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ATCC human cscc cell line scl1
Human Cscc Cell Line Scl1, supplied by ATCC, used in various techniques. Bioz Stars score: 96/100, based on 1328 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/human+cscc+cell+lines/pm41257862-99-1-10?v=ATCC
Average 96 stars, based on 1328 article reviews

human cscc cell line scl1 - by Bioz Stars, 2026-06

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Oncolytic activity of CVB3/2035A in human CSCC cell lines and cell line-derived xenografts. (A) CSCC cell monolayers were either mock-infected or infected with CVB3/2035A at an MOI of 1. Photomicrographs were taken at 72 h post-infection. Scale bar, 100 μm. (B) CSCC cells were infected with CVB3/2035A at an MOI of 10, 1, 0.1, and 0.01 for 72 h. Cell viability was assessed using the CCK8 assay. (C) Nude mice bearing C33A, SiHa, and CaSki xenografts were treated i.t. or i.v. with five consecutive doses of CVB3/2035A (1 × 10 8 TCID 50 per dose). An equivalent volume of PBS was administered i.t. as a control (Mock). Tumor growth was monitored over a 20-day period. (D) The combination of CVB3/2035A and paclitaxel improved efficacy in CSCC CDX models. Nude mice with C33A, SiHa, and CaSki xenografts were either mock-treated (PBS i.t. + PTX diluting solution i.p.) or treated with CVB3/2035A (1 × 10 8 TCID 50 i.t. + PTX diluting solution i.p.), PTX (5 mg/kg i.p. + PBS i.t.), or a combination (1 × 10 8 TCID 50 CVB3/2035A i.t. + 5 mg/kg PTX i.p.). Data are presented as means ± SEM. Statistical analysis was performed using a two-way ANOVA ( n = 5). Black arrows indicate treatments; ns, not significant; * p < 0.05; **** p < 0.0001

Journal: Virology Journal

Article Title: Oncolytic activity of a coxsackievirus B3 strain in patient-derived cervical squamous cell carcinoma organoids and synergistic effect with paclitaxel

doi: 10.1186/s12985-024-02502-y

Figure Lengend Snippet: Oncolytic activity of CVB3/2035A in human CSCC cell lines and cell line-derived xenografts. (A) CSCC cell monolayers were either mock-infected or infected with CVB3/2035A at an MOI of 1. Photomicrographs were taken at 72 h post-infection. Scale bar, 100 μm. (B) CSCC cells were infected with CVB3/2035A at an MOI of 10, 1, 0.1, and 0.01 for 72 h. Cell viability was assessed using the CCK8 assay. (C) Nude mice bearing C33A, SiHa, and CaSki xenografts were treated i.t. or i.v. with five consecutive doses of CVB3/2035A (1 × 10 8 TCID 50 per dose). An equivalent volume of PBS was administered i.t. as a control (Mock). Tumor growth was monitored over a 20-day period. (D) The combination of CVB3/2035A and paclitaxel improved efficacy in CSCC CDX models. Nude mice with C33A, SiHa, and CaSki xenografts were either mock-treated (PBS i.t. + PTX diluting solution i.p.) or treated with CVB3/2035A (1 × 10 8 TCID 50 i.t. + PTX diluting solution i.p.), PTX (5 mg/kg i.p. + PBS i.t.), or a combination (1 × 10 8 TCID 50 CVB3/2035A i.t. + 5 mg/kg PTX i.p.). Data are presented as means ± SEM. Statistical analysis was performed using a two-way ANOVA ( n = 5). Black arrows indicate treatments; ns, not significant; * p < 0.05; **** p < 0.0001

Article Snippet: Three human CSCC cell lines (C33A, SiHa, and CaSki) were purchased from the American Type Culture Collection (ATCC).

Techniques: Activity Assay, Derivative Assay, Infection, CCK-8 Assay, Control

( A ) Flowchart overview of single-cell sequencing in human skin of actinic keratosis (AK), squamous cell carcinoma in situ (SCCIS), and cutaneous squamous cell carcinoma (cSCC) patients. ( B ) Hematoxylin and eosin (H&E) staining of skin biopsies from representative AK (100× and 250×), SCCIS (50× and 250×), and cSCC (50× and 250×). ( C ) Uniform manifold approximation and projection (UMAP) plot of human normal skin labeled by cell type and patient, respectively. ( D ) Heatmap showing gene expression signatures of each cell type. ( E ) Violin plot displaying the expression of representative genes to identify subpopulations for each cell type. ( F ) Representative gene ontology (GO) terms of signature genes in different cell subpopulations. The color keys from yellow to red indicate the range of p-value.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Flowchart overview of single-cell sequencing in human skin of actinic keratosis (AK), squamous cell carcinoma in situ (SCCIS), and cutaneous squamous cell carcinoma (cSCC) patients. ( B ) Hematoxylin and eosin (H&E) staining of skin biopsies from representative AK (100× and 250×), SCCIS (50× and 250×), and cSCC (50× and 250×). ( C ) Uniform manifold approximation and projection (UMAP) plot of human normal skin labeled by cell type and patient, respectively. ( D ) Heatmap showing gene expression signatures of each cell type. ( E ) Violin plot displaying the expression of representative genes to identify subpopulations for each cell type. ( F ) Representative gene ontology (GO) terms of signature genes in different cell subpopulations. The color keys from yellow to red indicate the range of p-value.

Article Snippet: Human immortalized epidermal keratinocytes cell line (HaCaT cells) and human cSCC cell line A431, SCL-I, and SCL-II ( ; ) were used in this study and were obtained from the American Type Culture Collection (ATCC) and Free University of Berlin.

Techniques: Sequencing, In Situ, Staining, Labeling, Gene Expression, Expressing

( A ) Violin plots showing the expression levels of ALDH3A1 and IGDBP2 in actinic keratosis (AK), squamous cell carcinoma in situ (SCCIS), and matched normal samples (Wilcoxon test, p_val_adj <0.05). ( B ) Violin plots showing the expression levels of ALDH3A1 and IGDBP2 in cutaneous squamous cell carcinoma (cSCC) and matched normal samples. ( C ) The effect of UVB on ALDH3A1 expression in HaCaT cells. Left, the cells were collected at 24 hr, 48 hr, 72 hr, 96 hr, and 120 hr after UVB irradiation with a UVB dose of 10 mJ/cm 2 per 24 hr; right, the cells were collected at 24 hr after UVB irradiation with UVB doses of 10 mJ/cm 2 , 20 mJ/cm 2 , 30 mJ/cm 2 , 40 mJ/cm 2 , and 50 mJ/cm 2 . ( D ) The changes of cell proliferation after IGFBP2 overexpression in HaCaT and A431 cells. ( E ) The changes of cell invasion after IGFBP2 overexpression in HaCaT and A431 cells. * p<0.05; **p<0.01; ***p<0.001; ns, not significant.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Violin plots showing the expression levels of ALDH3A1 and IGDBP2 in actinic keratosis (AK), squamous cell carcinoma in situ (SCCIS), and matched normal samples (Wilcoxon test, p_val_adj <0.05). ( B ) Violin plots showing the expression levels of ALDH3A1 and IGDBP2 in cutaneous squamous cell carcinoma (cSCC) and matched normal samples. ( C ) The effect of UVB on ALDH3A1 expression in HaCaT cells. Left, the cells were collected at 24 hr, 48 hr, 72 hr, 96 hr, and 120 hr after UVB irradiation with a UVB dose of 10 mJ/cm 2 per 24 hr; right, the cells were collected at 24 hr after UVB irradiation with UVB doses of 10 mJ/cm 2 , 20 mJ/cm 2 , 30 mJ/cm 2 , 40 mJ/cm 2 , and 50 mJ/cm 2 . ( D ) The changes of cell proliferation after IGFBP2 overexpression in HaCaT and A431 cells. ( E ) The changes of cell invasion after IGFBP2 overexpression in HaCaT and A431 cells. * p<0.05; **p<0.01; ***p<0.001; ns, not significant.

Techniques: Expressing, In Situ, Irradiation, Over Expression

( A ) Representative gene ontology (GO) terms for genes with specific expression in basal cell of SCCIS, actinic keratosis (AK), and normal samples in P2 (upper) and up-regulated differentially expressed genes (DEGs) from AK versus normal, SCCIS versus normal, SCCIS versus AK, respectively (lower). ( B ) Heatmap showing copy number variation (CNV) levels of all keratinocytes from AK and SCCIS samples in P2. The keratinocytes from normal sample in P2 were defined as references. ( C ) Uniform manifold approximation and projection (UMAP) of subgroups generated from basal cells in SCCIS sample showing basal cells with higher CNV level enriched in one subgroup; red dot representing basal cells with higher CNV level (cnv.score>81.5). ( D ) DEGs detected between Basal-SCCIS-tumor and Basal-SCCIS-normal. ( E ) Representative enriched Kyoto Encyclopedia of Genes and Genomes (KEGG) and GO terms in up-regulated genes (avg_log 2 FC >0.58 and p_val_adj <0.05). ( F ) Violin plots showing the expression level of representative DNA damage response marker genes in Basal-SCCIS-tumor and Basal-SCCIS-normal subgroups. ( G ) Chord plot showing the top up-regulated genes included in representative GO terms. ( H ) Violin plots showing the expression level of major members in HSP family across Basal-SCCIS-tumor and Basal-SCCIS-normal subgroups (Wilcoxon test, p_val_adj <0.05). ( I ) Violin plots showing the expression level of MAGEA4 and ITGA6 in Basal-SCCIS-tumor and Basal-SCCIS-normal subgroups (Wilcoxon test, p_val_adj <0.05). ( J ) Immunohistochemistry staining of MAGEA4 and ITGA6 in human skin of normal, SCCIS, and cutaneous squamous cell carcinoma (cSCC) samples.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Representative gene ontology (GO) terms for genes with specific expression in basal cell of SCCIS, actinic keratosis (AK), and normal samples in P2 (upper) and up-regulated differentially expressed genes (DEGs) from AK versus normal, SCCIS versus normal, SCCIS versus AK, respectively (lower). ( B ) Heatmap showing copy number variation (CNV) levels of all keratinocytes from AK and SCCIS samples in P2. The keratinocytes from normal sample in P2 were defined as references. ( C ) Uniform manifold approximation and projection (UMAP) of subgroups generated from basal cells in SCCIS sample showing basal cells with higher CNV level enriched in one subgroup; red dot representing basal cells with higher CNV level (cnv.score>81.5). ( D ) DEGs detected between Basal-SCCIS-tumor and Basal-SCCIS-normal. ( E ) Representative enriched Kyoto Encyclopedia of Genes and Genomes (KEGG) and GO terms in up-regulated genes (avg_log 2 FC >0.58 and p_val_adj <0.05). ( F ) Violin plots showing the expression level of representative DNA damage response marker genes in Basal-SCCIS-tumor and Basal-SCCIS-normal subgroups. ( G ) Chord plot showing the top up-regulated genes included in representative GO terms. ( H ) Violin plots showing the expression level of major members in HSP family across Basal-SCCIS-tumor and Basal-SCCIS-normal subgroups (Wilcoxon test, p_val_adj <0.05). ( I ) Violin plots showing the expression level of MAGEA4 and ITGA6 in Basal-SCCIS-tumor and Basal-SCCIS-normal subgroups (Wilcoxon test, p_val_adj <0.05). ( J ) Immunohistochemistry staining of MAGEA4 and ITGA6 in human skin of normal, SCCIS, and cutaneous squamous cell carcinoma (cSCC) samples.

Techniques: Expressing, Generated, Marker, Immunohistochemistry, Staining

( A ) Violin plots showing the different expression levels of candidate genes across all types of keratinocytes in P2, cutaneous squamous cell carcinoma (cSCC), and normal groups (Wilcoxon test, p_val_adj <0.05). ( B ) The statistical results of immunohistochemistry staining of MAGEA4 in different stages of cSCC including SCCIS, well-differentiated cSCC (WD cSCC), and moderately differentiated/poorly differentiated cSCC (MD/PD cSCC), respectively. ( C ) The statistical results of immunohistochemistry staining of ITGA6 in different stages of cSCC including SCCIS, WD cSCC, and MD/PD.cSCC, respectively.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Violin plots showing the different expression levels of candidate genes across all types of keratinocytes in P2, cutaneous squamous cell carcinoma (cSCC), and normal groups (Wilcoxon test, p_val_adj <0.05). ( B ) The statistical results of immunohistochemistry staining of MAGEA4 in different stages of cSCC including SCCIS, well-differentiated cSCC (WD cSCC), and moderately differentiated/poorly differentiated cSCC (MD/PD cSCC), respectively. ( C ) The statistical results of immunohistochemistry staining of ITGA6 in different stages of cSCC including SCCIS, WD cSCC, and MD/PD.cSCC, respectively.

Techniques: Expressing, Immunohistochemistry, Staining

( A ) The mRNA expression of MAGEA4 and ITGA6 in human immortalized keratinocytes (HaCaT) and cutaneous squamous cell carcinoma (cSCC) cell lines (A431, SCL-I, SCL-II). *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( B ) Effect of small interfering RNA (siRNA) on the expression of MAGEA4 in A432 and ITGA6 in A431, SCL-I, and SCL-II determined by quantitative real-time PCR (qRT-PCR). ( C ) Functional experiment of MAGEA4 in A432. Upper, left, effect of MAGEA4 cSCC cell proliferation by CCK-8 proliferation in A431; upper, right, the effect of MAGEA4 on cSCC cell apoptosis was measured by staining with Annexin V-FITC/PI, followed by FACS analysis. Lower, left, the scratch experiment showed that MAGEA4 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr; lower, right, transwell assay showed that the invasion abilities of the si-MAGEA4 groups significantly decreased compared with the si-NC group. **p<0.01. ( D ) Effect of ITGA6 on cSCC cell proliferation by CCK-8 proliferation assay in A431, SCL-I, and SCL-II. *p<0.05; **p<0.01. ( E ) The effect of ITGA6 on cSCC cell apoptosis. **p<0.01. ( F ) ITGA6 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr. *p<0.05; **p<0.01. ( G ) The invasion abilities of the si-ITGA6 groups significantly decreased compared with the si-NC group. *p<0.05; **p<0.01.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) The mRNA expression of MAGEA4 and ITGA6 in human immortalized keratinocytes (HaCaT) and cutaneous squamous cell carcinoma (cSCC) cell lines (A431, SCL-I, SCL-II). *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( B ) Effect of small interfering RNA (siRNA) on the expression of MAGEA4 in A432 and ITGA6 in A431, SCL-I, and SCL-II determined by quantitative real-time PCR (qRT-PCR). ( C ) Functional experiment of MAGEA4 in A432. Upper, left, effect of MAGEA4 cSCC cell proliferation by CCK-8 proliferation in A431; upper, right, the effect of MAGEA4 on cSCC cell apoptosis was measured by staining with Annexin V-FITC/PI, followed by FACS analysis. Lower, left, the scratch experiment showed that MAGEA4 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr; lower, right, transwell assay showed that the invasion abilities of the si-MAGEA4 groups significantly decreased compared with the si-NC group. **p<0.01. ( D ) Effect of ITGA6 on cSCC cell proliferation by CCK-8 proliferation assay in A431, SCL-I, and SCL-II. *p<0.05; **p<0.01. ( E ) The effect of ITGA6 on cSCC cell apoptosis. **p<0.01. ( F ) ITGA6 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr. *p<0.05; **p<0.01. ( G ) The invasion abilities of the si-ITGA6 groups significantly decreased compared with the si-NC group. *p<0.05; **p<0.01.

Techniques: Expressing, Small Interfering RNA, Real-time Polymerase Chain Reaction, Quantitative RT-PCR, Functional Assay, CCK-8 Assay, Staining, Knockdown, Migration, Control, Transwell Assay, Proliferation Assay

( A ) Uniform manifold approximation and projection (UMAP) of all cells from cSCC patients labeled by sample and cell type, respectively. ( B ) Cell proportion of keratinocytes in cSCC and normal groups. ( C ) Expression of basal, Pro KC, and differentiated genes in all keratinocytes of cSCC and normal groups. ( D ) Left, immunohistochemical staining of LGALS1, IFITM3, and FTH1 in normal skin (200×), well-differentiated cSCC (WD cSCC) (50× and 250×), and moderately differentiated/poorly differentiated cSCC (MD/PD cSCC) (50× and 250×). Scale bar, 200 μm and 50 μm. Right, the immunoreactivity score (IRS) analyses of LGALS1, IFITM3, and FTH1 in normal skin, WD cSCC, and MD/PD cSCC. n=15 for each group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( E ) The mRNA expression of LGALS1, IFITM3, and FTH1 in human immortalized keratinocytes (HaCaT) and cSCC cell lines (A431, SCL-I, SCL-II). *p<0.05; **p<0.01; ***p<0.001; ns, not significant.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Uniform manifold approximation and projection (UMAP) of all cells from cSCC patients labeled by sample and cell type, respectively. ( B ) Cell proportion of keratinocytes in cSCC and normal groups. ( C ) Expression of basal, Pro KC, and differentiated genes in all keratinocytes of cSCC and normal groups. ( D ) Left, immunohistochemical staining of LGALS1, IFITM3, and FTH1 in normal skin (200×), well-differentiated cSCC (WD cSCC) (50× and 250×), and moderately differentiated/poorly differentiated cSCC (MD/PD cSCC) (50× and 250×). Scale bar, 200 μm and 50 μm. Right, the immunoreactivity score (IRS) analyses of LGALS1, IFITM3, and FTH1 in normal skin, WD cSCC, and MD/PD cSCC. n=15 for each group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( E ) The mRNA expression of LGALS1, IFITM3, and FTH1 in human immortalized keratinocytes (HaCaT) and cSCC cell lines (A431, SCL-I, SCL-II). *p<0.05; **p<0.01; ***p<0.001; ns, not significant.

Techniques: Labeling, Expressing, Immunohistochemical staining, Staining

The changes of cell proportion and significance test in all cutaneous squamous cell carcinoma (cSCC) samples and patient-matched normal skin samples (t test, p<0.05).

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: The changes of cell proportion and significance test in all cutaneous squamous cell carcinoma (cSCC) samples and patient-matched normal skin samples (t test, p<0.05).

Techniques:

( A ) Heatmap showing CNV levels of all keratinocytes from all cSCC samples. The keratinocytes from all patient-matched normal samples were defined as references. ( B ) Left, heatmap showing CNV levels of all keratinocytes from well-differentiated cSCC (WD cSCC) sample; right, the proportion of tumor and normal cells in WD cSCC sample defined by cnv.cut (probs = 0.99). ( C ) Left, heatmap showing CNV levels of all keratinocytes from poorly differentiated cSCC (PD cSCC) sample; right, the proportion of tumor and normal cells in PD cSCC sample defined by cnv.cut (probs = 0.99). ( D ) Left, heatmap showing CNV levels of all keratinocytes from moderately differentiated cSCC (MD cSCC) sample; right, the proportion of tumor and normal cells in MD cSCC sample defined by cnv.cut (probs = 0.99).

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Heatmap showing CNV levels of all keratinocytes from all cSCC samples. The keratinocytes from all patient-matched normal samples were defined as references. ( B ) Left, heatmap showing CNV levels of all keratinocytes from well-differentiated cSCC (WD cSCC) sample; right, the proportion of tumor and normal cells in WD cSCC sample defined by cnv.cut (probs = 0.99). ( C ) Left, heatmap showing CNV levels of all keratinocytes from poorly differentiated cSCC (PD cSCC) sample; right, the proportion of tumor and normal cells in PD cSCC sample defined by cnv.cut (probs = 0.99). ( D ) Left, heatmap showing CNV levels of all keratinocytes from moderately differentiated cSCC (MD cSCC) sample; right, the proportion of tumor and normal cells in MD cSCC sample defined by cnv.cut (probs = 0.99).

Techniques:

( A ) The enriched gene ontology (GO) terms of up-regulated differentially expressed genes (DEGs) in Basal1, Basal2, Pro KC, Follicular2, Spinous1 and Spinous2 between cSCC and normal groups. ( B ) Violin plots showing the different expression levels of candidate genes in cSCC and normal groups (Wilcoxon test, p_val_adj <0.05). ( C ) Left, immunohistochemical staining of BST2 and SAT1 in cSCC in normal skin (200×), well-differentiated cSCC (WD cSCC) (50× and 250×) and moderately differentiated/poorly differentiated cSCC (MD/PD cSCC) (50× and 250×). Scale bar, 200 μm and 50 μm. Right, the immunoreactivity score (IRS) analyses of BST2 and SAT1 in normal skin, WD cSCC and MD/PD cSCC. n=15 for each group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( D ) The mRNA expression of BST2 and SAT1 in human immortalized keratinocytes (HaCaT) and cSCC cell lines (A431, SCL-I, SCL-II). *p<0.05; **p<0.01; ***p<0.001; ns, not significant.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) The enriched gene ontology (GO) terms of up-regulated differentially expressed genes (DEGs) in Basal1, Basal2, Pro KC, Follicular2, Spinous1 and Spinous2 between cSCC and normal groups. ( B ) Violin plots showing the different expression levels of candidate genes in cSCC and normal groups (Wilcoxon test, p_val_adj <0.05). ( C ) Left, immunohistochemical staining of BST2 and SAT1 in cSCC in normal skin (200×), well-differentiated cSCC (WD cSCC) (50× and 250×) and moderately differentiated/poorly differentiated cSCC (MD/PD cSCC) (50× and 250×). Scale bar, 200 μm and 50 μm. Right, the immunoreactivity score (IRS) analyses of BST2 and SAT1 in normal skin, WD cSCC and MD/PD cSCC. n=15 for each group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( D ) The mRNA expression of BST2 and SAT1 in human immortalized keratinocytes (HaCaT) and cSCC cell lines (A431, SCL-I, SCL-II). *p<0.05; **p<0.01; ***p<0.001; ns, not significant.

Techniques: Expressing, Immunohistochemical staining, Staining

( A ) Effect of small interfering RNA (siRNA) on the expression of LGALS1, IFITM3, and FTH1 in A431, SCL-I, and SCL-II determined by quantitative real-time PCR (qRT-PCR). ( B ) Effect of LGALS1, IFITM3, and FTH1 on cSCC cell proliferation. The CCK-8 proliferation assay demonstrated a significant decrease in the proliferation of the si-LGALS1, si-IFITM3, and si-FTH1 groups compared with the si-NC group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( C ) The effect of LGALS1, IFITM3, and FTH1 on cSCC cell apoptosis. Significant increase in the apoptosis of the si-LGALS1, si-IFITM3, and si-FTH1 groups compared with the si-NC group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( D ) The scratch experiment showed that LGALS1 and IFITM3 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr, while there was no significant change in the si-FTH1 group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( E ) Transwell assay showed that the invasion abilities of the si-LGALS1, si-IFITM3, and si-FTH1 groups significantly decreased compared with the si-NC group. *p<0.05; **p<0.01; ***p<0.001.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Effect of small interfering RNA (siRNA) on the expression of LGALS1, IFITM3, and FTH1 in A431, SCL-I, and SCL-II determined by quantitative real-time PCR (qRT-PCR). ( B ) Effect of LGALS1, IFITM3, and FTH1 on cSCC cell proliferation. The CCK-8 proliferation assay demonstrated a significant decrease in the proliferation of the si-LGALS1, si-IFITM3, and si-FTH1 groups compared with the si-NC group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( C ) The effect of LGALS1, IFITM3, and FTH1 on cSCC cell apoptosis. Significant increase in the apoptosis of the si-LGALS1, si-IFITM3, and si-FTH1 groups compared with the si-NC group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( D ) The scratch experiment showed that LGALS1 and IFITM3 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr, while there was no significant change in the si-FTH1 group. *p<0.05; **p<0.01; ***p<0.001; ns, not significant. ( E ) Transwell assay showed that the invasion abilities of the si-LGALS1, si-IFITM3, and si-FTH1 groups significantly decreased compared with the si-NC group. *p<0.05; **p<0.01; ***p<0.001.

Techniques: Small Interfering RNA, Expressing, Real-time Polymerase Chain Reaction, Quantitative RT-PCR, CCK-8 Assay, Proliferation Assay, Knockdown, Migration, Control, Transwell Assay

( A ) Effect of small interfering RNA (siRNA) on the expression of BST2 and SAT1 in A431, SCL-I, and SCL-II determined by quantitative real-time PCR (qRT-PCR). ( B ) Effect of BST2 and SAT1 on cutaneous squamous cell carcinoma (cSCC) cell proliferation by CCK-8 proliferation assay in A431, SCL-I, and SCL-II. **p<0.01. ( C ) The effect of BST2 and SAT1 on cSCC cell apoptosis. **p<0.01. ( D ) BST2 and SAT1 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr. *p<0.05; **p<0.01. ( E ) The invasion abilities of the si-ITGA6 groups significantly decreased compared with the si-NC group. *p<0.05; **p<0.01.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Effect of small interfering RNA (siRNA) on the expression of BST2 and SAT1 in A431, SCL-I, and SCL-II determined by quantitative real-time PCR (qRT-PCR). ( B ) Effect of BST2 and SAT1 on cutaneous squamous cell carcinoma (cSCC) cell proliferation by CCK-8 proliferation assay in A431, SCL-I, and SCL-II. **p<0.01. ( C ) The effect of BST2 and SAT1 on cSCC cell apoptosis. **p<0.01. ( D ) BST2 and SAT1 knockdown resulted in a shorter vertical migration distance compared with the control group after 72 hr. *p<0.05; **p<0.01. ( E ) The invasion abilities of the si-ITGA6 groups significantly decreased compared with the si-NC group. *p<0.05; **p<0.01.

Techniques: Small Interfering RNA, Expressing, Real-time Polymerase Chain Reaction, Quantitative RT-PCR, CCK-8 Assay, Proliferation Assay, Knockdown, Migration, Control

( A ) Identification of TME cell subpopulations based on their marker genes, including T cells, dendritic (DC) cells, and stromal cells. ( B ) Cell proportion of cell subpopulations in T cells, DC cells, and stromal cells, respectively. ( C ) The monotonically changed differentially expressed genes (DEGs) in TME cells in cSCC samples of all stages (Wilcoxon test, p_val_adj <0.05). ( D ) Comparison of cell interactions among the different clinical stages of cSCC (Wilcoxon test, ****p<0.0001). ( E ) Comparison of total incoming path weights vs total outgoing path weights across all cell populations in three cSCC samples, respectively (Wilcoxon test, p<0.1). ( F ) Circle plot showing the inferred intercellular communication signaling strength network of MHC-II pathway in three cSCC samples, respectively (Wilcoxon test, p<0.1).

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Identification of TME cell subpopulations based on their marker genes, including T cells, dendritic (DC) cells, and stromal cells. ( B ) Cell proportion of cell subpopulations in T cells, DC cells, and stromal cells, respectively. ( C ) The monotonically changed differentially expressed genes (DEGs) in TME cells in cSCC samples of all stages (Wilcoxon test, p_val_adj <0.05). ( D ) Comparison of cell interactions among the different clinical stages of cSCC (Wilcoxon test, ****p<0.0001). ( E ) Comparison of total incoming path weights vs total outgoing path weights across all cell populations in three cSCC samples, respectively (Wilcoxon test, p<0.1). ( F ) Circle plot showing the inferred intercellular communication signaling strength network of MHC-II pathway in three cSCC samples, respectively (Wilcoxon test, p<0.1).

Techniques: Marker, Comparison

( A ) Uniform manifold approximation and projection (UMAP) of subpopulations generated from fibroblasts in all cutaneous squamous cell carcinoma (cSCC) samples. ( B ) Feature plots showing the expression of signature genes for . ( C ) Feature plots showing the expression of signature genes for Fib3. ( D ) Feature plots showing the expression of signature genes for Fib4.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Uniform manifold approximation and projection (UMAP) of subpopulations generated from fibroblasts in all cutaneous squamous cell carcinoma (cSCC) samples. ( B ) Feature plots showing the expression of signature genes for . ( C ) Feature plots showing the expression of signature genes for Fib3. ( D ) Feature plots showing the expression of signature genes for Fib4.

Techniques: Generated, Expressing

( A ) Comparison of cell interactions between poorly differentiated cSCC and matched normal samples (Wilcoxon test, ****p<0.0001). ( B ) Circle plot showing the inferred intercellular communication signaling strength network of MHC-II, LAMININ, and TNF pathways in poorly differentiated cSCC and matched normal samples were predicted by CellPhoneDB approach (Wilcoxon test, p<0.1).

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Comparison of cell interactions between poorly differentiated cSCC and matched normal samples (Wilcoxon test, ****p<0.0001). ( B ) Circle plot showing the inferred intercellular communication signaling strength network of MHC-II, LAMININ, and TNF pathways in poorly differentiated cSCC and matched normal samples were predicted by CellPhoneDB approach (Wilcoxon test, p<0.1).

Techniques: Comparison

( A ) Left, uniform manifold approximation and projection (UMAP) of single-cell RNA sequencing (scRNA-seq) dataset from poorly differentiated cSCC (PD cSCC) sample labeled by cell type; right, UMAP plot of single-cell ATAC sequencing (scATAC-seq) dataset from PD cSCC sample labeled by cell type after integration and label transfer with scRNA-seq data. ( B ) Bar plot of annotated differentially accessible region (DAR) location for each type. ( C ) Fragment coverage (frequency of Tn5 insertion) around the DAR on the gene KRT5 and CD83. ( D ) Left, heatmap of average chromVAR motif activity for each cell type. The color scale represents a z-score scaled by row. Right, UMAP plot displaying chromVAR motif activity, gene activity, and gene expression of TP63 (upper) and FOSL1 (lower). The color scale for each plot represents a normalized log-fold-change for the respectively assay. ( E ) Cell-specific mean chromVAR motif activity from the JASPAR database was plotted against cell-specific average expression for the corresponding transcription factor for all cell types and transcription factors. ( F ) Mean chromVAR activity was plotted against average expression for TP63 (left) and FOSL1 (right). Significant correlation was assessed with Pearson’s product moment correlation coefficient using the cor.test function in R.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) Left, uniform manifold approximation and projection (UMAP) of single-cell RNA sequencing (scRNA-seq) dataset from poorly differentiated cSCC (PD cSCC) sample labeled by cell type; right, UMAP plot of single-cell ATAC sequencing (scATAC-seq) dataset from PD cSCC sample labeled by cell type after integration and label transfer with scRNA-seq data. ( B ) Bar plot of annotated differentially accessible region (DAR) location for each type. ( C ) Fragment coverage (frequency of Tn5 insertion) around the DAR on the gene KRT5 and CD83. ( D ) Left, heatmap of average chromVAR motif activity for each cell type. The color scale represents a z-score scaled by row. Right, UMAP plot displaying chromVAR motif activity, gene activity, and gene expression of TP63 (upper) and FOSL1 (lower). The color scale for each plot represents a normalized log-fold-change for the respectively assay. ( E ) Cell-specific mean chromVAR motif activity from the JASPAR database was plotted against cell-specific average expression for the corresponding transcription factor for all cell types and transcription factors. ( F ) Mean chromVAR activity was plotted against average expression for TP63 (left) and FOSL1 (right). Significant correlation was assessed with Pearson’s product moment correlation coefficient using the cor.test function in R.

Techniques: RNA Sequencing, Labeling, Sequencing, Activity Assay, Gene Expression, Expressing

( A ) The attribution plot showing the similarity between Basal-SCCIS-tumor/normal with the cell populations defined by Ji et al. ( B ) The classification heatmap showing the similarity between Basal-SCCIS-tumor/normal with the cell populations defined by Ji et al. ( C ) The attribution plot showing the similarity between basal cells in cutaneous squamous cell carcinoma (cSCC) samples with the cell populations defined by Ji et al. ( D ) The classification heatmap showing the similarity between basal cells in cSCC samples with the cell populations defined by Ji et al. SCCIS, squamous cell carcinoma in situ.

Journal: eLife

Article Title: Single-cell sequencing highlights heterogeneity and malignant progression in actinic keratosis and cutaneous squamous cell carcinoma

doi: 10.7554/eLife.85270

Figure Lengend Snippet: ( A ) The attribution plot showing the similarity between Basal-SCCIS-tumor/normal with the cell populations defined by Ji et al. ( B ) The classification heatmap showing the similarity between Basal-SCCIS-tumor/normal with the cell populations defined by Ji et al. ( C ) The attribution plot showing the similarity between basal cells in cutaneous squamous cell carcinoma (cSCC) samples with the cell populations defined by Ji et al. ( D ) The classification heatmap showing the similarity between basal cells in cSCC samples with the cell populations defined by Ji et al. SCCIS, squamous cell carcinoma in situ.

Techniques: In Situ

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