Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples
Spatial transcriptomics relies on RNA quality, which is variable and dependent on sample handling, storage, and/or intrinsic factors. Here, authors present a genome-wide spatial gene expression profiling method called RNA Rescue Spatial Transcriptomics (RRST), designed for the analysis of moderate t...
| Main Authors: | , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2023-01-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-023-36071-5 |
| _version_ | 1811171612337111040 |
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| author | Reza Mirzazadeh Zaneta Andrusivova Ludvig Larsson Phillip T. Newton Leire Alonso Galicia Xesús M. Abalo Mahtab Avijgan Linda Kvastad Alexandre Denadai-Souza Nathalie Stakenborg Alexandra B. Firsova Alia Shamikh Aleksandra Jurek Niklas Schultz Monica Nistér Christos Samakovlis Guy Boeckxstaens Joakim Lundeberg |
| author_facet | Reza Mirzazadeh Zaneta Andrusivova Ludvig Larsson Phillip T. Newton Leire Alonso Galicia Xesús M. Abalo Mahtab Avijgan Linda Kvastad Alexandre Denadai-Souza Nathalie Stakenborg Alexandra B. Firsova Alia Shamikh Aleksandra Jurek Niklas Schultz Monica Nistér Christos Samakovlis Guy Boeckxstaens Joakim Lundeberg |
| author_sort | Reza Mirzazadeh |
| collection | DOAJ |
| description | Spatial transcriptomics relies on RNA quality, which is variable and dependent on sample handling, storage, and/or intrinsic factors. Here, authors present a genome-wide spatial gene expression profiling method called RNA Rescue Spatial Transcriptomics (RRST), designed for the analysis of moderate to low quality fresh frozen tissue samples and demonstrate its robustness on 7 different tissue types. |
| first_indexed | 2024-04-10T17:16:59Z |
| format | Article |
| id | doaj.art-2506fddc5b224664b99b677008788151 |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-04-10T17:16:59Z |
| publishDate | 2023-01-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-2506fddc5b224664b99b6770087881512023-02-05T12:18:15ZengNature PortfolioNature Communications2041-17232023-01-0114111610.1038/s41467-023-36071-5Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samplesReza Mirzazadeh0Zaneta Andrusivova1Ludvig Larsson2Phillip T. Newton3Leire Alonso Galicia4Xesús M. Abalo5Mahtab Avijgan6Linda Kvastad7Alexandre Denadai-Souza8Nathalie Stakenborg9Alexandra B. Firsova10Alia Shamikh11Aleksandra Jurek12Niklas Schultz13Monica Nistér14Christos Samakovlis15Guy Boeckxstaens16Joakim Lundeberg17Department of Gene Technology, KTH Royal Institute of Technology, Science for Life LaboratoryDepartment of Gene Technology, KTH Royal Institute of Technology, Science for Life LaboratoryDepartment of Gene Technology, KTH Royal Institute of Technology, Science for Life LaboratoryDepartment of Women’s and Children’s Health, Karolinska Institute, Solna, Sweden and Astrid Lindgren Children’s Hospital, Karolinska University HospitalDepartment of Gene Technology, KTH Royal Institute of Technology, Science for Life LaboratoryDepartment of Gene Technology, KTH Royal Institute of Technology, Science for Life LaboratoryDepartment of Women’s and Children’s Health, Karolinska Institute, Solna, Sweden and Astrid Lindgren Children’s Hospital, Karolinska University HospitalDepartment of Gene Technology, KTH Royal Institute of Technology, Science for Life LaboratoryDepartment of Chronic Diseases and Metabolism, Katholieke Universiteit te LeuvenDepartment of Chronic Diseases and Metabolism, Katholieke Universiteit te LeuvenDepartment of Molecular Biosciences, Wenner-Gren Institute, Stockholm University, Science for Life LaboratoryDepartment of Oncology-Pathology, Karolinska Institutet10x GenomicsDepartment of Oncology-Pathology, Karolinska Institutet, BioClinicum, Karolinska University HospitalDepartment of Oncology-Pathology, Karolinska Institutet, BioClinicum, Karolinska University HospitalDepartment of Molecular Biosciences, Wenner-Gren Institute, Stockholm University, Science for Life LaboratoryDepartment of Chronic Diseases and Metabolism, Katholieke Universiteit te LeuvenDepartment of Gene Technology, KTH Royal Institute of Technology, Science for Life LaboratorySpatial transcriptomics relies on RNA quality, which is variable and dependent on sample handling, storage, and/or intrinsic factors. Here, authors present a genome-wide spatial gene expression profiling method called RNA Rescue Spatial Transcriptomics (RRST), designed for the analysis of moderate to low quality fresh frozen tissue samples and demonstrate its robustness on 7 different tissue types.https://doi.org/10.1038/s41467-023-36071-5 |
| spellingShingle | Reza Mirzazadeh Zaneta Andrusivova Ludvig Larsson Phillip T. Newton Leire Alonso Galicia Xesús M. Abalo Mahtab Avijgan Linda Kvastad Alexandre Denadai-Souza Nathalie Stakenborg Alexandra B. Firsova Alia Shamikh Aleksandra Jurek Niklas Schultz Monica Nistér Christos Samakovlis Guy Boeckxstaens Joakim Lundeberg Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples Nature Communications |
| title | Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples |
| title_full | Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples |
| title_fullStr | Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples |
| title_full_unstemmed | Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples |
| title_short | Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples |
| title_sort | spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples |
| url | https://doi.org/10.1038/s41467-023-36071-5 |
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