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References from Multi-omics analysis identifies macrophage immunometabolic signatures in ulcerative colitis. Local targets link to admitted publications; unresolved targets remain external evidence.
Machine learning and deep learning methods that use omics data for metastasis prediction
10.1016/j.csbj.2021.09.001 · 2021 · External reference
Changing global epidemiology of inflammatory bowel diseases: sustaining health care delivery into the 21st century
10.1016/j.cgh.2020.01.028 · 2020 · External reference
Mucosal gene signatures to predict response to infliximab in patients with ulcerative colitis
10.1136/gut.2009.178665 · 2009 · External reference
NCBI GEO: mining millions of expression profiles--database and tools
10.1093/nar/gki022 · 2005 · External reference
Epidemiology of inflammatory bowel disease across the ages in the era of advanced therapies
10.1093/ecco-jcc/jjae082 · 2024 · External reference
Profiling tumor infiltrating immune cells with CIBERSORT
10.1007/978-1-4939-7493-1_12 · 2018 · External reference
Integrating single-cell RNA-Seq and machine learning to dissect tryptophan metabolism in ulcerative colitis
10.1186/s12967-024-05934-w · 2024 · External reference
Regulator of cell cycle (RGCC) expression during the progression of Alzheimer's disease
10.3727/096368916x694184 · 2017 · External reference
T follicular helper cell biology: a decade of discovery and diseases
10.1016/j.immuni.2019.04.011 · 2019 · External reference
PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data
10.1093/database/baz046 · 2019 · External reference
Macrophage and neutrophil heterogeneity at single-cell spatial resolution in human inflammatory bowel disease
10.1038/s41467-023-40156-6 · 2023 · External reference
affy--analysis of Affymetrix GeneChip data at the probe level
10.1093/bioinformatics/btg405 · 2004 · External reference
Ulcerative colitis mucosal transcriptomes reveal mitochondriopathy and personalized mechanisms underlying disease severity and treatment response
10.1038/s41467-018-07841-3 · 2019 · External reference
Roles of macrophages in the development and treatment of gut inflammation
10.3389/fcell.2021.625423 · 2021 · External reference
Integrative analysis of single-cell RNA-seq and gut microbiome metabarcoding data elucidates macrophage dysfunction in mice with DSS-induced ulcerative colitis
10.1038/s42003-024-06409-w · 2024 · External reference
Suppression of pro-inflammatory M1 polarization of LPS-stimulated RAW 264.7 macrophage cells by fucoxanthin-rich Sargassum hemiphyllum
10.3390/md21100533 · 2023 · External reference
Inference and analysis of cell-cell communication using CellChat
10.1038/s41467-021-21246-9 · 2021 · External reference
Metabolic reprogramming in macrophages and dendritic cells in innate immunity
10.1038/cr.2015.68 · 2015 · External reference
Complement receptor 1: disease associations and therapeutic implications
10.1016/j.molimm.2008.09.026 · 2009 · External reference
WGCNA: an R package for weighted correlation network analysis
10.1186/1471-2105-9-559 · 2008 · External reference
The sva package for removing batch effects and other unwanted variation in high-throughput experiments
10.1093/bioinformatics/bts034 · 2012 · External reference
NCF4 attenuates colorectal cancer progression by modulating inflammasome activation and immune surveillance
10.1038/s41467-024-49549-7 · 2024 · External reference
TIMER: a web server for comprehensive analysis of tumor-infiltrating immune cells
10.1158/0008-5472.can-17-0307 · 2017 · External reference
Molecular signatures database (MSigDB) 3.0
10.1093/bioinformatics/btr260 · 2011 · External reference
BACH1 transcriptionally upregulates FOSL2 to induce M2 macrophages phenotype by activating TGFβ/SMAD signaling to promote the transformation of lung fibroblasts into myofibroblasts
10.1016/j.tice.2024.102407 · 2024 · External reference
Metabolic reprogramming in macrophage responses
10.1186/s40364-020-00251-y · 2021 · External reference
T-B-cell entanglement and ICOSL-driven feed-forward regulation of germinal centre reaction
10.1038/nature13803 · 2015 · External reference
Monocyte-macrophages modulate intestinal homeostasis in inflammatory bowel disease
10.1186/s40364-024-00612-x · 2024 · External reference
Relating the molecular phenotype of ulcerative colitis to the clinical course
10.1038/s41598-025-90618-8 · 2025 · External reference
The tetraspan MS4A family in homeostasis, immunity, and disease
10.1016/j.it.2021.07.002 · 2021 · External reference
Cathepsins B, L and D in inflammatory bowel disease macrophages and potential therapeutic effects of cathepsin inhibition in vivo
10.1111/j.1365-2249.2006.03188.x · 2006 · External reference
Macrophages in intestinal inflammation and resolution: a potential therapeutic target in IBD
10.1038/s41575-019-0172-4 · 2019 · External reference
Plasmacytoid dendritic cells have a cytokine-producing capacity to enhance ICOS ligand-mediated IL-10 production during T-cell priming
10.5361/jkmu.66.19 · 2013 · External reference
Macrophage-specific NF-κB activation dynamics can segregate inflammatory bowel disease patients
10.3389/fimmu.2019.02168 · 2019 · External reference
Colonic epithelial cell diversity in health and inflammatory bowel disease
10.1038/s41586-019-0992-y · 2019 · External reference
Alternative pathways of IL-1 activation, and its role in health and disease
10.3389/fimmu.2020.613170 · 2020 · External reference
EPIC: a tool to estimate the proportions of different cell types from bulk gene expression data
10.1007/978-1-0716-0327-7_17 · 2020 · External reference
pROC: an open-source package for R and S+ to analyze and compare ROC curves
10.1186/1471-2105-12-77 · 2011 · External reference
Krebs cycle reborn in macrophage immunometabolism
10.1146/annurev-immunol-081619-104850 · 2020 · External reference
Regularization paths for Cox's proportional hazards model via coordinate descent
10.18637/jss.v039.i05 · 2011 · External reference
Intra- and inter-cellular rewiring of the human colon during ulcerative colitis
10.1016/j.cell.2019.06.029 · 2019 · External reference
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
10.1073/pnas.0506580102 · 2005 · External reference
The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells
10.1038/nbt.2859 · 2014 · External reference
Ulcerative colitis
10.1016/s0140-6736(16)32126-2 · 2017 · External reference
Attention-based random forest and contamination model
10.1016/j.neunet.2022.07.029 · 2022 · External reference
The metabolic signature of macrophage responses
10.3389/fimmu.2019.01462 · 2019 · External reference
Mechanisms and therapeutic strategies of macrophages and neutrophils inducing ulcerative colitis progression
10.3389/fimmu.2025.1615340 · 2025 · External reference
ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking
10.1093/bioinformatics/btq170 · 2010 · External reference
Identification and validation of feature genes related to mitochondrial dysfunction and oxidative stress in ulcerative colitis
10.2147/jir.s506851 · 2025 · External reference
Identification and verification of immune-related gene prognostic signature based on ssGSEA for osteosarcoma
10.3389/fonc.2020.607622 · 2020 · External reference
Human leukocyte antigen DR alpha inhibits renal cell carcinoma progression by promoting the polarization of M2 macrophages to M1 via the NF-κB pathway
10.1016/j.intimp.2024.113706 · 2025 · External reference
Bioinformatics analysis to screen for genes related to myocardial infarction
10.3389/fgene.2022.990888 · 2022 · External reference
SHIP1 and its role for innate immune regulation-novel targets for immunotherapy
10.1002/eji.202350446 · 2023 · External reference
clusterProfiler: an R package for comparing biological themes among gene clusters
10.1089/omi.2011.0118 · 2012 · External reference
Macrophage polarization in inflammatory bowel disease
10.1186/s12964-023-01386-9 · 2023 · External reference
CellMarker: a manually curated resource of cell markers in human and mouse
10.1093/nar/gky900 · 2019 · External reference
First prospective, population-based inflammatory bowel disease incidence study in mainland of China: the emergence of "western" disease
10.1097/mib.0b013e31828a6551 · 2013 · External reference
Intestinal barrier in inflammatory bowel disease: a bibliometric and knowledge-map analysis
10.3748/wjg.v29.i36.5254 · 2023 · External reference