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transcriptome assembly and annotation protocols  (Novogene)

 
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    Structured Review

    Novogene transcriptome assembly and annotation protocols
    Transcriptome Assembly And Annotation Protocols, supplied by Novogene, 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/annotated+transcriptome+assembly/transcriptome+assembly+and+annotation+protocols/pm38522379-63-3-10
    Average 90 stars, based on 1 article reviews
    transcriptome assembly and annotation protocols - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    Sequencing:

    Article Title: Genome- and Transcriptome-Wide Characterization and Expression Analyses of bHLH Transcription Factor Family Reveal Their Relevance to Salt Stress Response in Tomato.
    Article Snippet: .. These 4 samples were sent to the Novogene Bioinformatics Institute (Beijing, China) for transcriptome sequencing and assembly. .. All samples were sequenced and transcriptome analysis was performed by the Illumina HiSeq 2500 platform (San Diego, CA, USA).

    Article Title: Transcriptome analysis of Reticulitermes flaviceps exposed to Mentha spicata essential oil and carvone indicates a potential neurotoxic mechanism of action characterized by intracellular calcium influx mediated by dopamine receptors.
    Article Snippet: Reticulitermes flaviceps is an economically important pest in agriculture, forestry, and construction.. Recent studies have shown an increase in research focusing on the anti-termite properties of plant essential oils, however, there remains a lack of information regarding the specific molecular mechanism involved.. In this study, RNA-seq analysis was conducted on termites exposed to Mentha spicata essential oil (EO) and carvone, leading to the discovery of various genes that were expressed differentially under different treatment conditions.

    Article Title: UnigeneFinder: An automated pipeline for gene calling from transcriptome assemblies without a reference genome
    Article Snippet: .. Sequence inflation of this nature is typical of raw de novo transcriptome assemblies, both provided by sequencing companies such as NovoGene and generated in house. ..

    Article Title: Transcriptome- and genome-wide systematic characterization of bHLH transcription factor family identifies promising members that respond to abiotic stress in tomato
    Article Snippet: .. Then 4 samples were sent to the Novogene Bioinformatics Institute (Beijing, China) for assembly and transcriptome sequencing. .. All samples were sequenced and transcriptome analysis was performed by the Illumina HiSeq 2500 platform.

    Article Title: Transcriptomic Profiling Analyses Revealed Candidate Genes Under Freezing Stress in Siberian Apricot (Prunus sibirica)
    Article Snippet: .. The transcriptome sequencing and assembly were performed by Novogene Technology Co., Ltd. (Beijing, China). .. Illumina CASAVA 1.8 CASAVA was used to convert the raw picture data from sequencing into sequence reads, and R language was used to filter the raw data.

    other:


    Functional Assay:

    Article Title: Transcriptomic changes during induction of tetrasporogenesis in the red seaweed Asparagopsis armata
    Article Snippet: The red seaweed Asparagopsis armata, recognised for its ability to reduce methane emissions from enteric fermentation when incorporated as a ruminant feed additive, is a key target for aquaculture development.. However, despite advancements in this field, there remains a critical gap in understanding the internal mechanisms governing reproduction in A. armata.. In this study, we examined transcriptomic changes throughout the induction of tetrasporogenesis, with a primary focus on metabolism, and specifically on genes and pathways related to plant growth regulators and environmental signal processing.

    Control:

    Article Title: Transcriptomic changes during induction of tetrasporogenesis in the red seaweed Asparagopsis armata
    Article Snippet: The red seaweed Asparagopsis armata, recognised for its ability to reduce methane emissions from enteric fermentation when incorporated as a ruminant feed additive, is a key target for aquaculture development.. However, despite advancements in this field, there remains a critical gap in understanding the internal mechanisms governing reproduction in A. armata.. In this study, we examined transcriptomic changes throughout the induction of tetrasporogenesis, with a primary focus on metabolism, and specifically on genes and pathways related to plant growth regulators and environmental signal processing.

    Generated:

    Article Title: UnigeneFinder: An automated pipeline for gene calling from transcriptome assemblies without a reference genome
    Article Snippet: .. Sequence inflation of this nature is typical of raw de novo transcriptome assemblies, both provided by sequencing companies such as NovoGene and generated in house. ..



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    Denovo Biotechnology de novo transcriptome assembly and annotation
    Global overview of the Pyropia haitanensis <t>transcriptome</t> under different light irradiance conditions. ( A ) Principal component analysis (PCA); ( B ) Venn diagram analysis; ( C ) number of differentially expressed genes. LIS-CK vs. LIS-LI1d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 1 day; LIS-CK vs. LIS-LI4d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 4 days; LIT-CK vs. LIT-LI1d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 1 day; LIT-CK vs. LIT-LI4d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 4 days. LIT, low irradiance-tolerant strain; LIS, low irradiance-sensitive strain. UP, up-regulated genes; DOWN, down-regulated genes.
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    Image Search Results


    Global overview of the Pyropia haitanensis transcriptome under different light irradiance conditions. ( A ) Principal component analysis (PCA); ( B ) Venn diagram analysis; ( C ) number of differentially expressed genes. LIS-CK vs. LIS-LI1d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 1 day; LIS-CK vs. LIS-LI4d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 4 days; LIT-CK vs. LIT-LI1d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 1 day; LIT-CK vs. LIT-LI4d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 4 days. LIT, low irradiance-tolerant strain; LIS, low irradiance-sensitive strain. UP, up-regulated genes; DOWN, down-regulated genes.

    Journal: Life

    Article Title: Investigating the Mechanisms Underlying the Low Irradiance-Tolerance of the Economically Important Seaweed Species Pyropia haitanensis

    doi: 10.3390/life13020481

    Figure Lengend Snippet: Global overview of the Pyropia haitanensis transcriptome under different light irradiance conditions. ( A ) Principal component analysis (PCA); ( B ) Venn diagram analysis; ( C ) number of differentially expressed genes. LIS-CK vs. LIS-LI1d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 1 day; LIS-CK vs. LIS-LI4d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 4 days; LIT-CK vs. LIT-LI1d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 1 day; LIT-CK vs. LIT-LI4d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 4 days. LIT, low irradiance-tolerant strain; LIS, low irradiance-sensitive strain. UP, up-regulated genes; DOWN, down-regulated genes.

    Article Snippet: De novo transcriptome assembly and annotation (as described by Illumina) were completed by Gene Denovo Biotechnology Co., Ltd. (Guangzhou, China).

    Techniques: Comparison, Control