Schematic overview of the cellular and molecular mechanisms involved in the cancer progression, including the proposed cellular and molecular mechanisms in cancer cells trajectory. AT1: alveolar type 1 cells; AT2: alveolar type 2 cells; AAH: atypical adenomatous hyperplasia; AIS: adenocarcinoma in situ; MIA: minimally invasive adenocarcinoma; IA: invasive adenocarcinoma; EMT: epithelial-mesenchymal transition

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Center for Computational Systems Medicine
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Tissue samples summary

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Annotation details for different cell compartments

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Cell type statistics by disease state

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Cell type dynamics in malignant transformation

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Cell lineage trajectory inference

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TF regulatory network analysis

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Cell-cell interaction analysis

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Stemness, Senescence, Metaplasia and NeoTCR signature analysis

Tissue: Thyroid

Tissue samples summary

check button Cell type statistics by tissue samples.
EpitheliaImmuneStromal
Bar plot representation of the fraction of all Epithelial cells in each sample composed of each cell type for the integrated scRNA-seq datasets of Breast tissues. Each row represents a single sample, with each color representing a different cell type present in the sample.Bar plot representation of the fraction of all Immune cells in each sample composed of each cell type for the integrated scRNA-seq datasets of Breast tissues. Each row represents a single sample, with each color representing a different cell type present in the sample.Bar plot representation of the fraction of all Stromal cells in each sample composed of each cell type for the integrated scRNA-seq datasets of Breast tissues. Each row represents a single sample, with each color representing a different cell type present in the sample.
∗Bar plot representation of the fraction of all Epithelial, Immune and Stromal cells in each sample composed of each cell type for the integrated scRNA-seq datasets of Thyroid tissue. Each row represents a single sample, with each color representing a different cell type present in the sample.

check button Tissue summary table.
TissueDisease StateReplicatesEpithelia UMAPPMIDSourcePlatform
ThyroidHTAdj_PTCwithHT_6Projection

34805166

GSE163203

Microwell-seq
ThyroidHTAdj_PTCwithHT_8Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithHT_1Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithHT_6Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithHT_8Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithoutHT_2Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithoutHT_3Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithoutHT_4_1Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithoutHT_4_2Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithoutHT_5Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCPTCwithoutHT_7Projection

34805166

GSE163203

Microwell-seq
ThyroidPTCmale-WTAProjection

33588924

GSE158291

BD Rhapsody
ThyroidPTCfemale-WTAProjection

33588924

GSE158291

BD Rhapsody
ThyroidGoitersnodule-WTAProjection

33588924

GSE158291

BD Rhapsody
ThyroidPTCPTC01Projection

37053016

GSE193581

10X Genomics
ThyroidPTCPTC03Projection

37053016

GSE193581

10X Genomics
ThyroidADJNORM03Projection

37053016

GSE193581

10X Genomics
ThyroidPTCPTC04Projection

37053016

GSE193581

10X Genomics
ThyroidPTCPTC05Projection

37053016

GSE193581

10X Genomics
ThyroidPTCPTC06Projection

37053016

GSE193581

10X Genomics
∗Projection of epithelial scRNA-seq cells from Thyroid diseased tissue samples into the manifold of normal tissue epithelial cells. Projected cells are colored by nearest normal cells in the projection and normal epithelial cells are colored gray.
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Annotation details for different cell compartments

check button Single-cell atlas of expresion.
UMAP representations and annotations of Epithelial cells in the integrated scRNA-seq data of the selected tissue.UMAP representations and annotations of Immune cells in the integrated scRNA-seq data of the selected tissue.UMAP representations and annotations of Stromal cells in the integrated scRNA-seq data of the selected tissue.
∗UMAP representations and annotations of Epithelial, Immune, Stromal cells in the integrated scRNA-seq data of Thyroid tissue. Colors represent cell types of each compartment.

check button Cell markers.
TissueMajor Cell TypeMinor Cell TypeFull NameMarkers
ThyroidEpiSTMStem-like cellsCD34,PROM1,SOX2,POU5F1,TPO,PAX8,CD44,CD24,ALDH1A1,ABCG2,KIT
ThyroidEpiTFCThyroid Follicular cellsTFF3,TPO,SLC26A4
ThyroidEpiPTCPapillary thyroid carcinoma cellsEPCAM,KRT19,TG,TPO,LGALS3
ThyroidEpiiATCImmunoreactive thyrocytesKRT8,KRT18,S100A9,S100A10,IFI27,AGR2,CEACAM5,CEACAM6,AKR1B1,MKI67
ThyroidImmMASTMast cellsTPSAB1,CPA3,HDC,CTSG,TPSB2,CMA1,MS4A2
ThyroidImmcDCConventinal dendritic cellsHLA-DQA1,HLA-DQB1,CLEC10A,CLEC9A,FCER1A,CST3,CD1C
ThyroidImmpDCPlasmacytoid dendritic cellsIL3RA,CLEC4C,NRP1,KLRD1
ThyroidImmM1MACM1 macrophagesFOLR2,FABP3,PLA2G2D,ITGAM,ITGAX,CSF1R,CD68,CD163,THBD
ThyroidImmINMONInflamotory monocytesCD14,CLEC9A,FCGR1A,LILRB2,CD209,CD1E,FCN1,VCAN,S100A8,S100A9
ThyroidImmM2MACM2 macrophagesCSF1R,CSF3R,MRC1,IL10,CCL18,VSIG4,CHI3L1
ThyroidImmBNNaive B cellsCD19,IGHD,IGLL1,CD27,CD38
ThyroidImmBMEMMemory B cellsPAX5,MS4A1,CD19,IGLL5,VPREB3,CD79A,CD79B,IGKC,CD74,HLA-DRA,CD37,CD22
ThyroidImmGCGerminal center B cellsSERPINA9,HRK,HTR3A,BCL6,CD180,FCRLA
ThyroidImmPLAPlasma cellsSSR4,IGLL5,IGLL1,AMPD1,IGHA1,IGHA2,JCHAIN,CD38,TNFRSF17,SDC1,IGHG1,MZB1
ThyroidImmGDTGamma-delta T cellsTRDC,TRGC1,TRGC2,NKG7,TIGIT
ThyroidImmCD4TNNaive CD4+ T cellsIL7R,SELL,CCR7,S100A4,TCF7
ThyroidImmTH17T-helper 17IL17A,CTSH,KLRB1,IL26,CCR6
ThyroidImmTH1T-helper 1CXCL13,IFNG,CXCR3,BHLHE40,GZMB,PDCD1,HAVCR2,ICOS,IGFLR1,ITGAE
ThyroidImmTH2T-helper 2IL4,GATA3,IL13,IL5
ThyroidImmTFHT follicular helperCXCR5,BCL6,ICA1,TOX,TOX2,IL6ST,MAGEH1,BTLA,ICOS,PDCD1,CD200
ThyroidImmTREGRegulatory T cellsBATF,TNFRSF4,FOXP3,CTLA4,LAIR2,IL2RA
ThyroidImmCD8TEXPProgenitor exhausted CD8+ T cellsPDCD1,IL7R,GPR183,NR4A3,REL,TCF7
ThyroidImmCD8TEXINTIntermediate exhausted CD8+ T cellsPDCD1,LAG3,CD101,CD38,CXCR6,TIGIT
ThyroidImmCD8TEREXTerminally exhausted CD8+ T cellsTOX,GZMB,ENTPD1,ITGAE,HAVCR2,CXCL13,PDCD1,LAYN,TOX,IFNG,GZMB,MIR155HG,TNFRSF9,ITGAE
ThyroidImmCD8TCMCentral memory CD8+ T cellsCCR7,SELL,IL7R,CD27,CD28,PRF1,GZMA,CCL5,GPR183,S1PR1
ThyroidImmCD8TEFFEffector CD8+ T cellsCX3CR1,FCGR3A,FGFBP2,PRF1,GZMH,TBX21,EOMES,S1PR1
ThyroidStrENDEndothelial cellsPECAM1,PLVAP,VWF,CLDN5,FLT1,RAMP2,FAM110D,INHBB,NPR1,NOVA2,GPIHBP1,SOX17
ThyroidStrLYMENDLymphatic endothelial cellsPROX1,LYVE1,PDPN,PROCR,FLT4
ThyroidStrMSCMesenchymal stem cellsNT5E,THY1,ENG,CD44,ITGB1,MCAM,ENDOD1
ThyroidStrSMCSmooth muscle cellsACTA2,CNN1,MYH11,TAGLN,CALD1,TAGLN2
ThyroidStrPERIPericytesPDGFRA,CSPG4,RGS5,MCAM,COX4I2,KCNJ8,HIGD1B,NOTCH3,HEYL,FAM162B
ThyroidStrINFIBInflammatory fibroblastsCHI3L1,MMP3,PLAU,MMP1,TRAFD1,GBP1
ThyroidStrPVAPost capillary venulesSELP,ZNF385D,FAM155A,GALNT15,MADCAM1,CORT
ThyroidStrMVAMicrovascular cellsPLVAP,CD36,DYSF,NRP1,SH3BP5,EXOC3L2,FABP5,VWA1,BAALC,PRSS23,RAPGEF4,APLN,HTRA1
ThyroidStrECMExtracellular matrixFBLN1,PCOLCE2,MFAP5
ThyroidStrINCAFIntermediate cancer-associated fibroblastsPDGFRA,POSTN,ID1,ID3
ThyroidStrICAFInflammatory cancer-associated fibroblastsTWIST1,WNT2,FAP,CXCL1,CXCL2,CYR61,IL1B,IL6,HGF

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Cell type statistics by disease state

Stacked bar graph representation of the fraction of each epithelial cell type derived from samples with different Disease States in the integrated dataset of the selected tissue. Cells from each Disease State sample have a different color.Stacked bar graph representation of the fraction of each immune cell type derived from samples with different Disease States in the integrated dataset of the selected tissue. Cells from each Disease State sample have a different color.Stacked bar graph representation of the fraction of each stromal cell type derived from samples with different Disease States in the integrated dataset of the selected tissue. Cells from each Disease State sample have a different color.
∗Stacked bar graph representation of the fraction of each epithelial cell type derived from samples with different Disease States in the integrated dataset of Thyroid tissue. Cells from each Disease State sample have a different color.

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Cell type dynamics in malignant transformation

Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.
Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.
Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.
Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.
Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.
Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in the selected tissue. Samples are colored based on if they are derived from different Disease States.
∗Fraction of cell type in each scRNA-seq sample plotted against position of the sample in the malignancy continuum for all cell types in Thyroid tissue. Samples are colored based on if they are derived from different Disease States. Cell fractions are computed by dividing the number of cells of a given cell type by the total number of cells in the compartment (epithelial versus immune versus stromal).
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Cell lineage trajectory inference

Disease StateEpitheliaImmuneStromal
HealthyTrajectory analysis of cells of epithelial compartment in Healthy-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of immune compartment in Healthy-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of stromal compartment in Healthy-derived samples of Thyroid tissue by using scvelo package in Python.
ADJTrajectory analysis of cells of epithelial compartment in ADJ-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of immune compartment in ADJ-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of stromal compartment in ADJ-derived samples of Thyroid tissue by using scvelo package in Python.
PrecancerTrajectory analysis of cells of epithelial compartment in Precancer-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of immune compartment in Precancer-derived samples of Thyroid tissue by using scvelo package in Python.There is no Precancer regulation activity
PTCTrajectory analysis of cells of epithelial compartment in PTC-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of immune compartment in PTC-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of stromal compartment in PTC-derived samples of Thyroid tissue by using scvelo package in Python.
ATCTrajectory analysis of cells of epithelial compartment in ATC-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of immune compartment in ATC-derived samples of Thyroid tissue by using scvelo package in Python.Trajectory analysis of cells of stromal compartment in ATC-derived samples of Thyroid tissue by using scvelo package in Python.
∗RNA velocity maps for epithelial, immune and stromal compartments of Thyroid tissue with different disease states.

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TF regulatory network analysis

Disease StateEpitheliaImmuneStromal
HealthyHeatmap representation of significantly different TFs among all cell types of epithelial compartment in Healthy-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of immune compartment in Healthy-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of stromal compartment in Healthy-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.
TF target networkTF target networkTF target network
ADJHeatmap representation of significantly different TFs among all cell types of epithelial compartment in ADJ-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of immune compartment in ADJ-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of stromal compartment in ADJ-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.
TF target networkTF target networkTF target network
PrecancerHeatmap representation of significantly different TFs among all cell types of epithelial compartment in Precancer-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of immune compartment in Precancer-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of stromal compartment in Precancer-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.
TF target networkTF target networkTF target network
PTCHeatmap representation of significantly different TFs among all cell types of epithelial compartment in PTC-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of immune compartment in PTC-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of stromal compartment in PTC-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.
TF target networkTF target networkTF target network
ATCHeatmap representation of significantly different TFs among all cell types of epithelial compartment in ATC-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of immune compartment in ATC-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.Heatmap representation of significantly different TFs among all cell types of stromal compartment in ATC-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python.
TF target networkTF target networkTF target network
∗Heatmap: Heatmap representation of significantly different TFs among all cell types of epithelial compartment in Healthy-derived samples of Thyroid tissue by comparing their average AUC by using pySCENIC in Python. Regulon specific score for each cell type is colored.
∗Network: TF target network created from Healthy-derived samples of Thyroid tissue using Top 50 predicted target genes of each regulon. Edge lengths are the inferred TF-target weightings.

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Cell-cell interaction analysis

Disease StateCell TypeCircleSourceTarget
HealthyBMEMThe cell-cell communications between each two interacting cell types in Healthy-derived samples of the selected tissue. Different colors in the circle plot represent different cell groups and the edge width is proportional to the indicated number of ligand-receptor pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its source cell population in Healthy-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its target cell population in Healthy-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.
CD4TNThe cell-cell communications between each two interacting cell types in Healthy-derived samples of the selected tissue. Different colors in the circle plot represent different cell groups and the edge width is proportional to the indicated number of ligand-receptor pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its source cell population in Healthy-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its target cell population in Healthy-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.
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Disease StateCell TypeCircleSourceTarget
ADJBNThe cell-cell communications between each two interacting cell types in ADJ-derived samples of the selected tissue. Different colors in the circle plot represent different cell groups and the edge width is proportional to the indicated number of ligand-receptor pairs. Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its source cell population in ADJ-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its target cell population in ADJ-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.
CD4TNThe cell-cell communications between each two interacting cell types in ADJ-derived samples of the selected tissue. Different colors in the circle plot represent different cell groups and the edge width is proportional to the indicated number of ligand-receptor pairs. Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its source cell population in ADJ-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its target cell population in ADJ-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.
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Disease StateCell TypeCircleSourceTarget
PrecancerBMEMThe cell-cell communications between each two interacting cell types in Precancer-derived samples of the selected tissue. Different colors in the circle plot represent different cell groups and the edge width is proportional to the indicated number of ligand-receptor pairs. Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its source cell population in Precancer-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its target cell population in Precancer-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.
BNThe cell-cell communications between each two interacting cell types in Precancer-derived samples of the selected tissue. Different colors in the circle plot represent different cell groups and the edge width is proportional to the indicated number of ligand-receptor pairs. Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its source cell population in Precancer-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its target cell population in Precancer-derived samples of the selected tissue. Each row represents the significant ligand and receptor gene pairs.
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∗The cell-cell communications between each two interacting cell types in different states-derived samples of Thyroid tissue. Different colors in the circle plot represent different cell groups and the edge width is proportional to the indicated number of ligand-receptor pairs.
∗Bubble plot of proportion to the communication probability in significant signaling pathways between this cell type and its source and target cell population. Each row represents the significant ligand and receptor gene pairs.

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Stemness, Senescence, Metaplasia and NeoTCR signature analysis

check button Developmental potential inference using CytoTRACE.
1_developmental_potential_in_Healthy.png shows the analysis results of stemness, senescence, and metaplasia signatures2_developmental_potential_in_Precancer.png shows the analysis results of stemness, senescence, and metaplasia signatures3_developmental_potential_in_PTC.png shows the analysis results of stemness, senescence, and metaplasia signatures4_developmental_potential_in_ATC.png shows the analysis results of stemness, senescence, and metaplasia signatures
∗Ridge plots of CytoTRACE score distributions for epithelial cells.

check button Cellular senescence signature (for three compartments).
Disease StateEpitheliaImmuneStromal
HealthyComparisons for degree of cellular senescence of epithelial compartment in Healthy-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of immune compartment in Healthy-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of stromal compartment in Healthy-derived samples of Thyroid tissue.
PrecancerComparisons for degree of cellular senescence of epithelial compartment in Precancer-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of immune compartment in Precancer-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of stromal compartment in Precancer-derived samples of Thyroid tissue.
PTCComparisons for degree of cellular senescence of epithelial compartment in PTC-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of immune compartment in PTC-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of stromal compartment in PTC-derived samples of Thyroid tissue.
ATCComparisons for degree of cellular senescence of epithelial compartment in ATC-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of immune compartment in ATC-derived samples of Thyroid tissue.Comparisons for degree of cellular senescence of stromal compartment in ATC-derived samples of Thyroid tissue.
∗Comparisons for degree of cellular senescence among epithelial, immune and stromal cell populations of Thyroid tissue with different disease states.

check button Metaplasia and damage response signature (for epithelial cells).
HealthyPrecancerPTCATC
Comparisons of Metaplasia-associated damage scores among epithelial cell subpopulations.Comparisons of Metaplasia-associated damage scores among epithelial cell subpopulations.Comparisons of Metaplasia-associated damage scores among epithelial cell subpopulations.Comparisons of Metaplasia-associated damage scores among epithelial cell subpopulations.
∗Comparisons of Metaplasia-associated damage scores among epithelial cell subpopulations.

check button Neoantigen-specific TCR clonotypes (NeoTCR) signature.
Comparisons of CD4+ and CD8+ NeoTCR signature scores among different disease states.Comparisons of CD4+ and CD8+ NeoTCR signature scores among different disease states.
∗Comparisons of CD4+ and CD8+ NeoTCR signature scores among different disease states.