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References from Computational approaches in rheumatic diseases – Deciphering complex spatio-temporal cell interactions. Local targets link to admitted publications; unresolved targets remain external evidence.
Unresolved reference
External reference
The key comorbidities in patients with rheumatoid arthritis: a narrative review
10.3390/jcm10030509 · 2021 · External reference
10.1016/j.celrep.2019.07.091
10.1016/j.celrep.2019.07.091 · External reference
Single-cell multimodal analysis identifies common regulatory programs in synovial fibroblasts of rheumatoid arthritis patients and modeled TNF-driven arthritis
10.1186/s13073-022-01081-3 · 2022 · External reference
Comparison of etanercept and methotrexate, alone and combined, in the treatment of rheumatoid arthritis: two-year clinical and radiographic results from the TEMPO study, a double-blind, randomized trial
10.1002/art.21655 · 2006 · External reference
10.1136/annrheumdis-2017-212862
10.1136/annrheumdis-2017-212862 · External reference
The relationship between synovial pathobiology and magnetic resonance imaging abnormalities in rheumatoid arthritis: a systematic review
10.3899/jrheum.161314 · 2017 · External reference
The vasculature in rheumatoid arthritis: cause or consequence?
10.1111/j.1365-2613.2009.00640.x · 2009 · External reference
Immune function in severe, active rheumatoid arthritis. A relationship between peripheral blood mononuclear cell proliferation to soluble antigens and synovial tissue immunohistologic characteristics
10.1172/jci111526 · 1984 · External reference
Proliferation of synovial lining cells and fibroblasts
10.1136/ard.34.3.219 · 1975 · External reference
Redox-mediated angiogenesis in the hypoxic joint of inflammatory arthritis
10.1002/art.38822 · 2014 · External reference
Pathogenic, glycolytic PD-1+ B cells accumulate in the hypoxic RA joint
10.1172/jci.insight.139032 · 2020 · External reference
Immunopathology of synovitis: from histology to molecular pathways
10.1093/rheumatology/kev330 · 2016 · External reference
The crucial questions on synovial biopsy: when, why, who, what, where, and how?
10.3389/fmed.2021.705382 · 2021 · External reference
Synovial histopathology of psoriatic arthritis, both oligo- and polyarticular, resembles spondyloarthropathy more than it does rheumatoid arthritis
10.1186/ar1698 · 2005 · External reference
Comparative study of the synovial histology in rheumatoid arthritis, spondyloarthropathy, and osteoarthritis: influence of disease duration and activity
10.1136/ard.59.12.945 · 2000 · External reference
10.1111/j.1365-2559.2006.02508.x
10.1111/j.1365-2559.2006.02508.x · External reference
General synovitis score and immunologic synovitis score reflect clinical disease activity in patients with advanced stage rheumatoid arthritis
10.1038/s41598-019-44895-9 · 2019 · External reference
Rheumatoid arthritis
10.1016/s0140-6736(10)60826-4 · 2010 · External reference
Cytokine production by synovial T cells in rheumatoid arthritis
10.1093/rheumatology/38.3.202 · 1999 · External reference
Synovial tissue analysis in rheumatoid arthritis
10.1053/berh.1999.0051 · 1999 · External reference
Distinct stromal and immune cell interactions shape the pathogenesis of rheumatoid and psoriatic arthritis
2022 · External reference
Unraveling the complexities of psoriatic arthritis by the use of -Omics and their relevance for clinical care
10.1016/j.autrev.2021.102949 · 2021 · External reference
Angiogenesis dysregulation in psoriatic arthritis: molecular mechanisms
10.1155/2017/5312813 · 2017 · External reference
Enhanced angiogenic function in response to fibroblasts from psoriatic arthritis synovium compared to rheumatoid arthritis
10.1186/s13075-019-2088-3 · 2019 · External reference
Prediction of response to targeted treatment in rheumatoid arthritis
10.1016/j.mayocp.2017.05.009 · 2017 · External reference
Potential clinical biomarkers in rheumatoid arthritis with an omic approach
10.1186/s13317-021-00152-6 · 2021 · External reference
10.1186/ar4555
10.1186/ar4555 · External reference
10.1136/annrheumdis-2018-214539
10.1136/annrheumdis-2018-214539 · External reference
The histopathological synovitis score is influenced by biopsy location in patients with knee osteoarthritis
10.1007/s00402-021-03889-x · 2022 · External reference
SMASH’ recommendations for standardised microscopic arthritis scoring of histological sections from inflammatory arthritis animal models
10.1136/annrheumdis-2020-219247 · 2021 · External reference
Standardisation of synovial tissue infiltrate analysis: how far have we come? how much further do we need to go?
10.1136/ard.2005.036905 · 2006 · External reference
10.1038/s41586-019-1471-1
10.1038/s41586-019-1471-1 · External reference
10.1126/science.abj3013
10.1126/science.abj3013 · External reference
10.1038/s41584-019-0338-z
10.1038/s41584-019-0338-z · External reference
10.1002/art.1780310305
10.1002/art.1780310305 · External reference
10.1038/s41590-019-0378-1
10.1038/s41590-019-0378-1 · External reference
10.1038/s41467-018-02892-y
10.1038/s41467-018-02892-y · External reference
Flow cytometric characterization of freshly isolated and culture expanded human synovial cell populations in patients with chronic arthritis
10.1186/ar2916 · 2010 · External reference
Inside the joint of inflammatory arthritis patients: handling and processing of synovial tissue biopsies for high throughput analysis
10.3389/fmed.2022.830998 · 2022 · External reference
Ex-Th17 (Nonclassical Th1) cells are functionally distinct from classical Th1 and Th17 cells and are not constrained by regulatory T cells
2017 · External reference
Polyfunctional, pathogenic CD161+ Th17 lineage cells are resistant to regulatory T cell-mediated suppression in the context of autoimmunity
2015 · External reference
Loss of balance between protective and pro-inflammatory synovial tissue T-cell polyfunctionality predates clinical onset of rheumatoid arthritis
10.1136/annrheumdis-2021-220458 · 2022 · External reference
Association of synovial tissue polyfunctional T-cells with DAPSA in psoriatic arthritis
10.1136/annrheumdis-2018-214138 · 2019 · External reference
ACPA status correlates with differential immune profile in patients with rheumatoid arthritis
10.3390/cells10030647 · 2021 · External reference
Flow cytometric single-cell analysis of cytokine production by CD4+ T cells in synovial tissue and peripheral blood from patients with rheumatoid arthritis
10.1002/1529-0131(199809)41:9<1669::aid-art19>3.0.co;2-g · 1998 · External reference
Interleukin-17+CD8+ T cells are enriched in the joints of patients with psoriatic arthritis and correlate with disease activity and joint damage progression
10.1002/art.38376 · 2014 · External reference
10.1038/s41591-020-0939-8
10.1038/s41591-020-0939-8 · External reference
CD40L-dependent pathway is active at various stages of rheumatoid arthritis disease progression
2017 · External reference
10.1371/journal.pone.0192704
10.1371/journal.pone.0192704 · External reference
Combined – whole blood and skin fibroblasts- transcriptomic analysis in Psoriatic Arthritis reveals molecular signatures of activity, resistance and early response to treatment
10.3389/fimmu.2022.964274 · 2022 · External reference
A gene module associated with dysregulated TCR signaling pathways in CD4+ T cell subsets in rheumatoid arthritis
10.1016/j.jaut.2017.11.001 · 2018 · External reference
10.1002/art.38671
10.1002/art.38671 · External reference
10.1186/s13059-017-1349-1
10.1186/s13059-017-1349-1 · External reference
AT-rich–interactive domain–containing protein 5A functions as a negative regulator of retinoic acid receptor–related orphan nuclear receptor γt–induced Th17 cell differentiation
10.1002/art.38324 · 2014 · External reference
Peripheral blood cellular dynamics of rheumatoid arthritis treatment informs about efficacy of response to disease modifying drugs
10.1038/s41598-023-36999-0 · 2023 · External reference
10.1016/j.cyto.2019.154960
10.1016/j.cyto.2019.154960 · External reference
The feasibility of developing biomarkers from peripheral blood mononuclear cell RNAseq data in children with juvenile idiopathic arthritis using machine learning approaches
10.1186/s13075-019-2010-z · 2019 · External reference
Single-cell multimodal analysis identifies common regulatory programs in synovial fibroblasts of rheumatoid arthritis patients and modeled TNF-driven arthritis
10.1186/s13073-022-01081-3 · 2022 · External reference
Functional genomics atlas of synovial fibroblasts defining rheumatoid arthritis heritability
10.1186/s13059-021-02460-6 · 2021 · External reference
Identification of HBEGF+ fibroblasts in the remission of rheumatoid arthritis by integrating single-cell RNA sequencing datasets and bulk RNA sequencing datasets.
10.1186/s13075-022-02902-x · 2022 · External reference
Role of synovial fibroblast subsets across synovial pathotypes in rheumatoid arthritis: a deconvolution analysis
10.1136/rmdopen-2021-001949 · 2022 · External reference
10.1038/s41576-020-00292-x
10.1038/s41576-020-00292-x · External reference
10.1038/s41592-019-0667-5
10.1038/s41592-019-0667-5 · External reference
Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium
10.1038/s42003-022-03050-3 · 2022 · External reference
10.1038/s41374-020-0417-4
10.1038/s41374-020-0417-4 · External reference
Exploring inflammatory signatures in arthritic joint biopsies with Spatial Transcriptomics
10.1038/s41598-019-55441-y · 2019 · External reference
Integrated single cell and spatial transcriptomics reveal autoreactive differentiated B cells in joints of early rheumatoid arthritis
10.1038/s41598-022-15293-5 · 2022 · External reference
10.1186/s13073-022-01075-1
10.1186/s13073-022-01075-1 · External reference
10.1016/j.cell.2022.04.003
10.1016/j.cell.2022.04.003 · External reference
Mass spectrometry imaging: a review of emerging advancements and future insights
10.1021/acs.analchem.7b04733 · 2018 · External reference
10.1016/j.isci.2022.103798
10.1016/j.isci.2022.103798 · External reference
10.1038/ncomms14852
10.1038/ncomms14852 · External reference
DIABLO: an integrative approach for identifying key molecular drivers from multi-omics assays
10.1093/bioinformatics/bty1054 · 2019 · External reference
moCluster: identifying joint patterns across multiple omics data sets
10.1021/acs.jproteome.5b00824 · 2016 · External reference
10.1002/cyto.a.23603
10.1002/cyto.a.23603 · External reference
10.1007/978-0-387-46312-4
10.1007/978-0-387-46312-4 · External reference
10.1117/1.jbo.19.8.086016
10.1117/1.jbo.19.8.086016 · External reference
10.1073/pnas.0708425104
10.1073/pnas.0708425104 · External reference
The phasor-FLIM fingerprints reveal shifts from OXPHOS to enhanced glycolysis in Huntington disease
10.1038/srep34755 · 2016 · External reference
10.1038/ncomms4936
10.1038/ncomms4936 · External reference
10.1016/j.celrep.2022.110607
10.1016/j.celrep.2022.110607 · External reference
NADH fluorescence lifetime imaging microscopy reveals selective mitochondrial dysfunction in neurons overexpressing Alzheimer’s disease–related proteins
10.3389/fmolb.2021.671274 · 2021 · External reference
Macroscopic fluorescence-lifetime imaging of NADH and protoporphyrin IX improves the detection and grading of 5-aminolevulinic acid-stained brain tumors
10.1038/s41598-020-77268-8 · 2020 · External reference
10.7554/elife.77373
10.7554/elife.77373 · External reference
Accumulation of synovial fluid CD19+CD24hiCD27+ B cells was associated with bone destruction in rheumatoid arthritis
10.1038/s41598-020-71362-7 · 2020 · External reference
B cells in rheumatoid arthritis：pathogenic mechanisms and treatment prospects
10.3389/fimmu.2021.750753 · 2021 · External reference
10.1136/ard.2011.153312
10.1136/ard.2011.153312 · External reference
10.1038/s41584-022-00786-4
10.1038/s41584-022-00786-4 · External reference
Toward modeling metabolic state from single-cell transcriptomics
10.1016/j.molmet.2021.101396 · 2021 · External reference
10.1038/s41467-019-11738-0
10.1038/s41467-019-11738-0 · External reference
10.1038/nbt.1614
10.1038/nbt.1614 · External reference
10.1016/j.cell.2021.05.045
10.1016/j.cell.2021.05.045 · External reference
10.1016/j.copbio.2022.102693
10.1016/j.copbio.2022.102693 · External reference
10.1007/s00216-019-02290-3
10.1007/s00216-019-02290-3 · External reference
10.3390/cells9081751
10.3390/cells9081751 · External reference
Paradigm shift in future biophotonics for imaging and therapy: Miniature living lasers to cellular scale optoelectronics
10.7150/thno.75905 · 2022 · External reference
Throwing light on photonics: the genealogy of a technological paradigm
10.1111/1600-0498.12172 · 2018 · External reference
Disease-relevant single cell photonic signatures identify S100β stem cells and their myogenic progeny in vascular lesions
10.1007/s12015-021-10125-x · 2021 · External reference
10.1038/s41551-016-0008
10.1038/s41551-016-0008 · External reference
10.1007/s00216-009-2637-8
10.1007/s00216-009-2637-8 · External reference
Non-invasive real-time imaging of reactive oxygen species (ROS) using auto-fluorescence multispectral imaging technique: a novel tool for redox biology
10.1016/j.redox.2020.101561 · 2020 · External reference
Imaging fibrosis and separating collagens using second harmonic generation and phasor approach to fluorescence lifetime imaging
10.1038/srep13378 · 2015 · External reference
Endogenous fluorescence signatures in living pluripotent stem cells change with loss of potency
10.1371/journal.pone.0043708 · 2012 · External reference
10.1039/c2lc21170j
10.1039/c2lc21170j · External reference
Label-free multi parameter optical interrogation of endothelial activation in single cells using a lab on a disc platform
10.1038/s41598-019-40612-8 · 2019 · External reference
Progression of pre-rheumatoid arthritis to clinical disease of joints: potential role of mesenchymal stem cells
10.1016/j.lfs.2023.121641 · 2023 · External reference
10.1002/jcp.26860
10.1002/jcp.26860 · External reference
Unresolved reference
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Osteoarthritis and psoriatic arthritis: findings in three-dimensional biophotonics imaging
2014 · External reference
What can biophotonics tell us about the 3D microstructure of articular cartilage?
2015 · External reference
10.1038/nmeth.1557
10.1038/nmeth.1557 · External reference
Spatial transcriptomics using combinatorial fluorescence spectral and lifetime encoding, imaging and analysis
10.1038/s41467-021-27798-0 · 2022 · External reference
Machine learning in biomedical engineering
10.1007/s13534-018-0058-3 · 2018 · External reference
Unresolved reference
External reference
10.1093/bib/bbab016
10.1093/bib/bbab016 · External reference
Supervised machine learning: a brief primer
10.1016/j.beth.2020.05.002 · 2020 · External reference
Anti-bias training for (sc)RNA-seq: experimental and computational approaches to improve precision
10.1093/bib/bbab148 · 2021 · External reference
10.1038/nbt.3519
10.1038/nbt.3519 · External reference
10.3389/fgene.2021.655536
10.3389/fgene.2021.655536 · External reference
10.1101/gr.190595.115
10.1101/gr.190595.115 · External reference
Benchmarking clustering algorithms on estimating the number of cell types from single-cell RNA-sequencing data
10.1186/s13059-022-02622-0 · 2022 · External reference
Embracing the dropouts in single-cell RNA-seq analysis
10.1038/s41467-020-14976-9 · 2020 · External reference
RNA-seq assistant: machine learning based methods to identify more transcriptional regulated genes
10.1186/s12864-018-4932-2 · 2018 · External reference
Magic-BLAST, an accurate RNA-seq aligner for long and short reads
10.1186/s12859-019-2996-x · 2019 · External reference
10.1093/bioinformatics/btaa109
10.1093/bioinformatics/btaa109 · External reference
10.1038/s41467-022-28803-w
10.1038/s41467-022-28803-w · External reference
10.1093/nar/gkab1275
10.1093/nar/gkab1275 · External reference
ASURAT: functional annotation-driven unsupervised clustering of single-cell transcriptomes
10.1093/bioinformatics/btac541 · 2022 · External reference
devCellPy is a machine learning-enabled pipeline for automated annotation of complex multilayered single-cell transcriptomic data
10.1038/s41467-022-33045-x · 2022 · External reference
Deep learning a boon for biophotonics? Vol. 13
10.1002/jbio.201960186 · 2020 · External reference
10.1007/s12551-022-00949-3
10.1007/s12551-022-00949-3 · External reference
10.1042/bst20180391
10.1042/bst20180391 · External reference
Autofluorescence and artificial intelligence: the future of parathyroid surgery?
10.1245/s10434-022-11732-9 · 2022 · External reference
Raman spectroscopy and artificial intelligence to predict the Bayesian probability of breast cancer
10.1038/s41598-021-85758-6 · 2021 · External reference
Artificial intelligence and corneal confocal microscopy: the start of a beautiful relationship
10.3390/jcm11206199 · 2022 · External reference
Artificial intelligence and optical coherence tomography imaging
2019 · External reference
Diagnostic issues in difficult-to-treat rheumatoid arthritis: a systematic literature review informing the EULAR recommendations for the management of difficult-to-treat rheumatoid arthritis
10.1136/rmdopen-2020-001511 · 2021 · External reference
A machine learning-based risk stratification tool for in-hospital mortality of intensive care unit patients with heart failure
10.1186/s12967-022-03340-8 · 2022 · External reference
Data-driven patient stratification of UK Biobank cohort suggests five endotypes of multimorbidity
10.1093/bib/bbac410 · 2022 · External reference
10.1007/s40744-022-00475-4
10.1007/s40744-022-00475-4 · External reference
Empowering individual trait prediction using interactions for precision medicine
10.1186/s12859-021-04011-z · 2021 · External reference
Machine learning model for identifying important clinical features for predicting remission in patients with rheumatoid arthritis treated with biologics
10.1186/s13075-021-02567-y · 2021 · External reference
Distinguishing rheumatoid arthritis from psoriatic arthritis
10.1136/rmdopen-2018-000656 · 2018 · External reference
Treating very early rheumatoid arthritis
10.1016/j.berh.2006.05.005 · 2006 · External reference
Unresolved reference
External reference
Dealing with dimensionality: the application of machine learning to multi-omics data
10.1093/bioinformatics/btad021 · 2023 · External reference
10.1016/j.biotechadv.2021.107739
10.1016/j.biotechadv.2021.107739 · External reference
Probabilistic principal component analysis for metabolomic data
10.1186/1471-2105-11-571 · 2010 · External reference
10.1016/j.cell.2018.05.061
10.1016/j.cell.2018.05.061 · External reference
Simultaneous analysis of distinct Omics data sets with integration of biological knowledge: multiple Factor Analysis approach
10.1186/1471-2164-10-32 · 2009 · External reference
Gene expression profiles for predicting metastasis in breast cancer: a cross-study comparison of classification methods
10.1100/2012/380495 · 2012 · External reference
Machine learning for patient risk stratification: standing on, or looking over, the shoulders of clinicians?
2021 · External reference
Data standards for omics data: the basis of data sharing and reuse
10.1007/978-1-61779-027-0_2 · 2011 · External reference
10.1007/s12551-022-00949-3
10.1007/s12551-022-00949-3 · External reference
10.1038/s41592-019-0458-z
10.1038/s41592-019-0458-z · External reference
Mass surveilance of C. elegans—smartphone-based DIY microscope and machine-learning-based approach for worm detection
10.3390/s19061468 · 2019 · External reference
Disease-relevant single cell photonic signatures identify S100β stem cells and their myogenic progeny in vascular lesions
10.1007/s12015-021-10125-x · 2021 · External reference
Raman spectroscopy and artificial intelligence to predict the Bayesian probability of breast cancer
10.1038/s41598-021-85758-6 · 2021 · External reference
10.1016/j.stem.2020.11.015
10.1016/j.stem.2020.11.015 · External reference
10.1016/j.isci.2022.103798
10.1016/j.isci.2022.103798 · External reference
Machine learning analysis of RNA-seq data for diagnostic and prognostic prediction of colon cancer
10.3390/s23063080 · 2023 · External reference
Machine Learning Applicability for Classification of PAD/VCD Chemotherapy Response Using 53 Multiple Myeloma RNA Sequencing Profiles
10.3389/fonc.2021.652063 · 2021 · External reference
10.1200/jco.2008.18.1370
10.1200/jco.2008.18.1370 · External reference
Machine learning for RNA sequencing-based intrinsic subtyping of breast cancer
10.1038/s41598-020-70832-2 · 2020 · External reference
10.1038/s41596-021-00573-7
10.1038/s41596-021-00573-7 · External reference
An integrative, hypothesis-free, multi-omics approach uncovers biological pathway alterations in Alzheimer’s disease
10.1002/alz.038563 · 2020 · External reference
Curation of over 10 000 transcriptomic studies to enable data reuse
2021 · External reference
Mining genetic and transcriptomic data using machine learning approaches in Parkinson’s disease
2020 · External reference
Multiscale integration of -omic, imaging, and clinical data in biomedical informatics
10.1109/rbme.2012.2212427 · 2012 · External reference
10.1038/s41467-021-21652-z
10.1038/s41467-021-21652-z · External reference
