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    ATCC atcc accession number
    Atcc Accession Number, supplied by ATCC, used in various techniques. Bioz Stars score: 90/100, based on 131 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/inserts/Escherichia+coli+strains+containing+plasmids+with+human+cDNA+inserts+for+the+genes+Tango228%2C+Tango+240%2C+Tango+243%2C+Tango+244+and+Mango+245%2C+EpT228%2C+EpT240%2C+EpT243%2C+EpT244%2C+and+EpM245/us08754199-69-53-53
    Average 90 stars, based on 131 article reviews
    atcc accession number - by Bioz Stars, 2026-11
    90/100 stars

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    Sequencing:

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 35% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the amino acid sequence of SEQ ID NO:41, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof. .. The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 35% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the amino acid sequence of SEQ ID NO:45, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof. .. In preferred embodiments, the nucleic acid molecules have the nucleotide sequence of SEQ ID NO:1, 2, 13, 14, 19, 20, 31, 32, 39, 40, 44 or the nucleotide sequence of the cDNA of ATCC Accession Number 207116.

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: .. The invention features nucleic acid molecules which include a fragment of at least 515 (530, 550, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000, 2100, or 2150) nucleotides of the nucleotide sequence of SEQ ID NO:13, the nucleotide sequence of the cDNA of ATCC Accession Number 207116, or a complement thereof. .. The invention features nucleic acid molecules which include a fragment of at least 2220 (2260, 2300, 2340, 2380, 2420, 2460, 2500, 2540, 2580, 2620, 2660, 2700, 2740, 2780, or 2800) nucleotides of the nucleotide sequence of SEQ ID NO:19, the nucleotide sequence of the cDNA of ATCC Accession Number 207116, or a complement thereof.

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: .. Also within the invention are isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence that is at least about 48%, preferably 50%, 55%, 60%, 65%, 75%, 85%, or 95% identical to the nucleic acid sequence encoding SEQ ID NO:3, and isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence which hybridizes under stringent hybridization conditions to a nucleic acid molecule having the nucleotide sequence of SEQ ID NO:1 or 2, a complement thereof or the non-coding strand of the cDNA of ATCC Accession Number 207116. .. Also within the invention are isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence that is at least about 30%, preferably 35%, 40%, 45%, 50%, 55%, 60%, 65%, 75%, 85%, or 95% identical to the nucleic acid sequence encoding SEQ ID NO:15, and isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence which hybridizes under stringent hybridization conditions to a nucleic acid molecule having the nucleotide sequence of SEQ ID NO:13 or 14, a complement thereof, or the non-coding strand of the cDNA of ATCC Accession Number 207116.

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 35% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the amino acid sequence of SEQ ID NO:15, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof. .. The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 93% (or 94%, 95%, 96%, 97% or 98%) identical to the amino acid sequence of SEQ ID NO:21, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof. .. The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 35% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the amino acid sequence of SEQ ID NO:33, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof.

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: The invention features nucleic acid molecules which are at least 30% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the nucleotide sequence of SEQ ID NO:13 or 14, the nucleotide sequence of the cDNA insert of a clone deposited with ATCC as Accession Number 207116, or a complement thereof. .. The invention features nucleic acid molecules which are at least 80% (or 82%, 85%, 87%, 90%, 92%, 95%, or 98%) identical to the nucleotide sequence of SEQ ID NO:19, the nucleotide sequence of the cDNA insert of a clone deposited with ATCC as Accession Number 207116, or a complement thereof. .. The invention features nucleic acid molecules which are at least 93% (or 94%, 95%, 96%, 97%, or 98%) identical to the nucleotide sequence of SEQ ID NO:20, the nucleotide sequence of the cDNA insert of a clone deposited with ATCC as Accession Number 207116, or a complement thereof.

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: Also within the invention are isolated polypeptides or proteins having an amino acid sequence that is at least about 35%, preferably 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98% identical to the amino acid sequence of SEQ ID NO:15, or the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116. .. Also within the invention are isolated polypeptides or proteins having an amino acid sequence that is at least about 93%, preferably 94%, 95%, 96%, 97% or 98% identical to the amino acid sequence of SEQ ID NO:21, or the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116. ..

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 35% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the amino acid sequence of SEQ ID NO:45, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof. .. In preferred embodiments, the nucleic acid molecules have the nucleotide sequence of SEQ ID NO:1, 2, 13, 14, 19, 20, 31, 32, 39, 40, 44 or the nucleotide sequence of the cDNA of ATCC Accession Number 207116. .. Also within the invention are nucleic acid molecules which encode a fragment of a polypeptide having the amino acid sequence of SEQ ID NO:3, or a fragment including at least 15 (25, 30, 50, 75, 100, 125, 150, 175, 200, 225, 250, 275, 300, or 340) contiguous amino acids of SEQ ID NO:3, or the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116.

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 93% (or 94%, 95%, 96%, 97% or 98%) identical to the amino acid sequence of SEQ ID NO:21, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof. .. The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 35% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the amino acid sequence of SEQ ID NO:33, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof. .. The invention also features nucleic acid molecules which include a nucleotide sequence encoding a protein having an amino acid sequence that is at least 35% (or 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98%) identical to the amino acid sequence of SEQ ID NO:41, the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116, or a complement thereof.

    Isolation:

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: .. Also within the invention are isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence that is at least about 48%, preferably 50%, 55%, 60%, 65%, 75%, 85%, or 95% identical to the nucleic acid sequence encoding SEQ ID NO:3, and isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence which hybridizes under stringent hybridization conditions to a nucleic acid molecule having the nucleotide sequence of SEQ ID NO:1 or 2, a complement thereof or the non-coding strand of the cDNA of ATCC Accession Number 207116. .. Also within the invention are isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence that is at least about 30%, preferably 35%, 40%, 45%, 50%, 55%, 60%, 65%, 75%, 85%, or 95% identical to the nucleic acid sequence encoding SEQ ID NO:15, and isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence which hybridizes under stringent hybridization conditions to a nucleic acid molecule having the nucleotide sequence of SEQ ID NO:13 or 14, a complement thereof, or the non-coding strand of the cDNA of ATCC Accession Number 207116.

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: Also within the invention are isolated polypeptides or proteins having an amino acid sequence that is at least about 35%, preferably 40%, 45%, 50%, 55%, 65%, 75%, 85%, 95%, or 98% identical to the amino acid sequence of SEQ ID NO:15, or the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116. .. Also within the invention are isolated polypeptides or proteins having an amino acid sequence that is at least about 93%, preferably 94%, 95%, 96%, 97% or 98% identical to the amino acid sequence of SEQ ID NO:21, or the amino acid sequence encoded by the cDNA of ATCC Accession Number 207116. ..

    Hybridization:

    Article Title: Tango 240 nucleic acids and uses thereof
    Article Snippet: .. Also within the invention are isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence that is at least about 48%, preferably 50%, 55%, 60%, 65%, 75%, 85%, or 95% identical to the nucleic acid sequence encoding SEQ ID NO:3, and isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence which hybridizes under stringent hybridization conditions to a nucleic acid molecule having the nucleotide sequence of SEQ ID NO:1 or 2, a complement thereof or the non-coding strand of the cDNA of ATCC Accession Number 207116. .. Also within the invention are isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence that is at least about 30%, preferably 35%, 40%, 45%, 50%, 55%, 60%, 65%, 75%, 85%, or 95% identical to the nucleic acid sequence encoding SEQ ID NO:15, and isolated polypeptides or proteins which are encoded by a nucleic acid molecule having a nucleotide sequence which hybridizes under stringent hybridization conditions to a nucleic acid molecule having the nucleotide sequence of SEQ ID NO:13 or 14, a complement thereof, or the non-coding strand of the cDNA of ATCC Accession Number 207116.



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    96
    Illumina Inc illumina short insert libraries
    a Medium from freshly isolated organoids analysed by proteome array. n = 4 mice per group, pooled. Analysis: one-way ANOVA with Tukey’s correction. In bold: known NF-κB target genes. b Treg cell migration <t>transwell</t> assay: isolated MLN/ spleen primary Treg cells from Wt mice incubated with factors shown. NC (negative control – medium alone) or PC (positive control – Fetal bovine serum). Analysis: one-way ANOVA; Bonferroni’s multiple comparison test. Mean and SD shown. n = 9. c IHC against CCL22 ( n = 5 mice). Black triangles: CCL22+ immune cells. Purple triangles: CCL22+ epithelial cells. Scale: 10 μm. d Primary Treg cells from Wt mice cultured with organoid conditioned medium from Wt vs CCL22 −/− mice ( n = 3 mice), treated with LPS (25 μg/ml LPS over 48 h) or left untreated. Treg cell migration quantified via Transwell migration assay. Analysis: one-way ANOVA. Mean and SD shown. e Treg cell co-culture with conditioned organoid medium (SN), 30 Vol.-% and/or + 30 ng/mL murine IL-33, CM + 30 ng/mL IL-33 or CM + 100 ng/mL Amphiregulin. The fold change increase of expanded Treg cells on day 3 was measured in relation to the initial cell count. n = 3 mice. Analysis: as in a. Mean and SD shown. f Quantitation of CCR4+ and FoxP3+ cells from IF per image. n = 9. Mean and SD shown. g Isolated Wt ( n = 5) and IκBα IEC KO ( n = 3) CD4 + CD25+ Treg cells cultured for 6 h in medium supplemented with 50 ng/mL PMA and 1 µg/mL ionomycin. Supernatants analysed by ELISA. Analysis: unpaired t-test, two-sided. Mean and SD shown. h scRNA of colonic versus splenic immune cells from Wt and IκBα IEC KO mice. i Genes with significant changes in expression between colonic or splenic Treg cells in Wt versus IκBα IEC KO mice. j Differential expression of Gdpd3 and Ftl1 in spleen and colon Treg cells. Analysis: two-sided Wilcoxon rank-sum test k Colonic IF against GDPD3, CD4 and CDH1. Scale: 50 μm. n = 12. Zoom: double positive cells. l Quantitation of GDPD3+CD4+ cells per image. Analysis as in ( a ). Mean and SD shown. m Primary Treg cells from Wt mice cultured with organoid SN (supernatants). n = 3 mice. GDPD3+ cells visualized by IF. Analysis: as in ( a ). Mean and SD shown. Source data are provided as a Source Data file.
    Illumina Short Insert Libraries, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    a Medium from freshly isolated organoids analysed by proteome array. n = 4 mice per group, pooled. Analysis: one-way ANOVA with Tukey’s correction. In bold: known NF-κB target genes. b Treg cell migration <t>transwell</t> assay: isolated MLN/ spleen primary Treg cells from Wt mice incubated with factors shown. NC (negative control – medium alone) or PC (positive control – Fetal bovine serum). Analysis: one-way ANOVA; Bonferroni’s multiple comparison test. Mean and SD shown. n = 9. c IHC against CCL22 ( n = 5 mice). Black triangles: CCL22+ immune cells. Purple triangles: CCL22+ epithelial cells. Scale: 10 μm. d Primary Treg cells from Wt mice cultured with organoid conditioned medium from Wt vs CCL22 −/− mice ( n = 3 mice), treated with LPS (25 μg/ml LPS over 48 h) or left untreated. Treg cell migration quantified via Transwell migration assay. Analysis: one-way ANOVA. Mean and SD shown. e Treg cell co-culture with conditioned organoid medium (SN), 30 Vol.-% and/or + 30 ng/mL murine IL-33, CM + 30 ng/mL IL-33 or CM + 100 ng/mL Amphiregulin. The fold change increase of expanded Treg cells on day 3 was measured in relation to the initial cell count. n = 3 mice. Analysis: as in a. Mean and SD shown. f Quantitation of CCR4+ and FoxP3+ cells from IF per image. n = 9. Mean and SD shown. g Isolated Wt ( n = 5) and IκBα IEC KO ( n = 3) CD4 + CD25+ Treg cells cultured for 6 h in medium supplemented with 50 ng/mL PMA and 1 µg/mL ionomycin. Supernatants analysed by ELISA. Analysis: unpaired t-test, two-sided. Mean and SD shown. h scRNA of colonic versus splenic immune cells from Wt and IκBα IEC KO mice. i Genes with significant changes in expression between colonic or splenic Treg cells in Wt versus IκBα IEC KO mice. j Differential expression of Gdpd3 and Ftl1 in spleen and colon Treg cells. Analysis: two-sided Wilcoxon rank-sum test k Colonic IF against GDPD3, CD4 and CDH1. Scale: 50 μm. n = 12. Zoom: double positive cells. l Quantitation of GDPD3+CD4+ cells per image. Analysis as in ( a ). Mean and SD shown. m Primary Treg cells from Wt mice cultured with organoid SN (supernatants). n = 3 mice. GDPD3+ cells visualized by IF. Analysis: as in ( a ). Mean and SD shown. Source data are provided as a Source Data file.
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    a Medium from freshly isolated organoids analysed by proteome array. n = 4 mice per group, pooled. Analysis: one-way ANOVA with Tukey’s correction. In bold: known NF-κB target genes. b Treg cell migration transwell assay: isolated MLN/ spleen primary Treg cells from Wt mice incubated with factors shown. NC (negative control – medium alone) or PC (positive control – Fetal bovine serum). Analysis: one-way ANOVA; Bonferroni’s multiple comparison test. Mean and SD shown. n = 9. c IHC against CCL22 ( n = 5 mice). Black triangles: CCL22+ immune cells. Purple triangles: CCL22+ epithelial cells. Scale: 10 μm. d Primary Treg cells from Wt mice cultured with organoid conditioned medium from Wt vs CCL22 −/− mice ( n = 3 mice), treated with LPS (25 μg/ml LPS over 48 h) or left untreated. Treg cell migration quantified via Transwell migration assay. Analysis: one-way ANOVA. Mean and SD shown. e Treg cell co-culture with conditioned organoid medium (SN), 30 Vol.-% and/or + 30 ng/mL murine IL-33, CM + 30 ng/mL IL-33 or CM + 100 ng/mL Amphiregulin. The fold change increase of expanded Treg cells on day 3 was measured in relation to the initial cell count. n = 3 mice. Analysis: as in a. Mean and SD shown. f Quantitation of CCR4+ and FoxP3+ cells from IF per image. n = 9. Mean and SD shown. g Isolated Wt ( n = 5) and IκBα IEC KO ( n = 3) CD4 + CD25+ Treg cells cultured for 6 h in medium supplemented with 50 ng/mL PMA and 1 µg/mL ionomycin. Supernatants analysed by ELISA. Analysis: unpaired t-test, two-sided. Mean and SD shown. h scRNA of colonic versus splenic immune cells from Wt and IκBα IEC KO mice. i Genes with significant changes in expression between colonic or splenic Treg cells in Wt versus IκBα IEC KO mice. j Differential expression of Gdpd3 and Ftl1 in spleen and colon Treg cells. Analysis: two-sided Wilcoxon rank-sum test k Colonic IF against GDPD3, CD4 and CDH1. Scale: 50 μm. n = 12. Zoom: double positive cells. l Quantitation of GDPD3+CD4+ cells per image. Analysis as in ( a ). Mean and SD shown. m Primary Treg cells from Wt mice cultured with organoid SN (supernatants). n = 3 mice. GDPD3+ cells visualized by IF. Analysis: as in ( a ). Mean and SD shown. Source data are provided as a Source Data file.

    Journal: Nature Communications

    Article Title: Epithelial NF-κB shapes protective Treg cell responses to restrain intestinal inflammation

    doi: 10.1038/s41467-026-78796-z

    Figure Lengend Snippet: a Medium from freshly isolated organoids analysed by proteome array. n = 4 mice per group, pooled. Analysis: one-way ANOVA with Tukey’s correction. In bold: known NF-κB target genes. b Treg cell migration transwell assay: isolated MLN/ spleen primary Treg cells from Wt mice incubated with factors shown. NC (negative control – medium alone) or PC (positive control – Fetal bovine serum). Analysis: one-way ANOVA; Bonferroni’s multiple comparison test. Mean and SD shown. n = 9. c IHC against CCL22 ( n = 5 mice). Black triangles: CCL22+ immune cells. Purple triangles: CCL22+ epithelial cells. Scale: 10 μm. d Primary Treg cells from Wt mice cultured with organoid conditioned medium from Wt vs CCL22 −/− mice ( n = 3 mice), treated with LPS (25 μg/ml LPS over 48 h) or left untreated. Treg cell migration quantified via Transwell migration assay. Analysis: one-way ANOVA. Mean and SD shown. e Treg cell co-culture with conditioned organoid medium (SN), 30 Vol.-% and/or + 30 ng/mL murine IL-33, CM + 30 ng/mL IL-33 or CM + 100 ng/mL Amphiregulin. The fold change increase of expanded Treg cells on day 3 was measured in relation to the initial cell count. n = 3 mice. Analysis: as in a. Mean and SD shown. f Quantitation of CCR4+ and FoxP3+ cells from IF per image. n = 9. Mean and SD shown. g Isolated Wt ( n = 5) and IκBα IEC KO ( n = 3) CD4 + CD25+ Treg cells cultured for 6 h in medium supplemented with 50 ng/mL PMA and 1 µg/mL ionomycin. Supernatants analysed by ELISA. Analysis: unpaired t-test, two-sided. Mean and SD shown. h scRNA of colonic versus splenic immune cells from Wt and IκBα IEC KO mice. i Genes with significant changes in expression between colonic or splenic Treg cells in Wt versus IκBα IEC KO mice. j Differential expression of Gdpd3 and Ftl1 in spleen and colon Treg cells. Analysis: two-sided Wilcoxon rank-sum test k Colonic IF against GDPD3, CD4 and CDH1. Scale: 50 μm. n = 12. Zoom: double positive cells. l Quantitation of GDPD3+CD4+ cells per image. Analysis as in ( a ). Mean and SD shown. m Primary Treg cells from Wt mice cultured with organoid SN (supernatants). n = 3 mice. GDPD3+ cells visualized by IF. Analysis: as in ( a ). Mean and SD shown. Source data are provided as a Source Data file.

    Article Snippet: 4.5 × 10 4 cells/well were seeded in RPMI medium without additives on a transwell insert (8μm pore size, Greiner Bio-One Cat. 662638) in a 24- well plate.

    Techniques: Isolation, Organoids, Analysis, Migration, Transwell Assay, Incubation, Negative Control, Positive Control, Comparison, Cell Culture, Transwell Migration Assay, Co-culture Assay, Cell Characterization, Quantitation Assay, Enzyme-linked Immunosorbent Assay, Expressing, Quantitative Proteomics

    a scRNA dataset ( GSE116222 ) is based on samples from inflamed and non-inflamed colon regions of UC patients, as well as those from healthy controls. Visualization of IEC cells across the three conditions. b TRRUST analysis of top upregulated TF networks across the three conditions (Healthy, UC and UC NI (non-inflamed)) in IEC presented as a volcano plot. Text in blue: factors belonging to the NF-κB axis. A Gene-set enrichment was performed using Enrichr. Enrichment significance was assessed using Fisher’s exact test, and enrichment magnitude was represented by the odds ratio. Volcano plots generated with the Enrichr Appyter display odds ratio versus −log 10 ( P value). c TRRUST analysis of downregulated TF networks in UC-inflamed colon IEC versus healthy IEC. Text in blue: factors belonging to the NF-κB axis. Analysis as in ( b ). d H&E of colon sections from healthy and UC patients. Scale: 50 μm. e Colitis score (Nancy index) from ( d ). The patient number is shown in the graph. Analysis: Two-tailed t -test. Mean and SD shown. f Colon-derived organoids were derived from colon biopsies of UC patients or non-IBD controls, with at least n = 4 patients per group. Growth of colon organoids was measured over several days. Mean and SD shown. Analysis: t- test, two-tailed, unpaired. g At least 10 colon organoids per patient from healthy ( n = 3 persons) and UC colon-derived organoids ( n = 4 patients) treated with LPS over 48 h and stained with antibodies as indicated. Scale: 50 μm. h Quantification from g. Top panel: Ki67 (not significant). Lower panel: cleaved caspase 3. Analysis: One-way ANOVA with Tukey’s correction. Mean and SD shown. i Colon organoids were treated with TNF (TNF was removed, and the medium was changed) or left untreated. Medium from colon-derived organoids was analysed by proteome array, and the presence of secreted factors quantitated from bulk ( n = 4) samples per group and n = 2 technical replicates. Significance determined by one-way ANOVA with Tukey’s correction. Only significant results are shown. j Analysis of proteome data by DAVID v2023q4 followed by REVIGO for visualization of GO terms on semantic space. Bubble size indicates prevalence. Color: orange—terms enriched in medium of UC colon-derived organoids treated with TNF, purple—terms enriched in medium of healthy colon-derived organoids treated with TNF. SD and mean shown. Analysis: Welch’s t -test, two-sided – no significance. k Transwell recruitment with Jurkat cells incubated in medium from colon-derived organoids from UC patients or healthy controls. Analysis: one-way ANOVA with Tukey’s correction. n = 4 for healthy samples and n = 6 for UC samples (pooled). Individual points indicate technical replicates. Mean and SD shown. Source data are provided as a Source Data file.

    Journal: Nature Communications

    Article Title: Epithelial NF-κB shapes protective Treg cell responses to restrain intestinal inflammation

    doi: 10.1038/s41467-026-78796-z

    Figure Lengend Snippet: a scRNA dataset ( GSE116222 ) is based on samples from inflamed and non-inflamed colon regions of UC patients, as well as those from healthy controls. Visualization of IEC cells across the three conditions. b TRRUST analysis of top upregulated TF networks across the three conditions (Healthy, UC and UC NI (non-inflamed)) in IEC presented as a volcano plot. Text in blue: factors belonging to the NF-κB axis. A Gene-set enrichment was performed using Enrichr. Enrichment significance was assessed using Fisher’s exact test, and enrichment magnitude was represented by the odds ratio. Volcano plots generated with the Enrichr Appyter display odds ratio versus −log 10 ( P value). c TRRUST analysis of downregulated TF networks in UC-inflamed colon IEC versus healthy IEC. Text in blue: factors belonging to the NF-κB axis. Analysis as in ( b ). d H&E of colon sections from healthy and UC patients. Scale: 50 μm. e Colitis score (Nancy index) from ( d ). The patient number is shown in the graph. Analysis: Two-tailed t -test. Mean and SD shown. f Colon-derived organoids were derived from colon biopsies of UC patients or non-IBD controls, with at least n = 4 patients per group. Growth of colon organoids was measured over several days. Mean and SD shown. Analysis: t- test, two-tailed, unpaired. g At least 10 colon organoids per patient from healthy ( n = 3 persons) and UC colon-derived organoids ( n = 4 patients) treated with LPS over 48 h and stained with antibodies as indicated. Scale: 50 μm. h Quantification from g. Top panel: Ki67 (not significant). Lower panel: cleaved caspase 3. Analysis: One-way ANOVA with Tukey’s correction. Mean and SD shown. i Colon organoids were treated with TNF (TNF was removed, and the medium was changed) or left untreated. Medium from colon-derived organoids was analysed by proteome array, and the presence of secreted factors quantitated from bulk ( n = 4) samples per group and n = 2 technical replicates. Significance determined by one-way ANOVA with Tukey’s correction. Only significant results are shown. j Analysis of proteome data by DAVID v2023q4 followed by REVIGO for visualization of GO terms on semantic space. Bubble size indicates prevalence. Color: orange—terms enriched in medium of UC colon-derived organoids treated with TNF, purple—terms enriched in medium of healthy colon-derived organoids treated with TNF. SD and mean shown. Analysis: Welch’s t -test, two-sided – no significance. k Transwell recruitment with Jurkat cells incubated in medium from colon-derived organoids from UC patients or healthy controls. Analysis: one-way ANOVA with Tukey’s correction. n = 4 for healthy samples and n = 6 for UC samples (pooled). Individual points indicate technical replicates. Mean and SD shown. Source data are provided as a Source Data file.

    Article Snippet: 4.5 × 10 4 cells/well were seeded in RPMI medium without additives on a transwell insert (8μm pore size, Greiner Bio-One Cat. 662638) in a 24- well plate.

    Techniques: Analysis, Generated, Two Tailed Test, Derivative Assay, Organoids, Staining, Incubation, Significance Assay