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Sequentia Biotech rna-seq pipeline
Rna Seq Pipeline, supplied by Sequentia Biotech, 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+analysis/rna+seq+data+analysis/pmc08024496-84-7-11
Average 90 stars, based on 1 article reviews
rna-seq pipeline - by Bioz Stars, 2026-11
90/100 stars

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Related Articles

Expressing:

Article Title: Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs.
Article Snippet: Reads mapping and differential expression analysis were carried out using the A.I.R. (Artificial Intelligence RNA-Seq) software from Sequentia Biotech with the following pipeline: BBDuk (reads trimming; BBDUkguide), STAR (reads mapping to the mouse genome GRCm38 (ENSEMBL); https://github.com/alexdobin/

Article Title: Genomic and transcriptomic characterization of methylmercury detoxification in a deep ocean Alteromonas mediterranea ISS312.
Article Snippet: Samples were stored at − 80 ◦C and then sent to Sequentia Biotech for mRNA-seq sequencing.

Article Title: PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.
Article Snippet: Circadian rhythmicity of gene expression is a conserved feature of cell physiology.. This involves fine-tuning between transcriptional and post-transcriptional mechanisms and strongly depends on the metabolic state of the cell.. Together these processes guarantee an adaptive plasticity of tissue-specific genetic programs.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining the RNA splicing in rice.
Article Snippet: Analysis of RNA-seq data and gene functional classification RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Organic phosphate but not inorganic phosphate regulates Fgf23 expression through MAPK and TGF-ꞵ signaling
Article Snippet: Artificial Intelligence RNA-seq (AIR) , Sequentia Biotech , .

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: 218 Analysis of RNA-seq data and gene functional classification 219 RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Artificial intelligence in plant breeding.
Article Snippet: By contrast, Sequentia Biotech offers solutions such as AI RNA-seq (AIR) to streamline the procedures for data generation and interpretation in transcriptomic studies [58].

Software:

Article Title: Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs.
Article Snippet: Reads mapping and differential expression analysis were carried out using the A.I.R. (Artificial Intelligence RNA-Seq) software from Sequentia Biotech with the following pipeline: BBDuk (reads trimming; BBDUkguide), STAR (reads mapping to the mouse genome GRCm38 (ENSEMBL); https://github.com/alexdobin/

Article Title: Genomic and transcriptomic characterization of methylmercury detoxification in a deep ocean Alteromonas mediterranea ISS312.
Article Snippet: Samples were stored at − 80 ◦C and then sent to Sequentia Biotech for mRNA-seq sequencing.

Article Title: PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.
Article Snippet: Circadian rhythmicity of gene expression is a conserved feature of cell physiology.. This involves fine-tuning between transcriptional and post-transcriptional mechanisms and strongly depends on the metabolic state of the cell.. Together these processes guarantee an adaptive plasticity of tissue-specific genetic programs.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining the RNA splicing in rice.
Article Snippet: Analysis of RNA-seq data and gene functional classification RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Organic phosphate but not inorganic phosphate regulates Fgf23 expression through MAPK and TGF-ꞵ signaling
Article Snippet: Artificial Intelligence RNA-seq (AIR) , Sequentia Biotech , .

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: 218 Analysis of RNA-seq data and gene functional classification 219 RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Artificial intelligence in plant breeding.
Article Snippet: By contrast, Sequentia Biotech offers solutions such as AI RNA-seq (AIR) to streamline the procedures for data generation and interpretation in transcriptomic studies [58].

RNA Sequencing:

Article Title: Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs.
Article Snippet: Reads mapping and differential expression analysis were carried out using the A.I.R. (Artificial Intelligence RNA-Seq) software from Sequentia Biotech with the following pipeline: BBDuk (reads trimming; BBDUkguide), STAR (reads mapping to the mouse genome GRCm38 (ENSEMBL); https://github.com/alexdobin/

Article Title: Genomic and transcriptomic characterization of methylmercury detoxification in a deep ocean Alteromonas mediterranea ISS312.
Article Snippet: Samples were stored at − 80 ◦C and then sent to Sequentia Biotech for mRNA-seq sequencing.

Article Title: PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.
Article Snippet: Circadian rhythmicity of gene expression is a conserved feature of cell physiology.. This involves fine-tuning between transcriptional and post-transcriptional mechanisms and strongly depends on the metabolic state of the cell.. Together these processes guarantee an adaptive plasticity of tissue-specific genetic programs.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining the RNA splicing in rice.
Article Snippet: Analysis of RNA-seq data and gene functional classification RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Organic phosphate but not inorganic phosphate regulates Fgf23 expression through MAPK and TGF-ꞵ signaling
Article Snippet: Artificial Intelligence RNA-seq (AIR) , Sequentia Biotech , .

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: 218 Analysis of RNA-seq data and gene functional classification 219 RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Artificial intelligence in plant breeding.
Article Snippet: By contrast, Sequentia Biotech offers solutions such as AI RNA-seq (AIR) to streamline the procedures for data generation and interpretation in transcriptomic studies [58].

Recombinant:

Article Title: Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs.
Article Snippet: Reads mapping and differential expression analysis were carried out using the A.I.R. (Artificial Intelligence RNA-Seq) software from Sequentia Biotech with the following pipeline: BBDuk (reads trimming; BBDUkguide), STAR (reads mapping to the mouse genome GRCm38 (ENSEMBL); https://github.com/alexdobin/

Article Title: Genomic and transcriptomic characterization of methylmercury detoxification in a deep ocean Alteromonas mediterranea ISS312.
Article Snippet: Samples were stored at − 80 ◦C and then sent to Sequentia Biotech for mRNA-seq sequencing.

Article Title: PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.
Article Snippet: Circadian rhythmicity of gene expression is a conserved feature of cell physiology.. This involves fine-tuning between transcriptional and post-transcriptional mechanisms and strongly depends on the metabolic state of the cell.. Together these processes guarantee an adaptive plasticity of tissue-specific genetic programs.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining the RNA splicing in rice.
Article Snippet: Analysis of RNA-seq data and gene functional classification RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Organic phosphate but not inorganic phosphate regulates Fgf23 expression through MAPK and TGF-ꞵ signaling
Article Snippet: Artificial Intelligence RNA-seq (AIR) , Sequentia Biotech , .

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: 218 Analysis of RNA-seq data and gene functional classification 219 RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Artificial intelligence in plant breeding.
Article Snippet: By contrast, Sequentia Biotech offers solutions such as AI RNA-seq (AIR) to streamline the procedures for data generation and interpretation in transcriptomic studies [58].

Enzyme-linked Immunosorbent Assay:

Article Title: Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs.
Article Snippet: Reads mapping and differential expression analysis were carried out using the A.I.R. (Artificial Intelligence RNA-Seq) software from Sequentia Biotech with the following pipeline: BBDuk (reads trimming; BBDUkguide), STAR (reads mapping to the mouse genome GRCm38 (ENSEMBL); https://github.com/alexdobin/

Article Title: Genomic and transcriptomic characterization of methylmercury detoxification in a deep ocean Alteromonas mediterranea ISS312.
Article Snippet: Samples were stored at − 80 ◦C and then sent to Sequentia Biotech for mRNA-seq sequencing.

Article Title: PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.
Article Snippet: Circadian rhythmicity of gene expression is a conserved feature of cell physiology.. This involves fine-tuning between transcriptional and post-transcriptional mechanisms and strongly depends on the metabolic state of the cell.. Together these processes guarantee an adaptive plasticity of tissue-specific genetic programs.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining the RNA splicing in rice.
Article Snippet: Analysis of RNA-seq data and gene functional classification RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Organic phosphate but not inorganic phosphate regulates Fgf23 expression through MAPK and TGF-ꞵ signaling
Article Snippet: Artificial Intelligence RNA-seq (AIR) , Sequentia Biotech , .

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: 218 Analysis of RNA-seq data and gene functional classification 219 RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Artificial intelligence in plant breeding.
Article Snippet: By contrast, Sequentia Biotech offers solutions such as AI RNA-seq (AIR) to streamline the procedures for data generation and interpretation in transcriptomic studies [58].

cDNA Synthesis:

Article Title: Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs.
Article Snippet: Reads mapping and differential expression analysis were carried out using the A.I.R. (Artificial Intelligence RNA-Seq) software from Sequentia Biotech with the following pipeline: BBDuk (reads trimming; BBDUkguide), STAR (reads mapping to the mouse genome GRCm38 (ENSEMBL); https://github.com/alexdobin/

Article Title: Genomic and transcriptomic characterization of methylmercury detoxification in a deep ocean Alteromonas mediterranea ISS312.
Article Snippet: Samples were stored at − 80 ◦C and then sent to Sequentia Biotech for mRNA-seq sequencing.

Article Title: PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.
Article Snippet: Circadian rhythmicity of gene expression is a conserved feature of cell physiology.. This involves fine-tuning between transcriptional and post-transcriptional mechanisms and strongly depends on the metabolic state of the cell.. Together these processes guarantee an adaptive plasticity of tissue-specific genetic programs.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining the RNA splicing in rice.
Article Snippet: Analysis of RNA-seq data and gene functional classification RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Organic phosphate but not inorganic phosphate regulates Fgf23 expression through MAPK and TGF-ꞵ signaling
Article Snippet: Artificial Intelligence RNA-seq (AIR) , Sequentia Biotech , .

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: 218 Analysis of RNA-seq data and gene functional classification 219 RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Artificial intelligence in plant breeding.
Article Snippet: By contrast, Sequentia Biotech offers solutions such as AI RNA-seq (AIR) to streamline the procedures for data generation and interpretation in transcriptomic studies [58].

Functional Assay:

Article Title: Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs.
Article Snippet: Reads mapping and differential expression analysis were carried out using the A.I.R. (Artificial Intelligence RNA-Seq) software from Sequentia Biotech with the following pipeline: BBDuk (reads trimming; BBDUkguide), STAR (reads mapping to the mouse genome GRCm38 (ENSEMBL); https://github.com/alexdobin/

Article Title: Genomic and transcriptomic characterization of methylmercury detoxification in a deep ocean Alteromonas mediterranea ISS312.
Article Snippet: Samples were stored at − 80 ◦C and then sent to Sequentia Biotech for mRNA-seq sequencing.

Article Title: PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.
Article Snippet: Circadian rhythmicity of gene expression is a conserved feature of cell physiology.. This involves fine-tuning between transcriptional and post-transcriptional mechanisms and strongly depends on the metabolic state of the cell.. Together these processes guarantee an adaptive plasticity of tissue-specific genetic programs.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining the RNA splicing in rice.
Article Snippet: Analysis of RNA-seq data and gene functional classification RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Organic phosphate but not inorganic phosphate regulates Fgf23 expression through MAPK and TGF-ꞵ signaling
Article Snippet: Artificial Intelligence RNA-seq (AIR) , Sequentia Biotech , .

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: 218 Analysis of RNA-seq data and gene functional classification 219 RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: SCR106 splicing factor modulates abiotic stress responses by maintaining RNA splicing in rice
Article Snippet: RNA-seq data analysis was performed by Sequentia Biotech®.

Article Title: Artificial intelligence in plant breeding.
Article Snippet: By contrast, Sequentia Biotech offers solutions such as AI RNA-seq (AIR) to streamline the procedures for data generation and interpretation in transcriptomic studies [58].



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Transcriptomic analysis reveals temporal responses to E2 and <t>HDACi.</t> <t>RNA‐seq</t> was performed using HCC‐1428 and HCC‐1428/LTED cells in HD medium treated in triplicate as described in (A). (B, C) Heatmap of the 500 most variably expressed genes across all treatment groups within each cell line. (D) Volcano plots of differentially expressed genes after 1 day of drug treatments. Red dots indicate significantly altered genes ( P ≤ 0.05) with |log 2 fold‐change| ≥ 1.
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Image Search Results


Transcriptomic analysis reveals temporal responses to E2 and HDACi. RNA‐seq was performed using HCC‐1428 and HCC‐1428/LTED cells in HD medium treated in triplicate as described in (A). (B, C) Heatmap of the 500 most variably expressed genes across all treatment groups within each cell line. (D) Volcano plots of differentially expressed genes after 1 day of drug treatments. Red dots indicate significantly altered genes ( P ≤ 0.05) with |log 2 fold‐change| ≥ 1.

Journal: Molecular Oncology

Article Title: Pharmacological chromatin remodeling enhances response to estrogen therapy in ER + breast cancer

doi: 10.1002/1878-0261.70307

Figure Lengend Snippet: Transcriptomic analysis reveals temporal responses to E2 and HDACi. RNA‐seq was performed using HCC‐1428 and HCC‐1428/LTED cells in HD medium treated in triplicate as described in (A). (B, C) Heatmap of the 500 most variably expressed genes across all treatment groups within each cell line. (D) Volcano plots of differentially expressed genes after 1 day of drug treatments. Red dots indicate significantly altered genes ( P ≤ 0.05) with |log 2 fold‐change| ≥ 1.

Article Snippet: For tumor RNA‐seq analysis, extracted RNA was used for RNA sequencing by Plasmidsaurus using Illumina Sequencing Technology.

Techniques: RNA Sequencing

E2 and HDACi synergistically induce tumor regression and prevent recurrence. (A, B) Ovx mice bearing CTG‐3346 or WHIM16 tumors were randomized to drug treatments; animal numbers are indicated in keys. E2 was delivered continuously, and entinostat was administered 5 days·week −1 for 7.5 weeks (gray shading). Tumor growth curves (A) are shown as mean + SEM. **** P < 0.001 by linear mixed modeling of raw tumor volumes. After 7.5 weeks of E2 ± entinostat treatment, mice with completely regressed tumors were monitored for recurrence in (B), defined as regrowth to 200 mm 3 . (C, D) Tumors were harvested 4 h after drug treatment on Day 3 or 14. Tumor lysates ( n = 3/group) were analyzed by immunoblot. Mean (SD) band intensities for each treatment group are noted below each blot. Cleaved PARP was normalized to full‐length PARP prior to normalization to vinculin loading control. (E) Tumors from (C/D) were analyzed by RNA‐seq. Transcriptomic profiles were analyzed by GSEA using Hallmark pathways. Dot color reflects NES for comparison of each treatment group vs. vehicle, or the drug combination vs. E2 as indicated.

Journal: Molecular Oncology

Article Title: Pharmacological chromatin remodeling enhances response to estrogen therapy in ER + breast cancer

doi: 10.1002/1878-0261.70307

Figure Lengend Snippet: E2 and HDACi synergistically induce tumor regression and prevent recurrence. (A, B) Ovx mice bearing CTG‐3346 or WHIM16 tumors were randomized to drug treatments; animal numbers are indicated in keys. E2 was delivered continuously, and entinostat was administered 5 days·week −1 for 7.5 weeks (gray shading). Tumor growth curves (A) are shown as mean + SEM. **** P < 0.001 by linear mixed modeling of raw tumor volumes. After 7.5 weeks of E2 ± entinostat treatment, mice with completely regressed tumors were monitored for recurrence in (B), defined as regrowth to 200 mm 3 . (C, D) Tumors were harvested 4 h after drug treatment on Day 3 or 14. Tumor lysates ( n = 3/group) were analyzed by immunoblot. Mean (SD) band intensities for each treatment group are noted below each blot. Cleaved PARP was normalized to full‐length PARP prior to normalization to vinculin loading control. (E) Tumors from (C/D) were analyzed by RNA‐seq. Transcriptomic profiles were analyzed by GSEA using Hallmark pathways. Dot color reflects NES for comparison of each treatment group vs. vehicle, or the drug combination vs. E2 as indicated.

Article Snippet: For tumor RNA‐seq analysis, extracted RNA was used for RNA sequencing by Plasmidsaurus using Illumina Sequencing Technology.

Techniques: Western Blot, Control, RNA Sequencing, Comparison