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References from Single-cell sequencing reveals transcriptional and immunogenetic diversity in stereotyped chronic lymphocytic leukemia. Local targets link to admitted publications; unresolved targets remain external evidence.
Chronic lymphocytic leukemia
10.1056/nejmra041720 · 2005 · External reference
iwCLL guidelines for diagnosis, indications for treatment, response assessment, and supportive management of CLL
10.1182/blood-2017-09-806398 · 2018 · External reference
Precision diagnostics in chronic lymphocytic leukemia: past, present and future
10.3389/fonc.2023.1146486 · 2023 · External reference
Unmutated Ig VH genes are associated with a more aggressive form of chronic lymphocytic leukemia
10.1182/blood.v94.6.1848 · 1999 · External reference
Ig V gene mutation status and CD38 expression as novel prognostic indicators in chronic lymphocytic leukemia
10.1182/blood.v94.6.1840 · 1999 · External reference
Higher-order connections between stereotyped subsets: implications for improved patient classification in CLL
10.1182/blood.2020007039 · 2021 · External reference
Distinct patterns of novel gene mutations in poor-prognostic stereotyped subsets of chronic lymphocytic leukemia: the case of SF3B1 and subset #2
10.1038/leu.2013.98 · 2013 · External reference
Different spectra of recurrent gene mutations in subsets of chronic lymphocytic leukemia harboring stereotyped B-cell receptors
10.3324/haematol.2016.141812 · 2016 · External reference
Antigen receptor stereotypy in chronic lymphocytic leukemia
10.1038/leu.2016.322 · 2017 · External reference
Prognostic impact of prevalent chronic lymphocytic leukemia stereotyped subsets: analysis within prospective clinical trials of the German CLL Study Group (GCLLSG)
10.3324/haematol.2019.231027 · 2020 · External reference
Gene expression signatures separate B-cell chronic lymphocytic leukaemia prognostic subgroups defined by ZAP-70 and CD38 expression status
10.1038/sj.leu.2404363 · 2006 · External reference
High TCL1 levels are a marker of B-cell receptor pathway responsiveness and adverse outcome in chronic lymphocytic leukemia
10.1182/blood-2009-03-208256 · 2009 · External reference
Gene expression factors as predictors of genetic risk and survival in chronic lymphocytic leukemia
10.3324/haematol.2009.010298 · 2010 · External reference
Intraclonal complexity in chronic lymphocytic leukemia: fractions enriched in recently born/divided and older/quiescent cells
10.2119/molmed.2011.00360 · 2011 · External reference
Transcriptome characterization by RNA sequencing identifies a major molecular and clinical subdivision in chronic lymphocytic leukemia
10.1101/gr.152132.112 · 2014 · External reference
COBLL1, LPL and ZAP70 expression defines prognostic subgroups of chronic lymphocytic leukemia patients with high accuracy and correlates with IGHV mutational status
10.1080/10428194.2016.1180690 · 2017 · External reference
Massive and parallel expression profiling using microarrayed single-cell sequencing
10.1038/ncomms13182 · 2016 · External reference
Recent revelations and future directions using single-cell technologies in chronic lymphocytic leukemia
10.3389/fonc.2023.1143811 · 2023 · External reference
The end of the beginning: application of single-cell sequencing to chronic lymphocytic leukemia
10.1182/blood.2021014669 · 2023 · External reference
Unveiling the dynamics and molecular landscape of a rare chronic lymphocytic leukemia subpopulation driving refractoriness: insights from single-cell RNA sequencing
2024 · External reference
Single-cell analysis of a bi-clonal chronic lymphocytic leukemia reveals two clones with distinct gene expression pattern
10.1080/10428194.2024.2438804 · 2025 · External reference
Chromatin mapping and single-cell immune profiling define the temporal dynamics of ibrutinib response in CLL
10.1038/s41467-019-14081-6 · 2020 · External reference
Longitudinal CITE-seq profiling of chronic lymphocytic leukemia during ibrutinib treatment: evolution of leukemic and immune cells at relapse
10.1186/s40364-020-00253-w · 2020 · External reference
The immune microenvironment shapes transcriptional and genetic heterogeneity in chronic lymphocytic leukemia
10.1182/bloodadvances.2021006941 · 2023 · External reference
Unresolved reference
2010 · External reference
MultiQC: summarize analysis results for multiple tools and samples in a single report
10.1093/bioinformatics/btw354 · 2016 · External reference
SCANPY: large-scale single-cell gene expression data analysis
10.1186/s13059-017-1382-0 · 2018 · External reference
SoupX removes ambient RNA contamination from droplet-based single-cell RNA sequencing data
10.1093/gigascience/giaa151 · 2020 · External reference
Doublet identification in single-cell sequencing data using scDblFinder
10.12688/f1000research.73600.1 · 2021 · External reference
A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor
2016 · External reference
Fast, sensitive and accurate integration of single-cell data with Harmony
10.1038/s41592-019-0619-0 · 2019 · External reference
A Python library for probabilistic analysis of single-cell omics data
10.1038/s41587-021-01206-w · 2022 · External reference
Cross-tissue immune cell analysis reveals tissue-specific features in humans
10.1126/science.abl5197 · 2022 · External reference
Automatic cell-type harmonization and integration across Human Cell Atlas datasets
10.1016/j.cell.2023.11.026 · 2023 · External reference
Integrated analysis of multimodal single-cell data
10.1016/j.cell.2021.04.048 · 2021 · External reference
Characterization of cell fate probabilities in single-cell data with Palantir
10.1038/s41587-019-0068-4 · 2019 · External reference
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
10.1186/s13059-014-0550-8 · 2014 · External reference
GSEApy: a comprehensive package for performing gene set enrichment analysis in Python
10.1093/bioinformatics/btac757 · 2023 · External reference
decoupleR: ensemble of computational methods to infer biological activities from omics data
10.1093/bioadv/vbac016 · 2022 · External reference
IMGT® tools for the nucleotide analysis of immunoglobulin (IG) and T cell receptor (TR) V-(D)-J repertoires, polymorphisms, and IG mutations: IMGT/V-QUEST and IMGT/HighV-QUEST for NGS
10.1007/978-1-61779-842-9_32 · 2012 · External reference
Scirpy: a Scanpy extension for analyzing single-cell T-cell receptor-sequencing data
10.1093/bioinformatics/btaa611 · 2020 · External reference
Phylogenetic analysis of migration, differentiation, and class switching in B cells
10.1371/journal.pcbi.1009885 · 2022 · External reference
The non-canonical BAF chromatin remodeling complex is a novel target of spliceosome dysregulation in SF3B1-mutated chronic lymphocytic leukemia
10.1038/s41375-024-02379-4 · 2024 · External reference
The Molecular Signatures Database hallmark gene set collection
10.1016/j.cels.2015.12.004 · 2015 · External reference
KEGG: Kyoto Encyclopedia of Genes and Genomes
10.1093/nar/28.1.27 · 2000 · External reference
The Reactome Pathway Knowledgebase 2024
10.1093/nar/gkad1025 · 2024 · External reference
Early reappearance of intraclonal proliferative subpopulations in ibrutinib-resistant chronic lymphocytic leukemia
10.1038/s41375-024-02301-y · 2024 · External reference
BTG1, a member of a new family of antiproliferative genes
10.1002/j.1460-2075.1992.tb05213.x · 1992 · External reference
Expanding the coverage of regulons from high-confidence prior knowledge for accurate estimation of transcription factor activities
10.1093/nar/gkad841 · 2023 · External reference
Functional loss of IκBε leads to NF-κB deregulation in aggressive chronic lymphocytic leukemia
10.1084/jem.20142009 · 2015 · External reference
Expression and activity of the NF-κB subunits in chronic lymphocytic leukaemia: a role for RelB and non-canonical signalling
10.3390/cancers15194736 · 2023 · External reference
Multi-omics reveals clinically relevant proliferative drive associated with mTOR-MYC-OXPHOS activity in chronic lymphocytic leukemia
10.1038/s43018-021-00216-6 · 2021 · External reference
Integrative multi-omics reveals a regulatory and exhausted T-cell landscape in CLL and identifies galectin-9 as an immunotherapy target
10.1038/s41467-025-61822-x · 2025 · External reference
Prognostic significance of CD8 and CD4 T cells in chronic lymphocytic leukemia
10.3109/10428194.2010.503820 · 2010 · External reference
T-cells in chronic lymphocytic leukemia: guardians or drivers of disease?
10.1038/s41375-020-0873-2 · 2020 · External reference
T cells in chronic lymphocytic leukemia display dysregulated expression of immune checkpoints and activation markers
10.3324/haematol.2016.151100 · 2017 · External reference
Expanded antigen-experienced CD160+CD8+effector T cells exhibit impaired effector functions in chronic lymphocytic leukemia
10.1136/jitc-2020-002189 · 2021 · External reference
TOX and TOX2 transcription factors cooperate with NR4A transcription factors to impose CD8+ T cell exhaustion
10.1073/pnas.1905675116 · 2019 · External reference
Memory T cell, exhaustion, and tumor immunity
10.1080/25785826.2019.1698261 · 2020 · External reference
Angiopoietin-2 expression in B-cell chronic lymphocytic leukemia: association with clinical outcome and immunoglobulin heavy-chain mutational status
10.1038/sj.leu.2404650 · 2007 · External reference
ANGPT2 promoter methylation is strongly associated with gene expression and prognosis in chronic lymphocytic leukemia
10.4161/epi.24947 · 2013 · External reference