andrew Lu2Anchit Tandon3Eran Halperin4Alexander Gusev5Chun Jimmie Ye6Brunilda Balliu7Noah Zaitlen8Department of Computer Science, University of California Los AngelesDepartment of Bioengineering and Therapeutic Sciences, University of California, San FranciscoUCLA-Caltech Medical Scientist Training Program, David Geffen School of Medicine, University of California Los AngelesDepartment of Mathematics, Indian Institute of Technology DelhiDepartment of Computer Science, University of California Los AngelesDepartment of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical SchoolDepartment of Bioengineering and Therapeutic Sciences, University of California, San FranciscoDepartment of Computational Medicine, University of California Los AngelesDepartment of Computer Science, University of California Los AngelesTranscriptome-wide association studies (TWAS) often ignore the specificity and sharing of effects across contexts (e.g., tissues). Here, the authors describe a method to split genetic effects into context-shared and context-specific terms. They apply their method to tissue and single-cell RNA-seq and show improved power in TWAS.https://doi.org/10.1038/s41467-022-33212-0 |
| spellingShingle | Mike Thompson Mary Grace Gordon Andrew Lu Anchit Tandon Eran Halperin Alexander Gusev Chun Jimmie Ye Brunilda Balliu Noah Zaitlen Multi-context genetic modeling of transcriptional regulation resolves novel disease loci Nature Communications |
| title | Multi-context genetic modeling of transcriptional regulation resolves novel disease loci |
| title_full | Multi-context genetic modeling of transcriptional regulation resolves novel disease loci |
| title_fullStr | Multi-context genetic modeling of transcriptional regulation resolves novel disease loci |
| title_full_unstemmed | Multi-context genetic modeling of transcriptional regulation resolves novel disease loci |
| title_short | Multi-context genetic modeling of transcriptional regulation resolves novel disease loci |
| title_sort | multi context genetic modeling of transcriptional regulation resolves novel disease loci |
| url | https://doi.org/10.1038/s41467-022-33212-0 |
| work_keys_str_mv | AT mikethompson multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT marygracegordon multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT andrewlu multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT anchittandon multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT eranhalperin multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT alexandergusev multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT chunjimmieye multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT brunildaballiu multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci AT noahzaitlen multicontextgeneticmodelingoftranscriptionalregulationresolvesnoveldiseaseloci |