# Single-cell and spatial transcriptomics

**Type:** Topics  
**Canonical URL:** https://scholariq.org/topics/single-cell-and-spatial-transcriptomics/

## Facts

| Field | Value |
| --- | --- |
| Description | This cluster of papers focuses on the comprehensive integration and analysis of single-cell transcriptomic data, covering topics such as cell types, spatial profiling, lineage tracking, data integration, gene expression, and cell heterogeneity. The research explores various technologies and computational methods to study the transcriptomic landscape at the single-cell level. |
| Domain | Life Sciences |
| Field | Biochemistry, Genetics and Molecular Biology |
| OpenAlex ID | t11289 |
| Works | 199 |

## Topic papers all

Showing 15 of 199.

- [Robust enumeration of cell subsets from tissue expression profiles](https://scholariq.org/papers/robust-enumeration-of-cell-subsets-from-tissue-expression-profiles/)
- [Bioconductor: open software development for computational biology and bioinformatics](https://scholariq.org/papers/bioconductor-open-software-development-for-computational-biology-and/)
- [Fast, sensitive and accurate integration of single-cell data with Harmony](https://scholariq.org/papers/fast-sensitive-and-accurate-integration-of-single-cell-data-with-harmony/)
- [An Integrated Genomic Analysis of Human Glioblastoma Multiforme](https://scholariq.org/papers/an-integrated-genomic-analysis-of-human-glioblastoma-multiforme/)
- [Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq](https://scholariq.org/papers/dissecting-the-multicellular-ecosystem-of-metastatic-melanoma-by-single-cell-rna/)
- [Determining cell type abundance and expression from bulk tissues with digital cytometry](https://scholariq.org/papers/determining-cell-type-abundance-and-expression-from-bulk-tissues-with-digital/)
- [RNA velocity of single cells](https://scholariq.org/papers/rna-velocity-of-single-cells/)
- [Profiling Tumor Infiltrating Immune Cells with CIBERSORT](https://scholariq.org/papers/profiling-tumor-infiltrating-immune-cells-with-cibersort/)
- [The prognostic landscape of genes and infiltrating immune cells across human cancers](https://scholariq.org/papers/the-prognostic-landscape-of-genes-and-infiltrating-immune-cells-across-human/)
- [Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19](https://scholariq.org/papers/single-cell-landscape-of-bronchoalveolar-immune-cells-in-patients-with-covid-19/)
- [Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation](https://scholariq.org/papers/machine-learning-identifies-stemness-features-associated-with-oncogenic/)
- [Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression](https://scholariq.org/papers/large-scale-cis-and-trans-eqtl-analyses-identify-thousands-of-genetic-loci-and/)
- [ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia](https://scholariq.org/papers/chip-seq-guidelines-and-practices-of-the-encode-and-modencode-consortia/)
- [Conserved cell types with divergent features in human versus mouse cortex](https://scholariq.org/papers/conserved-cell-types-with-divergent-features-in-human-versus-mouse-cortex/)
- [Single-cell RNA sequencing technologies and bioinformatics pipelines](https://scholariq.org/papers/single-cell-rna-sequencing-technologies-and-bioinformatics-pipelines/)

## Topic primary papers

Showing 15 of 78.

- [Fast, sensitive and accurate integration of single-cell data with Harmony](https://scholariq.org/papers/fast-sensitive-and-accurate-integration-of-single-cell-data-with-harmony/)
- [Determining cell type abundance and expression from bulk tissues with digital cytometry](https://scholariq.org/papers/determining-cell-type-abundance-and-expression-from-bulk-tissues-with-digital/)
- [RNA velocity of single cells](https://scholariq.org/papers/rna-velocity-of-single-cells/)
- [The prognostic landscape of genes and infiltrating immune cells across human cancers](https://scholariq.org/papers/the-prognostic-landscape-of-genes-and-infiltrating-immune-cells-across-human/)
- [Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression](https://scholariq.org/papers/large-scale-cis-and-trans-eqtl-analyses-identify-thousands-of-genetic-loci-and/)
- [Conserved cell types with divergent features in human versus mouse cortex](https://scholariq.org/papers/conserved-cell-types-with-divergent-features-in-human-versus-mouse-cortex/)
- [Single-cell RNA sequencing technologies and bioinformatics pipelines](https://scholariq.org/papers/single-cell-rna-sequencing-technologies-and-bioinformatics-pipelines/)
- [Cells of the adult human heart](https://scholariq.org/papers/cells-of-the-adult-human-heart/)
- [Eleven grand challenges in single-cell data science](https://scholariq.org/papers/eleven-grand-challenges-in-single-cell-data-science/)
- [Deciphering cell–cell interactions and communication from gene expression](https://scholariq.org/papers/deciphering-cell-cell-interactions-and-communication-from-gene-expression/)
- [Cross-tissue immune cell analysis reveals tissue-specific features in humans](https://scholariq.org/papers/cross-tissue-immune-cell-analysis-reveals-tissue-specific-features-in-humans/)
- [Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease](https://scholariq.org/papers/single-cell-transcriptomics-of-the-mouse-kidney-reveals-potential-cellular/)
- [Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images](https://scholariq.org/papers/spatial-organization-and-molecular-correlation-of-tumor-infiltrating-lymphocytes/)
- [Bulk tissue cell type deconvolution with multi-subject single-cell expression reference](https://scholariq.org/papers/bulk-tissue-cell-type-deconvolution-with-multi-subject-single-cell-expression/)
- [Single-cell multi-omics analysis of the immune response in COVID-19](https://scholariq.org/papers/single-cell-multi-omics-analysis-of-the-immune-response-in-covid-19/)

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Source: ScholarIQ — public research metadata, principally OpenAlex. See https://scholariq.org/sources/ for provenance and https://scholariq.org/methodology/ for what these figures mean.