Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortex
Summary: Here, we present a protocol for differential multi-omic analyses of distinct cell types in the developing mouse cerebral cortex. We describe steps for in utero electroporation, subsequent flow-cytometry-based isolation of developing mouse cortical cells, bulk RNA sequencing or quantitative...
| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2024-03-01
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| Series: | STAR Protocols |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2666166723007608 |
| _version_ | 1797372968344485888 |
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| author | Durga Praveen Meka Melanie Richter Tabitha Rücker Hannah Voss Anne Rissiek Christoph Krisp Nisha Hemandhar Kumar Birgit Schwanke Eugenio F. Fornasiero Hartmut Schlüter Froylan Calderon de Anda |
| author_facet | Durga Praveen Meka Melanie Richter Tabitha Rücker Hannah Voss Anne Rissiek Christoph Krisp Nisha Hemandhar Kumar Birgit Schwanke Eugenio F. Fornasiero Hartmut Schlüter Froylan Calderon de Anda |
| author_sort | Durga Praveen Meka |
| collection | DOAJ |
| description | Summary: Here, we present a protocol for differential multi-omic analyses of distinct cell types in the developing mouse cerebral cortex. We describe steps for in utero electroporation, subsequent flow-cytometry-based isolation of developing mouse cortical cells, bulk RNA sequencing or quantitative liquid chromatography-tandem mass spectrometry, and bioinformatic analyses. This protocol can be applied to compare the proteomes and transcriptomes of developing mouse cortical cell populations after various manipulations (e.g., epigenetic).For complete details on the use and execution of this protocol, please refer to Meka et al. (2022).1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| first_indexed | 2024-03-08T18:42:29Z |
| format | Article |
| id | doaj.art-eee56e1f1edb44948be54c5032d54001 |
| institution | Directory Open Access Journal |
| issn | 2666-1667 |
| language | English |
| last_indexed | 2024-03-08T18:42:29Z |
| publishDate | 2024-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj.art-eee56e1f1edb44948be54c5032d540012023-12-29T04:46:10ZengElsevierSTAR Protocols2666-16672024-03-0151102793Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortexDurga Praveen Meka0Melanie Richter1Tabitha Rücker2Hannah Voss3Anne Rissiek4Christoph Krisp5Nisha Hemandhar Kumar6Birgit Schwanke7Eugenio F. Fornasiero8Hartmut Schlüter9Froylan Calderon de Anda10RG Neuronal Development, Center for Molecular Neurobiology, University Medical Center Hamburg-Eppendorf, 20251 Hamburg, GermanyRG Neuronal Development, Center for Molecular Neurobiology, University Medical Center Hamburg-Eppendorf, 20251 Hamburg, GermanyRG Neuronal Development, Center for Molecular Neurobiology, University Medical Center Hamburg-Eppendorf, 20251 Hamburg, Germany; Corresponding authorInstitute for Clinical Chemistry and Laboratory Medicine, Mass Spectrometric Proteomics Group, Campus Forschung, University Medical Center Hamburg-Eppendorf, 20246 Hamburg, GermanyCytometry und Cell Sorting Core Unit, Department of Stem Cell Transplantation, University Medical Centre Hamburg-Eppendorf, Hamburg, GermanyInstitute for Clinical Chemistry and Laboratory Medicine, Mass Spectrometric Proteomics Group, Campus Forschung, University Medical Center Hamburg-Eppendorf, 20246 Hamburg, GermanyDepartment of Neuro- and Sensory Physiology, University Medical Center Göttingen, 37073 Göttingen, GermanyRG Neuronal Development, Center for Molecular Neurobiology, University Medical Center Hamburg-Eppendorf, 20251 Hamburg, GermanyDepartment of Neuro- and Sensory Physiology, University Medical Center Göttingen, 37073 Göttingen, Germany; Department of Life Sciences, University of Trieste, 34127 Trieste, ItalyDiagnostic Center, Section Mass Spectrometric Proteomics Group, Campus Forschung, University Medical Center Hamburg-Eppendorf, 20246 Hamburg, Germany; Corresponding authorRG Neuronal Development, Center for Molecular Neurobiology, University Medical Center Hamburg-Eppendorf, 20251 Hamburg, Germany; Corresponding authorSummary: Here, we present a protocol for differential multi-omic analyses of distinct cell types in the developing mouse cerebral cortex. We describe steps for in utero electroporation, subsequent flow-cytometry-based isolation of developing mouse cortical cells, bulk RNA sequencing or quantitative liquid chromatography-tandem mass spectrometry, and bioinformatic analyses. This protocol can be applied to compare the proteomes and transcriptomes of developing mouse cortical cell populations after various manipulations (e.g., epigenetic).For complete details on the use and execution of this protocol, please refer to Meka et al. (2022).1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.http://www.sciencedirect.com/science/article/pii/S2666166723007608BioinformaticsGenomicsRNA-seqNeuroscienceProteomics |
| spellingShingle | Durga Praveen Meka Melanie Richter Tabitha Rücker Hannah Voss Anne Rissiek Christoph Krisp Nisha Hemandhar Kumar Birgit Schwanke Eugenio F. Fornasiero Hartmut Schlüter Froylan Calderon de Anda Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortex STAR Protocols Bioinformatics Genomics RNA-seq Neuroscience Proteomics |
| title | Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortex |
| title_full | Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortex |
| title_fullStr | Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortex |
| title_full_unstemmed | Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortex |
| title_short | Protocol for differential multi-omic analyses of distinct cell types in the mouse cerebral cortex |
| title_sort | protocol for differential multi omic analyses of distinct cell types in the mouse cerebral cortex |
| topic | Bioinformatics Genomics RNA-seq Neuroscience Proteomics |
| url | http://www.sciencedirect.com/science/article/pii/S2666166723007608 |
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