Research graph
References from scI2CL: Effectively fusing single-cell multi-omics by intra- and inter-omics contrastive learning. Local targets link to admitted publications; unresolved targets remain external evidence.
Single-cell RNA-seq: advances and future challenges
10.1093/nar/gku555 · 2014 · External reference
Deep-joint-learning analysis model of single cell transcriptome and open chromatin accessibility data
10.1093/bib/bbaa287 · 2021 · External reference
Single-cell multiomics: multiple measurements from single cells
10.1016/j.tig.2016.12.003 · 2017 · External reference
Assessment of computational methods for the analysis of single-cell ATAC-seq data
10.1186/s13059-019-1854-5 · 2019 · External reference
Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations
10.1073/pnas.1805681115 · 2018 · External reference
MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data
10.1186/s13059-020-02015-1 · 2020 · External reference
JSNMF enables effective and accurate integrative analysis of single-cell multiomics data
10.1093/bib/bbac105 · 2022 · External reference
Jointly embedding multiple single-cell omics measurements
2019 · External reference
Manifold alignment for heterogeneous single-cell multi-omics data integration using pamona
10.1093/bioinformatics/btab594 · 2022 · External reference
scMLC: an accurate and robust multiplex community detection method for single-cell multi-omics data
10.1093/bib/bbae101 · 2024 · External reference
A multi-view latent variable model reveals cellular heterogeneity in complex tissues for paired multimodal single-cell data
10.1093/bioinformatics/btad005 · 2023 · External reference
Deep cross-omics cycle attention model for joint analysis of single-cell multi-omics data
10.1093/bioinformatics/btab403 · 2021 · External reference
Spatial reconstruction of single-cell gene expression data
10.1038/nbt.3192 · 2015 · External reference
A general and flexible method for signal extraction from single-cell RNA-seq data
10.1038/s41467-017-02554-5 · 2018 · External reference
Deep generative modeling for single-cell transcriptomics
10.1038/s41592-018-0229-2 · 2018 · External reference
Deep structural clustering for single-cell RNA-seq data jointly through autoencoder and graph neural network
10.1093/bib/bbac018 · 2022 · External reference
Gene2vec: distributed representation of genes based on co-expression
10.1186/s12864-018-5370-x · 2019 · External reference
scGPT: toward building a foundation model for single-cell multi-omics using generative AI
10.1038/s41592-024-02201-0 · 2024 · External reference
PeakVI: a deep generative model for single-cell chromatin accessibility analysis
2022 · External reference
scBasset: sequence-based modeling of single-cell ATAC-seq using convolutional neural networks
10.1038/s41592-022-01562-8 · 2022 · External reference
Multi-kernel subspace stable clustering with exact rank constraints
10.1016/j.inffus.2024.102488 · 2024 · External reference
SpaFusion: a multi-level fusion model for clustering spatial multi-omics data
10.1016/j.inffus.2025.103372 · 2025 · External reference
Identifying spatial domains from spatial multi-omics data using consistent and specific deep subspace learning
2025 · External reference
Multi-view adaptive fusion network for spatially resolved transcriptomics data clustering
10.1109/tkde.2024.3450333 · 2024 · External reference
scMCs: a framework for single-cell multi-omics data integration and multiple clusterings
10.1093/bioinformatics/btad133 · 2023 · External reference
scSPAF: cell similarity purified adaptive fusion network for single-cell multi-omics clustering
10.1109/tcbbio.2025.3608251 · 2025 · External reference
Momentum contrast for unsupervised visual representation learning
2020 · External reference
Align before fuse: vision and language representation learning with momentum distillation
2021 · External reference
Sarcasm driven by sentiment: a sentiment-aware hierarchical fusion network for multimodal sarcasm detection
10.1016/j.inffus.2024.102353 · 2024 · External reference
Global and cross-modal feature aggregation for multi-omics data classification and application on drug response prediction
10.1016/j.inffus.2023.102077 · 2024 · External reference
Negative can be positive: a stable and noise-resistant complementary contrastive learning for cross-modal matching
10.1016/j.inffus.2026.104156 · 2026 · External reference
Chromatin potential identified by shared single-cell profiling of RNA and chromatin
10.1016/j.cell.2020.09.056 · 2020 · External reference
High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell
10.1038/s41587-019-0290-0 · 2019 · External reference
SCANPY: large-scale single-cell gene expression data analysis
10.1186/s13059-017-1382-0 · 2018 · External reference
GSEApy: a comprehensive package for performing gene set enrichment analysis in python
10.1093/bioinformatics/btac757 · 2023 · External reference
SciPy 1.0: fundamental algorithms for scientific computing in python
10.1038/s41592-019-0686-2 · 2020 · External reference
Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics
10.1186/s12864-018-4772-0 · 2018 · External reference
Definition of human blood monocytes
10.1002/jlb.67.5.603 · 2000 · External reference
CD14: biology and role in the pathogenesis of disease
10.1016/j.cytogfr.2019.06.003 · 2019 · External reference
Identification and characterization of a novel monocyte subpopulation in human peripheral blood
10.1182/blood.v74.7.2527.2527 · 1989 · External reference
Transcriptional profiling reveals developmental relationship and distinct biological functions of CD16+ and CD16-monocyte subsets
10.1186/1471-2164-10-403 · 2009 · External reference
SuperSAGE evidence for CD14++ CD16+ monocytes as a third monocyte subset
2011 · External reference
Single-cell multi-omics analysis identifies two distinct phenotypes of newly-onset microscopic polyangiitis
10.1038/s41467-023-41328-0 · 2023 · External reference
The alloimmune response and effector mechanisms of allograft rejection
2000 · External reference
EpiScanpy: integrated single-cell epigenomic analysis
10.1038/s41467-021-25131-3 · 2021 · External reference
Two subsets of memory T lymphocytes with distinct homing potentials and effector functions
10.1038/44385 · 1999 · External reference
L-selectin (CD62L) cross-linking signals neutrophil adhesive functions via the Mac-1 (CD11b/CD18) beta 2-integrin
10.4049/jimmunol.155.3.1502 · 1995 · External reference
N-acetyl-l-cysteine suppresses constitutive expression of CD11a/LFA-1α protein in myeloid lineage
10.1016/s0145-2126(02)00037-1 · 2002 · External reference
CD49d promotes disease progression in chronic lymphocytic leukemia: new insights from CD49d bimodal expression
2020 · External reference
Atypical human effector/memory CD4+ T cells with a naive-like phenotype
10.3389/fimmu.2018.02832 · 2018 · External reference
Development of hematopoietic stem and progenitor cells from human pluripotent stem cells
10.1002/jcb.25097 · 2015 · External reference
Hematopoietic stem cells: an overview
10.1016/j.transci.2014.10.016 · 2014 · External reference
Identification and characterization of circulating human transitional B cells
10.1182/blood-2004-11-4284 · 2005 · External reference
Development of hematopoietic stem and progenitor cells from human pluripotent stem cells
10.1002/jcb.25097 · ExternalCitation · doi-reference
Definition of human blood monocytes
10.1002/jlb.67.5.603 · ExternalCitation · doi-reference
Chromatin potential identified by shared single-cell profiling of RNA and chromatin
10.1016/j.cell.2020.09.056 · ExternalCitation · doi-reference
CD14: biology and role in the pathogenesis of disease
10.1016/j.cytogfr.2019.06.003 · ExternalCitation · doi-reference
Global and cross-modal feature aggregation for multi-omics data classification and application on drug response prediction
10.1016/j.inffus.2023.102077 · ExternalCitation · doi-reference
Sarcasm driven by sentiment: a sentiment-aware hierarchical fusion network for multimodal sarcasm detection
10.1016/j.inffus.2024.102353 · ExternalCitation · doi-reference
Multi-kernel subspace stable clustering with exact rank constraints
10.1016/j.inffus.2024.102488 · ExternalCitation · doi-reference
SpaFusion: a multi-level fusion model for clustering spatial multi-omics data
10.1016/j.inffus.2025.103372 · ExternalCitation · doi-reference
Negative can be positive: a stable and noise-resistant complementary contrastive learning for cross-modal matching
10.1016/j.inffus.2026.104156 · ExternalCitation · doi-reference
Single-cell multiomics: multiple measurements from single cells
10.1016/j.tig.2016.12.003 · ExternalCitation · doi-reference
Hematopoietic stem cells: an overview
10.1016/j.transci.2014.10.016 · ExternalCitation · doi-reference
N-acetyl-l-cysteine suppresses constitutive expression of CD11a/LFA-1α protein in myeloid lineage
10.1016/s0145-2126(02)00037-1 · ExternalCitation · doi-reference
Two subsets of memory T lymphocytes with distinct homing potentials and effector functions
10.1038/44385 · ExternalCitation · doi-reference
Spatial reconstruction of single-cell gene expression data
10.1038/nbt.3192 · ExternalCitation · doi-reference
A general and flexible method for signal extraction from single-cell RNA-seq data
10.1038/s41467-017-02554-5 · ExternalCitation · doi-reference
EpiScanpy: integrated single-cell epigenomic analysis
10.1038/s41467-021-25131-3 · ExternalCitation · doi-reference
Single-cell multi-omics analysis identifies two distinct phenotypes of newly-onset microscopic polyangiitis
10.1038/s41467-023-41328-0 · ExternalCitation · doi-reference
High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell
10.1038/s41587-019-0290-0 · ExternalCitation · doi-reference
Deep generative modeling for single-cell transcriptomics
10.1038/s41592-018-0229-2 · ExternalCitation · doi-reference
SciPy 1.0: fundamental algorithms for scientific computing in python
10.1038/s41592-019-0686-2 · ExternalCitation · doi-reference
scBasset: sequence-based modeling of single-cell ATAC-seq using convolutional neural networks
10.1038/s41592-022-01562-8 · ExternalCitation · doi-reference
scGPT: toward building a foundation model for single-cell multi-omics using generative AI
10.1038/s41592-024-02201-0 · ExternalCitation · doi-reference
Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations
10.1073/pnas.1805681115 · ExternalCitation · doi-reference
Deep-joint-learning analysis model of single cell transcriptome and open chromatin accessibility data
10.1093/bib/bbaa287 · ExternalCitation · doi-reference
Deep structural clustering for single-cell RNA-seq data jointly through autoencoder and graph neural network
10.1093/bib/bbac018 · ExternalCitation · doi-reference
JSNMF enables effective and accurate integrative analysis of single-cell multiomics data
10.1093/bib/bbac105 · ExternalCitation · doi-reference
scMLC: an accurate and robust multiplex community detection method for single-cell multi-omics data
10.1093/bib/bbae101 · ExternalCitation · doi-reference
Deep cross-omics cycle attention model for joint analysis of single-cell multi-omics data
10.1093/bioinformatics/btab403 · ExternalCitation · doi-reference
Manifold alignment for heterogeneous single-cell multi-omics data integration using pamona
10.1093/bioinformatics/btab594 · ExternalCitation · doi-reference
GSEApy: a comprehensive package for performing gene set enrichment analysis in python
10.1093/bioinformatics/btac757 · ExternalCitation · doi-reference
A multi-view latent variable model reveals cellular heterogeneity in complex tissues for paired multimodal single-cell data
10.1093/bioinformatics/btad005 · ExternalCitation · doi-reference
scMCs: a framework for single-cell multi-omics data integration and multiple clusterings
10.1093/bioinformatics/btad133 · ExternalCitation · doi-reference
Single-cell RNA-seq: advances and future challenges
10.1093/nar/gku555 · ExternalCitation · doi-reference
scSPAF: cell similarity purified adaptive fusion network for single-cell multi-omics clustering
10.1109/tcbbio.2025.3608251 · ExternalCitation · doi-reference
Multi-view adaptive fusion network for spatially resolved transcriptomics data clustering
10.1109/tkde.2024.3450333 · ExternalCitation · doi-reference
Identification and characterization of circulating human transitional B cells
10.1182/blood-2004-11-4284 · ExternalCitation · doi-reference
Identification and characterization of a novel monocyte subpopulation in human peripheral blood
10.1182/blood.v74.7.2527.2527 · ExternalCitation · doi-reference
Transcriptional profiling reveals developmental relationship and distinct biological functions of CD16+ and CD16-monocyte subsets
10.1186/1471-2164-10-403 · ExternalCitation · doi-reference
Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics
10.1186/s12864-018-4772-0 · ExternalCitation · doi-reference
Gene2vec: distributed representation of genes based on co-expression
10.1186/s12864-018-5370-x · ExternalCitation · doi-reference
SCANPY: large-scale single-cell gene expression data analysis
10.1186/s13059-017-1382-0 · ExternalCitation · doi-reference
Assessment of computational methods for the analysis of single-cell ATAC-seq data
10.1186/s13059-019-1854-5 · ExternalCitation · doi-reference
MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data
10.1186/s13059-020-02015-1 · ExternalCitation · doi-reference
Atypical human effector/memory CD4+ T cells with a naive-like phenotype
10.3389/fimmu.2018.02832 · ExternalCitation · doi-reference
L-selectin (CD62L) cross-linking signals neutrophil adhesive functions via the Mac-1 (CD11b/CD18) beta 2-integrin
10.4049/jimmunol.155.3.1502 · ExternalCitation · doi-reference
