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SusTech GmbH rna-seq expression data
Rna Seq Expression Data, supplied by SusTech GmbH, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/rna+seq+data+processing/rna+seq+data/pmc11524881-53-11-5
Average 90 stars, based on 1 article reviews
rna-seq expression data - by Bioz Stars, 2026-09
90/100 stars

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Related Articles

RNA Sequencing:

Article Title: Tandemly duplicated MYB genes are functionally diverged in the regulation of anthocyanin biosynthesis in soybean.
Article Snippet: Gene duplications have long been recognized as a driving force in the evolution of genes, giving rise to novel functions.. The soybean (Glycine max) genome is characterized by a large number of duplicated genes.. However, the extent and mechanisms of functional divergence among these duplicated genes in soybean remain poorly understood.

Article Title: Comparative analysis, diversification, and functional validation of plant nucleotide-binding site domain genes
Article Snippet: To ascertain the differential expression and responsiveness of NBS genes in various tissues and stresses, we have retrieved RNA-seq data from the IPF database ( http://ipf.sustech.edu.cn/pub/ ) , (Arabidopsis, maize, soybean, upland cotton, and wild cotton) from different databases including Arabidopsis RNA-seq database ( http://ipf.sustech.edu.cn/pub/athrna/ ) , maize RNA-seq database ( http://ipf.sustech.edu.cn/pub/zmrna/ ) , cotton RNA-seq database ( http://ipf.sustech.edu.cn/pub/cottonrna/ ) , soybean RNA-seq database ( http://ipf.sustech.edu.cn/pub/soybean/ ) , Cotton Functional Genomics Database (CottonFGD) ( https://cottonfgd.net/ ) and Cottongen database ( https://www.cottongen.org/ ) .

Article Title: Ectopic expression of GmNF-YA8 in Arabidopsis delays flowering via modulating the expression of gibberellic acid biosynthesis- and flowering-related genes and promotes lateral root emergence in low phosphorus conditions
Article Snippet: In addition, based on the public RNA-seq data ( http://ipf.sustech.edu.cn/pub/soybean/ ), we found that GmNA-YA8 is induced by low P, and respond to dehydration, and day length ( ).

Article Title: Genome-wide identification of rice CXE gene family and mining of alleles for potential application in rice improvement
Article Snippet: From the RNA-seq database (PPRD, http://ipf.sustech.edu.cn/pub/plantrna/ ; September 26th, 2023), the rice CXE gene RNA-seq expression data were retrieved (as FPKM values, Transcripts per kilobase read per million maps) ( ).

Article Title: Conservation of land plant-specific receptor-like cytoplasmic kinase subfamily XI possessing a unique kinase insert domain
Article Snippet: Publicly available RNA-seq data were obtained from the Arabidopsis RNA-seq database (ARS) ( ) ( http://ipf.sustech.edu.cn/pub/athrna/ ).

Article Title: The ZmWAKL–ZmWIK–ZmBLK1–ZmRBOH4 module provides quantitative resistance to gray leaf spot in maize
Article Snippet: Source data is in the Supplementary Data. available RNA-seq dataset (http://ipf.sustech.edu.cn/pub/plantrna/). (b) ZmRBOH5 and ZmRBOH6 are mainly expressed in the anther (n=3).

Article Title: A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.
Article Snippet: In addition to eGWAS, the RNA-seq database provides another way to identify the upstream regulatory genes of a target gene (http://ipf.sustech.edu.cn/pub/athrna/).

Article Title: Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Article Snippet: We amassed an initial set of RNA-seq runs from the Sustech Arabidopsis RNA-seq database V2 ( Zhang et al. 2020 ) ( http://ipf.sustech.edu.cn/pub/athrdb/ ) excluding any samples not associated with a publication or lacking a tissue type label.

Expressing:

Article Title: Tandemly duplicated MYB genes are functionally diverged in the regulation of anthocyanin biosynthesis in soybean.
Article Snippet: Gene duplications have long been recognized as a driving force in the evolution of genes, giving rise to novel functions.. The soybean (Glycine max) genome is characterized by a large number of duplicated genes.. However, the extent and mechanisms of functional divergence among these duplicated genes in soybean remain poorly understood.

Article Title: Comparative analysis, diversification, and functional validation of plant nucleotide-binding site domain genes
Article Snippet: To ascertain the differential expression and responsiveness of NBS genes in various tissues and stresses, we have retrieved RNA-seq data from the IPF database ( http://ipf.sustech.edu.cn/pub/ ) , (Arabidopsis, maize, soybean, upland cotton, and wild cotton) from different databases including Arabidopsis RNA-seq database ( http://ipf.sustech.edu.cn/pub/athrna/ ) , maize RNA-seq database ( http://ipf.sustech.edu.cn/pub/zmrna/ ) , cotton RNA-seq database ( http://ipf.sustech.edu.cn/pub/cottonrna/ ) , soybean RNA-seq database ( http://ipf.sustech.edu.cn/pub/soybean/ ) , Cotton Functional Genomics Database (CottonFGD) ( https://cottonfgd.net/ ) and Cottongen database ( https://www.cottongen.org/ ) .

Article Title: Ectopic expression of GmNF-YA8 in Arabidopsis delays flowering via modulating the expression of gibberellic acid biosynthesis- and flowering-related genes and promotes lateral root emergence in low phosphorus conditions
Article Snippet: In addition, based on the public RNA-seq data ( http://ipf.sustech.edu.cn/pub/soybean/ ), we found that GmNA-YA8 is induced by low P, and respond to dehydration, and day length ( ).

Article Title: Genome-wide identification of rice CXE gene family and mining of alleles for potential application in rice improvement
Article Snippet: From the RNA-seq database (PPRD, http://ipf.sustech.edu.cn/pub/plantrna/ ; September 26th, 2023), the rice CXE gene RNA-seq expression data were retrieved (as FPKM values, Transcripts per kilobase read per million maps) ( ).

Article Title: Conservation of land plant-specific receptor-like cytoplasmic kinase subfamily XI possessing a unique kinase insert domain
Article Snippet: Publicly available RNA-seq data were obtained from the Arabidopsis RNA-seq database (ARS) ( ) ( http://ipf.sustech.edu.cn/pub/athrna/ ).

Article Title: The ZmWAKL–ZmWIK–ZmBLK1–ZmRBOH4 module provides quantitative resistance to gray leaf spot in maize
Article Snippet: Source data is in the Supplementary Data. available RNA-seq dataset (http://ipf.sustech.edu.cn/pub/plantrna/). (b) ZmRBOH5 and ZmRBOH6 are mainly expressed in the anther (n=3).

Article Title: A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.
Article Snippet: In addition to eGWAS, the RNA-seq database provides another way to identify the upstream regulatory genes of a target gene (http://ipf.sustech.edu.cn/pub/athrna/).

Article Title: Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Article Snippet: We amassed an initial set of RNA-seq runs from the Sustech Arabidopsis RNA-seq database V2 ( Zhang et al. 2020 ) ( http://ipf.sustech.edu.cn/pub/athrdb/ ) excluding any samples not associated with a publication or lacking a tissue type label.

Quantitative Proteomics:

Article Title: Tandemly duplicated MYB genes are functionally diverged in the regulation of anthocyanin biosynthesis in soybean.
Article Snippet: Gene duplications have long been recognized as a driving force in the evolution of genes, giving rise to novel functions.. The soybean (Glycine max) genome is characterized by a large number of duplicated genes.. However, the extent and mechanisms of functional divergence among these duplicated genes in soybean remain poorly understood.

Article Title: Comparative analysis, diversification, and functional validation of plant nucleotide-binding site domain genes
Article Snippet: To ascertain the differential expression and responsiveness of NBS genes in various tissues and stresses, we have retrieved RNA-seq data from the IPF database ( http://ipf.sustech.edu.cn/pub/ ) , (Arabidopsis, maize, soybean, upland cotton, and wild cotton) from different databases including Arabidopsis RNA-seq database ( http://ipf.sustech.edu.cn/pub/athrna/ ) , maize RNA-seq database ( http://ipf.sustech.edu.cn/pub/zmrna/ ) , cotton RNA-seq database ( http://ipf.sustech.edu.cn/pub/cottonrna/ ) , soybean RNA-seq database ( http://ipf.sustech.edu.cn/pub/soybean/ ) , Cotton Functional Genomics Database (CottonFGD) ( https://cottonfgd.net/ ) and Cottongen database ( https://www.cottongen.org/ ) .

Article Title: Ectopic expression of GmNF-YA8 in Arabidopsis delays flowering via modulating the expression of gibberellic acid biosynthesis- and flowering-related genes and promotes lateral root emergence in low phosphorus conditions
Article Snippet: In addition, based on the public RNA-seq data ( http://ipf.sustech.edu.cn/pub/soybean/ ), we found that GmNA-YA8 is induced by low P, and respond to dehydration, and day length ( ).

Article Title: Genome-wide identification of rice CXE gene family and mining of alleles for potential application in rice improvement
Article Snippet: From the RNA-seq database (PPRD, http://ipf.sustech.edu.cn/pub/plantrna/ ; September 26th, 2023), the rice CXE gene RNA-seq expression data were retrieved (as FPKM values, Transcripts per kilobase read per million maps) ( ).

Article Title: Conservation of land plant-specific receptor-like cytoplasmic kinase subfamily XI possessing a unique kinase insert domain
Article Snippet: Publicly available RNA-seq data were obtained from the Arabidopsis RNA-seq database (ARS) ( ) ( http://ipf.sustech.edu.cn/pub/athrna/ ).

Article Title: The ZmWAKL–ZmWIK–ZmBLK1–ZmRBOH4 module provides quantitative resistance to gray leaf spot in maize
Article Snippet: Source data is in the Supplementary Data. available RNA-seq dataset (http://ipf.sustech.edu.cn/pub/plantrna/). (b) ZmRBOH5 and ZmRBOH6 are mainly expressed in the anther (n=3).

Article Title: A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.
Article Snippet: In addition to eGWAS, the RNA-seq database provides another way to identify the upstream regulatory genes of a target gene (http://ipf.sustech.edu.cn/pub/athrna/).

Article Title: Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Article Snippet: We amassed an initial set of RNA-seq runs from the Sustech Arabidopsis RNA-seq database V2 ( Zhang et al. 2020 ) ( http://ipf.sustech.edu.cn/pub/athrdb/ ) excluding any samples not associated with a publication or lacking a tissue type label.

Functional Assay:

Article Title: Tandemly duplicated MYB genes are functionally diverged in the regulation of anthocyanin biosynthesis in soybean.
Article Snippet: Gene duplications have long been recognized as a driving force in the evolution of genes, giving rise to novel functions.. The soybean (Glycine max) genome is characterized by a large number of duplicated genes.. However, the extent and mechanisms of functional divergence among these duplicated genes in soybean remain poorly understood.

Article Title: Comparative analysis, diversification, and functional validation of plant nucleotide-binding site domain genes
Article Snippet: To ascertain the differential expression and responsiveness of NBS genes in various tissues and stresses, we have retrieved RNA-seq data from the IPF database ( http://ipf.sustech.edu.cn/pub/ ) , (Arabidopsis, maize, soybean, upland cotton, and wild cotton) from different databases including Arabidopsis RNA-seq database ( http://ipf.sustech.edu.cn/pub/athrna/ ) , maize RNA-seq database ( http://ipf.sustech.edu.cn/pub/zmrna/ ) , cotton RNA-seq database ( http://ipf.sustech.edu.cn/pub/cottonrna/ ) , soybean RNA-seq database ( http://ipf.sustech.edu.cn/pub/soybean/ ) , Cotton Functional Genomics Database (CottonFGD) ( https://cottonfgd.net/ ) and Cottongen database ( https://www.cottongen.org/ ) .

Article Title: Ectopic expression of GmNF-YA8 in Arabidopsis delays flowering via modulating the expression of gibberellic acid biosynthesis- and flowering-related genes and promotes lateral root emergence in low phosphorus conditions
Article Snippet: In addition, based on the public RNA-seq data ( http://ipf.sustech.edu.cn/pub/soybean/ ), we found that GmNA-YA8 is induced by low P, and respond to dehydration, and day length ( ).

Article Title: Genome-wide identification of rice CXE gene family and mining of alleles for potential application in rice improvement
Article Snippet: From the RNA-seq database (PPRD, http://ipf.sustech.edu.cn/pub/plantrna/ ; September 26th, 2023), the rice CXE gene RNA-seq expression data were retrieved (as FPKM values, Transcripts per kilobase read per million maps) ( ).

Article Title: Conservation of land plant-specific receptor-like cytoplasmic kinase subfamily XI possessing a unique kinase insert domain
Article Snippet: Publicly available RNA-seq data were obtained from the Arabidopsis RNA-seq database (ARS) ( ) ( http://ipf.sustech.edu.cn/pub/athrna/ ).

Article Title: The ZmWAKL–ZmWIK–ZmBLK1–ZmRBOH4 module provides quantitative resistance to gray leaf spot in maize
Article Snippet: Source data is in the Supplementary Data. available RNA-seq dataset (http://ipf.sustech.edu.cn/pub/plantrna/). (b) ZmRBOH5 and ZmRBOH6 are mainly expressed in the anther (n=3).

Article Title: A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.
Article Snippet: In addition to eGWAS, the RNA-seq database provides another way to identify the upstream regulatory genes of a target gene (http://ipf.sustech.edu.cn/pub/athrna/).

Article Title: Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Article Snippet: We amassed an initial set of RNA-seq runs from the Sustech Arabidopsis RNA-seq database V2 ( Zhang et al. 2020 ) ( http://ipf.sustech.edu.cn/pub/athrdb/ ) excluding any samples not associated with a publication or lacking a tissue type label.

Sequencing:

Article Title: Tandemly duplicated MYB genes are functionally diverged in the regulation of anthocyanin biosynthesis in soybean.
Article Snippet: Gene duplications have long been recognized as a driving force in the evolution of genes, giving rise to novel functions.. The soybean (Glycine max) genome is characterized by a large number of duplicated genes.. However, the extent and mechanisms of functional divergence among these duplicated genes in soybean remain poorly understood.

Article Title: Comparative analysis, diversification, and functional validation of plant nucleotide-binding site domain genes
Article Snippet: To ascertain the differential expression and responsiveness of NBS genes in various tissues and stresses, we have retrieved RNA-seq data from the IPF database ( http://ipf.sustech.edu.cn/pub/ ) , (Arabidopsis, maize, soybean, upland cotton, and wild cotton) from different databases including Arabidopsis RNA-seq database ( http://ipf.sustech.edu.cn/pub/athrna/ ) , maize RNA-seq database ( http://ipf.sustech.edu.cn/pub/zmrna/ ) , cotton RNA-seq database ( http://ipf.sustech.edu.cn/pub/cottonrna/ ) , soybean RNA-seq database ( http://ipf.sustech.edu.cn/pub/soybean/ ) , Cotton Functional Genomics Database (CottonFGD) ( https://cottonfgd.net/ ) and Cottongen database ( https://www.cottongen.org/ ) .

Article Title: Ectopic expression of GmNF-YA8 in Arabidopsis delays flowering via modulating the expression of gibberellic acid biosynthesis- and flowering-related genes and promotes lateral root emergence in low phosphorus conditions
Article Snippet: In addition, based on the public RNA-seq data ( http://ipf.sustech.edu.cn/pub/soybean/ ), we found that GmNA-YA8 is induced by low P, and respond to dehydration, and day length ( ).

Article Title: Genome-wide identification of rice CXE gene family and mining of alleles for potential application in rice improvement
Article Snippet: From the RNA-seq database (PPRD, http://ipf.sustech.edu.cn/pub/plantrna/ ; September 26th, 2023), the rice CXE gene RNA-seq expression data were retrieved (as FPKM values, Transcripts per kilobase read per million maps) ( ).

Article Title: Conservation of land plant-specific receptor-like cytoplasmic kinase subfamily XI possessing a unique kinase insert domain
Article Snippet: Publicly available RNA-seq data were obtained from the Arabidopsis RNA-seq database (ARS) ( ) ( http://ipf.sustech.edu.cn/pub/athrna/ ).

Article Title: The ZmWAKL–ZmWIK–ZmBLK1–ZmRBOH4 module provides quantitative resistance to gray leaf spot in maize
Article Snippet: Source data is in the Supplementary Data. available RNA-seq dataset (http://ipf.sustech.edu.cn/pub/plantrna/). (b) ZmRBOH5 and ZmRBOH6 are mainly expressed in the anther (n=3).

Article Title: A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.
Article Snippet: In addition to eGWAS, the RNA-seq database provides another way to identify the upstream regulatory genes of a target gene (http://ipf.sustech.edu.cn/pub/athrna/).

Article Title: Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Article Snippet: We amassed an initial set of RNA-seq runs from the Sustech Arabidopsis RNA-seq database V2 ( Zhang et al. 2020 ) ( http://ipf.sustech.edu.cn/pub/athrdb/ ) excluding any samples not associated with a publication or lacking a tissue type label.

Construct:

Article Title: Tandemly duplicated MYB genes are functionally diverged in the regulation of anthocyanin biosynthesis in soybean.
Article Snippet: Gene duplications have long been recognized as a driving force in the evolution of genes, giving rise to novel functions.. The soybean (Glycine max) genome is characterized by a large number of duplicated genes.. However, the extent and mechanisms of functional divergence among these duplicated genes in soybean remain poorly understood.

Article Title: Comparative analysis, diversification, and functional validation of plant nucleotide-binding site domain genes
Article Snippet: To ascertain the differential expression and responsiveness of NBS genes in various tissues and stresses, we have retrieved RNA-seq data from the IPF database ( http://ipf.sustech.edu.cn/pub/ ) , (Arabidopsis, maize, soybean, upland cotton, and wild cotton) from different databases including Arabidopsis RNA-seq database ( http://ipf.sustech.edu.cn/pub/athrna/ ) , maize RNA-seq database ( http://ipf.sustech.edu.cn/pub/zmrna/ ) , cotton RNA-seq database ( http://ipf.sustech.edu.cn/pub/cottonrna/ ) , soybean RNA-seq database ( http://ipf.sustech.edu.cn/pub/soybean/ ) , Cotton Functional Genomics Database (CottonFGD) ( https://cottonfgd.net/ ) and Cottongen database ( https://www.cottongen.org/ ) .

Article Title: Ectopic expression of GmNF-YA8 in Arabidopsis delays flowering via modulating the expression of gibberellic acid biosynthesis- and flowering-related genes and promotes lateral root emergence in low phosphorus conditions
Article Snippet: In addition, based on the public RNA-seq data ( http://ipf.sustech.edu.cn/pub/soybean/ ), we found that GmNA-YA8 is induced by low P, and respond to dehydration, and day length ( ).

Article Title: Genome-wide identification of rice CXE gene family and mining of alleles for potential application in rice improvement
Article Snippet: From the RNA-seq database (PPRD, http://ipf.sustech.edu.cn/pub/plantrna/ ; September 26th, 2023), the rice CXE gene RNA-seq expression data were retrieved (as FPKM values, Transcripts per kilobase read per million maps) ( ).

Article Title: Conservation of land plant-specific receptor-like cytoplasmic kinase subfamily XI possessing a unique kinase insert domain
Article Snippet: Publicly available RNA-seq data were obtained from the Arabidopsis RNA-seq database (ARS) ( ) ( http://ipf.sustech.edu.cn/pub/athrna/ ).

Article Title: The ZmWAKL–ZmWIK–ZmBLK1–ZmRBOH4 module provides quantitative resistance to gray leaf spot in maize
Article Snippet: Source data is in the Supplementary Data. available RNA-seq dataset (http://ipf.sustech.edu.cn/pub/plantrna/). (b) ZmRBOH5 and ZmRBOH6 are mainly expressed in the anther (n=3).

Article Title: A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.
Article Snippet: In addition to eGWAS, the RNA-seq database provides another way to identify the upstream regulatory genes of a target gene (http://ipf.sustech.edu.cn/pub/athrna/).

Article Title: Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Article Snippet: We amassed an initial set of RNA-seq runs from the Sustech Arabidopsis RNA-seq database V2 ( Zhang et al. 2020 ) ( http://ipf.sustech.edu.cn/pub/athrdb/ ) excluding any samples not associated with a publication or lacking a tissue type label.

Fluorescence:

Article Title: Tandemly duplicated MYB genes are functionally diverged in the regulation of anthocyanin biosynthesis in soybean.
Article Snippet: Gene duplications have long been recognized as a driving force in the evolution of genes, giving rise to novel functions.. The soybean (Glycine max) genome is characterized by a large number of duplicated genes.. However, the extent and mechanisms of functional divergence among these duplicated genes in soybean remain poorly understood.

Article Title: Comparative analysis, diversification, and functional validation of plant nucleotide-binding site domain genes
Article Snippet: To ascertain the differential expression and responsiveness of NBS genes in various tissues and stresses, we have retrieved RNA-seq data from the IPF database ( http://ipf.sustech.edu.cn/pub/ ) , (Arabidopsis, maize, soybean, upland cotton, and wild cotton) from different databases including Arabidopsis RNA-seq database ( http://ipf.sustech.edu.cn/pub/athrna/ ) , maize RNA-seq database ( http://ipf.sustech.edu.cn/pub/zmrna/ ) , cotton RNA-seq database ( http://ipf.sustech.edu.cn/pub/cottonrna/ ) , soybean RNA-seq database ( http://ipf.sustech.edu.cn/pub/soybean/ ) , Cotton Functional Genomics Database (CottonFGD) ( https://cottonfgd.net/ ) and Cottongen database ( https://www.cottongen.org/ ) .

Article Title: Ectopic expression of GmNF-YA8 in Arabidopsis delays flowering via modulating the expression of gibberellic acid biosynthesis- and flowering-related genes and promotes lateral root emergence in low phosphorus conditions
Article Snippet: In addition, based on the public RNA-seq data ( http://ipf.sustech.edu.cn/pub/soybean/ ), we found that GmNA-YA8 is induced by low P, and respond to dehydration, and day length ( ).

Article Title: Genome-wide identification of rice CXE gene family and mining of alleles for potential application in rice improvement
Article Snippet: From the RNA-seq database (PPRD, http://ipf.sustech.edu.cn/pub/plantrna/ ; September 26th, 2023), the rice CXE gene RNA-seq expression data were retrieved (as FPKM values, Transcripts per kilobase read per million maps) ( ).

Article Title: Conservation of land plant-specific receptor-like cytoplasmic kinase subfamily XI possessing a unique kinase insert domain
Article Snippet: Publicly available RNA-seq data were obtained from the Arabidopsis RNA-seq database (ARS) ( ) ( http://ipf.sustech.edu.cn/pub/athrna/ ).

Article Title: The ZmWAKL–ZmWIK–ZmBLK1–ZmRBOH4 module provides quantitative resistance to gray leaf spot in maize
Article Snippet: Source data is in the Supplementary Data. available RNA-seq dataset (http://ipf.sustech.edu.cn/pub/plantrna/). (b) ZmRBOH5 and ZmRBOH6 are mainly expressed in the anther (n=3).

Article Title: A de novo Gene Promotes Seed Germination Under Drought Stress in Arabidopsis.
Article Snippet: In addition to eGWAS, the RNA-seq database provides another way to identify the upstream regulatory genes of a target gene (http://ipf.sustech.edu.cn/pub/athrna/).

Article Title: Weaker selection on genes with treatment-specific expression consistent with a limit on plasticity evolution in Arabidopsis thaliana
Article Snippet: We amassed an initial set of RNA-seq runs from the Sustech Arabidopsis RNA-seq database V2 ( Zhang et al. 2020 ) ( http://ipf.sustech.edu.cn/pub/athrdb/ ) excluding any samples not associated with a publication or lacking a tissue type label.



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Illumina Inc rna-seq data processing
Association of BEND2 fusions with poor clinical outcomes (A) Diagram of sample composition for the pooled BEND2 cohort of <t>pNET.</t> (B) Kaplan-Meier curve of disease-specific survival rate regarding BEND2 rearrangement status. (C) Forest plot showing the hazard ratio (95% CI) in the univariate Cox regression and multivariate regression after adjusting for major clinicopathological features and the corresponding p values. The total number for the cohort, the number of cases per variable category, and the number of events (disease-specific deaths) for each level were also indicated.
Rna Seq Data Processing, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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rna-seq data processing - by Bioz Stars, 2026-09
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Nextera AS rna-seq data processing
Association of BEND2 fusions with poor clinical outcomes (A) Diagram of sample composition for the pooled BEND2 cohort of <t>pNET.</t> (B) Kaplan-Meier curve of disease-specific survival rate regarding BEND2 rearrangement status. (C) Forest plot showing the hazard ratio (95% CI) in the univariate Cox regression and multivariate regression after adjusting for major clinicopathological features and the corresponding p values. The total number for the cohort, the number of cases per variable category, and the number of events (disease-specific deaths) for each level were also indicated.
Rna Seq Data Processing, supplied by Nextera AS, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/rna+seq+data+processing/rna+seq+libraries/pm39520682-280-2-13
Average 90 stars, based on 1 article reviews
rna-seq data processing - by Bioz Stars, 2026-09
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Genechem rna-seq analysis and data processing
Association of BEND2 fusions with poor clinical outcomes (A) Diagram of sample composition for the pooled BEND2 cohort of <t>pNET.</t> (B) Kaplan-Meier curve of disease-specific survival rate regarding BEND2 rearrangement status. (C) Forest plot showing the hazard ratio (95% CI) in the univariate Cox regression and multivariate regression after adjusting for major clinicopathological features and the corresponding p values. The total number for the cohort, the number of cases per variable category, and the number of events (disease-specific deaths) for each level were also indicated.
Rna Seq Analysis And Data Processing, supplied by Genechem, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/rna+seq+data+processing/rna+seq/pm38943969-149-3-8
Average 90 stars, based on 1 article reviews
rna-seq analysis and data processing - by Bioz Stars, 2026-09
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Image Search Results


Association of BEND2 fusions with poor clinical outcomes (A) Diagram of sample composition for the pooled BEND2 cohort of pNET. (B) Kaplan-Meier curve of disease-specific survival rate regarding BEND2 rearrangement status. (C) Forest plot showing the hazard ratio (95% CI) in the univariate Cox regression and multivariate regression after adjusting for major clinicopathological features and the corresponding p values. The total number for the cohort, the number of cases per variable category, and the number of events (disease-specific deaths) for each level were also indicated.

Journal: Cell Reports Medicine

Article Title: Molecular taxonomy of pancreatic neuroendocrine tumors reveals BEND2 -fusions-driven transcriptional plasticity and therapeutic vulnerabilities

doi: 10.1016/j.xcrm.2026.102642

Figure Lengend Snippet: Association of BEND2 fusions with poor clinical outcomes (A) Diagram of sample composition for the pooled BEND2 cohort of pNET. (B) Kaplan-Meier curve of disease-specific survival rate regarding BEND2 rearrangement status. (C) Forest plot showing the hazard ratio (95% CI) in the univariate Cox regression and multivariate regression after adjusting for major clinicopathological features and the corresponding p values. The total number for the cohort, the number of cases per variable category, and the number of events (disease-specific deaths) for each level were also indicated.

Article Snippet: Pre-processed bulk RNA-seq data from pNET clinical samples and cell lines (this study) , Mendeley Data , https://data.mendeley.com/datasets/r9m66rjtxy/1.

Techniques:

Inter-tumor heterogeneity at single-nuclei level (A) UMAP representation of 43,619 nuclei isolated from nine pNET samples with tumor purity annotated at the top left corner. (B) UMAP showing a separation between tumor cells and non-tumor cells. Tumor cells were grouped according to the five-subtype bulk classification, referred as pseudo-bulk sn-clusters. (C) Dot plot of canonical marker genes across all identified cell populations. Dot size indicates the proportion of cells expressing a gene, and color intensity reflects mean expression levels. (D) Heatmap of the Hallmark signaling pathways specific for each of the five pseudo-bulk sn-clusters based on GSVA enrichment scores. (E) Regulon specificity plot showing the top six regulons identified for each of the five pseudo-bulk sn-clusters. The x axis of the plot represents the genes within the regulon, while the y axis represents the specificity score. (F) Validation of bulk subtype-specific regulon on the bulk pNET cohort using GSVA based on a set of target genes within a regulon.

Journal: Cell Reports Medicine

Article Title: Molecular taxonomy of pancreatic neuroendocrine tumors reveals BEND2 -fusions-driven transcriptional plasticity and therapeutic vulnerabilities

doi: 10.1016/j.xcrm.2026.102642

Figure Lengend Snippet: Inter-tumor heterogeneity at single-nuclei level (A) UMAP representation of 43,619 nuclei isolated from nine pNET samples with tumor purity annotated at the top left corner. (B) UMAP showing a separation between tumor cells and non-tumor cells. Tumor cells were grouped according to the five-subtype bulk classification, referred as pseudo-bulk sn-clusters. (C) Dot plot of canonical marker genes across all identified cell populations. Dot size indicates the proportion of cells expressing a gene, and color intensity reflects mean expression levels. (D) Heatmap of the Hallmark signaling pathways specific for each of the five pseudo-bulk sn-clusters based on GSVA enrichment scores. (E) Regulon specificity plot showing the top six regulons identified for each of the five pseudo-bulk sn-clusters. The x axis of the plot represents the genes within the regulon, while the y axis represents the specificity score. (F) Validation of bulk subtype-specific regulon on the bulk pNET cohort using GSVA based on a set of target genes within a regulon.

Article Snippet: Pre-processed bulk RNA-seq data from pNET clinical samples and cell lines (this study) , Mendeley Data , https://data.mendeley.com/datasets/r9m66rjtxy/1.

Techniques: Isolation, Marker, Expressing, Protein-Protein interactions, Biomarker Discovery

Cell-cell communication network and in silico drug sensitivity prediction in pNET subtypes (A) Cell-cell communication network visualized in Cytoscape, depicting the number and strength of interactions between tumor and microenvironmental cell populations. Nodes represent cell types, and edges represent intercellular interactions, with edge width and color reflecting interaction strength and frequency. (B) Bubble plot of selected ligand-receptor pairs between tumor subtypes and non-tumor microenvironmental cell populations. (C) Correlation plots showing associations between gene expression and deconvoluted cell-type proportions in bulk pNET samples. (D) Kaplan-Meier survival curves showing different DSS rates between pNET patients with high and low expression of genes of interest, including NOTCH3 (left), CD74 (middle), and the geometric mean value of these two genes (right). Patients were categorized into different groups according to the optimal thresholding. (E) Mechanisms of action of the 10 compounds predicted by Connectivity Map (CMap) analysis to preferentially target the BEND2 fusion. (F) Predicted sensitivities to 12 HDAC inhibitors across pNET subtypes based on GDSC database analyses. Statistical comparisons were performed using the Kruskal-Wallis test. p < 0.1; ∗ p < 0.05; ∗∗ p < 0.01; ∗∗∗ p < 0.001.

Journal: Cell Reports Medicine

Article Title: Molecular taxonomy of pancreatic neuroendocrine tumors reveals BEND2 -fusions-driven transcriptional plasticity and therapeutic vulnerabilities

doi: 10.1016/j.xcrm.2026.102642

Figure Lengend Snippet: Cell-cell communication network and in silico drug sensitivity prediction in pNET subtypes (A) Cell-cell communication network visualized in Cytoscape, depicting the number and strength of interactions between tumor and microenvironmental cell populations. Nodes represent cell types, and edges represent intercellular interactions, with edge width and color reflecting interaction strength and frequency. (B) Bubble plot of selected ligand-receptor pairs between tumor subtypes and non-tumor microenvironmental cell populations. (C) Correlation plots showing associations between gene expression and deconvoluted cell-type proportions in bulk pNET samples. (D) Kaplan-Meier survival curves showing different DSS rates between pNET patients with high and low expression of genes of interest, including NOTCH3 (left), CD74 (middle), and the geometric mean value of these two genes (right). Patients were categorized into different groups according to the optimal thresholding. (E) Mechanisms of action of the 10 compounds predicted by Connectivity Map (CMap) analysis to preferentially target the BEND2 fusion. (F) Predicted sensitivities to 12 HDAC inhibitors across pNET subtypes based on GDSC database analyses. Statistical comparisons were performed using the Kruskal-Wallis test. p < 0.1; ∗ p < 0.05; ∗∗ p < 0.01; ∗∗∗ p < 0.001.

Article Snippet: Pre-processed bulk RNA-seq data from pNET clinical samples and cell lines (this study) , Mendeley Data , https://data.mendeley.com/datasets/r9m66rjtxy/1.

Techniques: In Silico, Gene Expression, Expressing

BEND2 fusions induce transcriptional reprogramming and morphological plasticity in pNET tumor cells (A) Phase-contrast microscopy images of BON1 cells at 48 h post-induction showing morphological changes following overexpression of BEND2 -only, CHD7 - BEND2 , EWSR1 - BEND2 , or mCherry control. (B) Bar plot showing the number of differentially expressed genes at 12 and 48 h across all BON1 cell line models, including EWSR1 (E), BEND2 (B), CHD7 - BEND2 (CB), and EWSR1 - BEND2 (EB), compared to the mCherry (M) control. (C) Heatmap illustrating transcriptomic clustering of BON1 cell lines at 48 h (D) Venn diagram showing overlapping significantly upregulated transcription factors (TFs) in CHD7 - BEND2 and EWSR1 - BEND2 models compared to controls at 12 h (E) Bar plot of ASCL1 expression across BON1 cell line models at 12 and 48 h. Data are represented as mean ± SEM. (F) Heatmap showing transcriptional activation of neurodevelopmental, mesenchymal, and immune-related TFs in fusion-expressing BON1 cells at 48 h, accompanied by ASCL1 downregulation, activation of GAST-high subtype-specific regulons, and upregulation of immune checkpoint genes PDCD1 and CD274 . (G) Heatmap illustrating temporal transcriptomic shifts in BON1 fusion models using a 50-gene classifier (25 neuroendocrine and 25 non-neuroendocrine genes) derived from human SCLC lines. (H) GSEA results showing transcriptional reprogramming at 48 h in BEND2 fusion lines compared to 12 h (I) Bar plot showing GATA6 expression uniquely and robustly upregulated in BEND2 fusion lines at both 12 and 48 h. Data are represented as mean ± SEM. (J) Bar plot showing specific upregulation of POMC in BON1 cells expressing EWSR1 - BEND2 at 48 h. Data are represented as mean ± SEM. (K) Bar plot showing markedly higher POMC expression in the EWSR1 - BEND2 -positive tumor compared to the CHD7 - BEND2 -positive tumor in the clinical cohort.

Journal: Cell Reports Medicine

Article Title: Molecular taxonomy of pancreatic neuroendocrine tumors reveals BEND2 -fusions-driven transcriptional plasticity and therapeutic vulnerabilities

doi: 10.1016/j.xcrm.2026.102642

Figure Lengend Snippet: BEND2 fusions induce transcriptional reprogramming and morphological plasticity in pNET tumor cells (A) Phase-contrast microscopy images of BON1 cells at 48 h post-induction showing morphological changes following overexpression of BEND2 -only, CHD7 - BEND2 , EWSR1 - BEND2 , or mCherry control. (B) Bar plot showing the number of differentially expressed genes at 12 and 48 h across all BON1 cell line models, including EWSR1 (E), BEND2 (B), CHD7 - BEND2 (CB), and EWSR1 - BEND2 (EB), compared to the mCherry (M) control. (C) Heatmap illustrating transcriptomic clustering of BON1 cell lines at 48 h (D) Venn diagram showing overlapping significantly upregulated transcription factors (TFs) in CHD7 - BEND2 and EWSR1 - BEND2 models compared to controls at 12 h (E) Bar plot of ASCL1 expression across BON1 cell line models at 12 and 48 h. Data are represented as mean ± SEM. (F) Heatmap showing transcriptional activation of neurodevelopmental, mesenchymal, and immune-related TFs in fusion-expressing BON1 cells at 48 h, accompanied by ASCL1 downregulation, activation of GAST-high subtype-specific regulons, and upregulation of immune checkpoint genes PDCD1 and CD274 . (G) Heatmap illustrating temporal transcriptomic shifts in BON1 fusion models using a 50-gene classifier (25 neuroendocrine and 25 non-neuroendocrine genes) derived from human SCLC lines. (H) GSEA results showing transcriptional reprogramming at 48 h in BEND2 fusion lines compared to 12 h (I) Bar plot showing GATA6 expression uniquely and robustly upregulated in BEND2 fusion lines at both 12 and 48 h. Data are represented as mean ± SEM. (J) Bar plot showing specific upregulation of POMC in BON1 cells expressing EWSR1 - BEND2 at 48 h. Data are represented as mean ± SEM. (K) Bar plot showing markedly higher POMC expression in the EWSR1 - BEND2 -positive tumor compared to the CHD7 - BEND2 -positive tumor in the clinical cohort.

Article Snippet: Pre-processed bulk RNA-seq data from pNET clinical samples and cell lines (this study) , Mendeley Data , https://data.mendeley.com/datasets/r9m66rjtxy/1.

Techniques: Microscopy, Over Expression, Control, Expressing, Activation Assay, Derivative Assay