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nebnext ultra ii rna library prep kit for illumina  (Illumina Inc)


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    Structured Review

    Illumina Inc nebnext ultra ii rna library prep kit for illumina

    Nebnext Ultra Ii Rna Library Prep Kit For Illumina, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 96/100, based on 11454 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/single-cell+spatial+transcriptomics+data/TruSeq+Small+RNA+Library+Prep+Kit+-Set+A/pmc09808897-398-9-17
    Average 96 stars, based on 11454 article reviews
    nebnext ultra ii rna library prep kit for illumina - by Bioz Stars, 2026-09
    96/100 stars

    Images

    1) Product Images from "ΔNp63 drives dysplastic alveolar remodeling and restricts epithelial plasticity upon severe lung injury"

    Article Title: ΔNp63 drives dysplastic alveolar remodeling and restricts epithelial plasticity upon severe lung injury

    Journal: Cell reports

    doi: 10.1016/j.celrep.2022.111805


    Figure Legend Snippet:

    Techniques Used: Virus, Recombinant, Lysis, Magnetic Beads, Migration, Single-cell Transcriptomics, Software

    Related Articles

    Purification:

    Article Title: Composition for diagnosis or treatment of a condition associated with increased activity of EIF4E comprising an EIF4E inhibitor
    Article Snippet: Following the labeling, 5 μL of 1 mM ATP (NEB, P0756L) was added, and the samples were incubated for 10 minutes at 37° C. to phosphorylate the 5′ end of the RNAs for subsequent 5′ linker ligation. .. The ribosome footprints and RNA fragments were purified by acidic phenol-mediated RNA extraction and subsequently size-fractionated and purified using Urea-PAGE to remove free ATP. (4) Linker Ligation, RT-PCR, and Sequencing TruSeq small RNA kits (Illumina, RS-200-0012) were used for 3′ linker, 5′ linker, RT primer, 5′ primer, and 3′ primer ligation. ..

    RNA Extraction:

    Article Title: Composition for diagnosis or treatment of a condition associated with increased activity of EIF4E comprising an EIF4E inhibitor
    Article Snippet: Following the labeling, 5 μL of 1 mM ATP (NEB, P0756L) was added, and the samples were incubated for 10 minutes at 37° C. to phosphorylate the 5′ end of the RNAs for subsequent 5′ linker ligation. .. The ribosome footprints and RNA fragments were purified by acidic phenol-mediated RNA extraction and subsequently size-fractionated and purified using Urea-PAGE to remove free ATP. (4) Linker Ligation, RT-PCR, and Sequencing TruSeq small RNA kits (Illumina, RS-200-0012) were used for 3′ linker, 5′ linker, RT primer, 5′ primer, and 3′ primer ligation. ..

    Ligation:

    Article Title: Composition for diagnosis or treatment of a condition associated with increased activity of EIF4E comprising an EIF4E inhibitor
    Article Snippet: Following the labeling, 5 μL of 1 mM ATP (NEB, P0756L) was added, and the samples were incubated for 10 minutes at 37° C. to phosphorylate the 5′ end of the RNAs for subsequent 5′ linker ligation. .. The ribosome footprints and RNA fragments were purified by acidic phenol-mediated RNA extraction and subsequently size-fractionated and purified using Urea-PAGE to remove free ATP. (4) Linker Ligation, RT-PCR, and Sequencing TruSeq small RNA kits (Illumina, RS-200-0012) were used for 3′ linker, 5′ linker, RT primer, 5′ primer, and 3′ primer ligation. ..

    Sequencing:

    Article Title: Composition for diagnosis or treatment of a condition associated with increased activity of EIF4E comprising an EIF4E inhibitor
    Article Snippet: Following the labeling, 5 μL of 1 mM ATP (NEB, P0756L) was added, and the samples were incubated for 10 minutes at 37° C. to phosphorylate the 5′ end of the RNAs for subsequent 5′ linker ligation. .. The ribosome footprints and RNA fragments were purified by acidic phenol-mediated RNA extraction and subsequently size-fractionated and purified using Urea-PAGE to remove free ATP. (4) Linker Ligation, RT-PCR, and Sequencing TruSeq small RNA kits (Illumina, RS-200-0012) were used for 3′ linker, 5′ linker, RT primer, 5′ primer, and 3′ primer ligation. ..

    Article Title: Hybrid bioinspired nanovescicles target tumor endothelial cells and regulate immuno-microenvironment for triple-negative breast cancer therapy.
    Article Snippet: 410 Sequencing services were provided by APExBIO (Shanghai, China). .. 411 Sequencing libraries were constructed from total RNA using the TruSeq 412 Small RNA Library Preparation Kit (Illumina, #RS-200-0012/RS-200413 0024), which selectively ligates adapters to the 5' and 3' ends of small 414 RNA molecules (14-30 nt). ..

    Article Title: Deciphering the Regulatory Network of Tail Fat Deposition in Large- and Small-Tailed Han Sheep Through Transcriptome and MicroRNAome Profiling.
    Article Snippet: .. For mRNA libraries, mRNA was isolated using oligo-dT beads, thermally fragmented, and converted into double-stranded cDNA with an Illumina TruSeq RNA (Illumina, San Diego, CA, USA) to generate 2 × 150 bp paired-end reads. miRNA libraries were constructed using the Illumina TruSeq Small RNA Library Prep Kit (Illumina, San Diego, CA, USA). cDNA library quality was verified on an Agilent 2100 Bioanalyzer. miRNA sequencing was conducted on an Illumina NextSeq500 (Illumina, San Diego, CA, USA). .. Raw reads were generated using Illumina SCS v2.8 and RTA v1.8.70 software.

    Article Title: Hybrid bioinspired nanovescicles target tumor endothelial cells and regulate immuno-microenvironment for triple-negative breast cancer therapy
    Article Snippet: Sequencing services were provided by APExBIO (Shanghai, China). .. Sequencing libraries were constructed from total RNA using the TruSeq Small RNA Library Preparation Kit (Illumina, #RS-200-0012/RS-200-0024), which selectively ligates adapters to the 5’ and 3’ ends of small RNA molecules (14–30 nt). ..

    RNA Sequencing:

    Article Title: The consensus molecular subtypes of esophageal squamous cell carcinoma
    Article Snippet: We outsourced RNA purification, reverse transcription, library construction, and sequencing to Mingma Technologies, following Illumina’s protocols. .. Using the Illumina TruSeq Small RNA Library Prep Kit, we prepared small RNA sequencing libraries from ~1 μg of total RNA. ..

    Construct:

    Article Title: Hybrid bioinspired nanovescicles target tumor endothelial cells and regulate immuno-microenvironment for triple-negative breast cancer therapy.
    Article Snippet: 410 Sequencing services were provided by APExBIO (Shanghai, China). .. 411 Sequencing libraries were constructed from total RNA using the TruSeq 412 Small RNA Library Preparation Kit (Illumina, #RS-200-0012/RS-200413 0024), which selectively ligates adapters to the 5' and 3' ends of small 414 RNA molecules (14-30 nt). ..

    Article Title: Deciphering the Regulatory Network of Tail Fat Deposition in Large- and Small-Tailed Han Sheep Through Transcriptome and MicroRNAome Profiling.
    Article Snippet: .. For mRNA libraries, mRNA was isolated using oligo-dT beads, thermally fragmented, and converted into double-stranded cDNA with an Illumina TruSeq RNA (Illumina, San Diego, CA, USA) to generate 2 × 150 bp paired-end reads. miRNA libraries were constructed using the Illumina TruSeq Small RNA Library Prep Kit (Illumina, San Diego, CA, USA). cDNA library quality was verified on an Agilent 2100 Bioanalyzer. miRNA sequencing was conducted on an Illumina NextSeq500 (Illumina, San Diego, CA, USA). .. Raw reads were generated using Illumina SCS v2.8 and RTA v1.8.70 software.

    Article Title: Hybrid bioinspired nanovescicles target tumor endothelial cells and regulate immuno-microenvironment for triple-negative breast cancer therapy
    Article Snippet: Sequencing services were provided by APExBIO (Shanghai, China). .. Sequencing libraries were constructed from total RNA using the TruSeq Small RNA Library Preparation Kit (Illumina, #RS-200-0012/RS-200-0024), which selectively ligates adapters to the 5’ and 3’ ends of small RNA molecules (14–30 nt). ..

    RNA Library Preparation:

    Article Title: Hybrid bioinspired nanovescicles target tumor endothelial cells and regulate immuno-microenvironment for triple-negative breast cancer therapy.
    Article Snippet: 410 Sequencing services were provided by APExBIO (Shanghai, China). .. 411 Sequencing libraries were constructed from total RNA using the TruSeq 412 Small RNA Library Preparation Kit (Illumina, #RS-200-0012/RS-200413 0024), which selectively ligates adapters to the 5' and 3' ends of small 414 RNA molecules (14-30 nt). ..

    Article Title: Integrated Gene Regulatory Network Analysis Reveals Coordinated Transcriptional Reprogramming in the Arabidopsis thaliana – Trichoderma atroviride Interaction
    Article Snippet: RNA quantity and purity were determined using a NanoQuant Infinite 200 PRO (Tecan Trading AG, Männedorf, Switzerland) and a Qubit 3 fluorometer (Thermo Fisher Scientific Inc., Waltham, MA, USA). .. RNA integrity was assessed using an Agilent BioAnalyzer 2100 instrument (Agilent Technologies, Inc., Santa Clara, CA, USA), and RNA samples with RIN ≥ 7.5 were selected for further processing. mRNA libraries were prepared using the TruSeq ® Stranded RNA Library Preparation Kit (Illumina Inc., San Diego, CA, USA, catalog number 20020594), and sRNA libraries were prepared using the TruSeq ® Small RNA Library Preparation Kit (Illumina Inc., San Diego, CA, USA, catalog number RS-200-0012). .. Sequencing was performed on an Illumina ® HiSeq2000 sequencer using 150 bp paired-end mode for mRNA libraries and 50 bp single-end mode for sRNA libraries.

    Article Title: Hybrid bioinspired nanovescicles target tumor endothelial cells and regulate immuno-microenvironment for triple-negative breast cancer therapy
    Article Snippet: Sequencing services were provided by APExBIO (Shanghai, China). .. Sequencing libraries were constructed from total RNA using the TruSeq Small RNA Library Preparation Kit (Illumina, #RS-200-0012/RS-200-0024), which selectively ligates adapters to the 5’ and 3’ ends of small RNA molecules (14–30 nt). ..

    Sample Prep:

    Article Title: Extracellular vesicles mediate stem cell signaling and systemic RNAi in planarians
    Article Snippet: .. Libraries were made according to the manufacturer’s directions for the TruSeq Small RNA Sample Preparation Kit (Illumina, RS-200-0012). .. First, 5′ and 3′ small RNA adaptors were ligated to the RNA and ligated products were reverse transcribed using the Superscript II Reverse Transcriptase (Invitrogen).

    Isolation:

    Article Title: Deciphering the Regulatory Network of Tail Fat Deposition in Large- and Small-Tailed Han Sheep Through Transcriptome and MicroRNAome Profiling.
    Article Snippet: .. For mRNA libraries, mRNA was isolated using oligo-dT beads, thermally fragmented, and converted into double-stranded cDNA with an Illumina TruSeq RNA (Illumina, San Diego, CA, USA) to generate 2 × 150 bp paired-end reads. miRNA libraries were constructed using the Illumina TruSeq Small RNA Library Prep Kit (Illumina, San Diego, CA, USA). cDNA library quality was verified on an Agilent 2100 Bioanalyzer. miRNA sequencing was conducted on an Illumina NextSeq500 (Illumina, San Diego, CA, USA). .. Raw reads were generated using Illumina SCS v2.8 and RTA v1.8.70 software.

    cDNA Library Assay:

    Article Title: Deciphering the Regulatory Network of Tail Fat Deposition in Large- and Small-Tailed Han Sheep Through Transcriptome and MicroRNAome Profiling.
    Article Snippet: .. For mRNA libraries, mRNA was isolated using oligo-dT beads, thermally fragmented, and converted into double-stranded cDNA with an Illumina TruSeq RNA (Illumina, San Diego, CA, USA) to generate 2 × 150 bp paired-end reads. miRNA libraries were constructed using the Illumina TruSeq Small RNA Library Prep Kit (Illumina, San Diego, CA, USA). cDNA library quality was verified on an Agilent 2100 Bioanalyzer. miRNA sequencing was conducted on an Illumina NextSeq500 (Illumina, San Diego, CA, USA). .. Raw reads were generated using Illumina SCS v2.8 and RTA v1.8.70 software.



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    Image Search Results


    (a) Simplified cross-section of the human epidermis, highlighting squamous cells, melanocytes and basal cells. Coloured regions represent cSCC (green), which originates from squamous cells, melanoma (orange), which originates from melanocytes, and BCC (blue), which originates from basal cells. Two orange melanocytes are shown in the dermal region as occurs in invasive melanoma; other cells in the lower dermis layer are not depicted. (b) Overview of sample design and technologies used to generate data for this project. ROI - region of interest; FOV - field of view; S - cSCC; B - BCC; M - melanoma; HC - healthy (cancer patient); HNC - healthy (non-cancer patient donor). Technologies included are single cell RNA sequencing for fresh samples, single nuclei sequencing for formalin-fixed samples, Visium, Xenium, CosMX, GeoMX DSP for whole transcriptome, GeoMX DSP for proteins, Polaris, RNAscope, the proximal ligation assay, spatial glycomics and CODEX.

    Journal: bioRxiv

    Article Title: Integrating 12 Spatial and Single Cell Technologies to Characterise Tumour Neighbourhoods and Cellular Interactions in three Skin Cancer Types

    doi: 10.1101/2025.07.25.666708

    Figure Lengend Snippet: (a) Simplified cross-section of the human epidermis, highlighting squamous cells, melanocytes and basal cells. Coloured regions represent cSCC (green), which originates from squamous cells, melanoma (orange), which originates from melanocytes, and BCC (blue), which originates from basal cells. Two orange melanocytes are shown in the dermal region as occurs in invasive melanoma; other cells in the lower dermis layer are not depicted. (b) Overview of sample design and technologies used to generate data for this project. ROI - region of interest; FOV - field of view; S - cSCC; B - BCC; M - melanoma; HC - healthy (cancer patient); HNC - healthy (non-cancer patient donor). Technologies included are single cell RNA sequencing for fresh samples, single nuclei sequencing for formalin-fixed samples, Visium, Xenium, CosMX, GeoMX DSP for whole transcriptome, GeoMX DSP for proteins, Polaris, RNAscope, the proximal ligation assay, spatial glycomics and CODEX.

    Article Snippet: Cells expressing the two genes are visualized on single-cell level resolution spatial data from STOmics and Curio-Seeker (Takara Bio, USA) melanoma samples and appear to be in spatial proximity ( ).

    Techniques: RNA Sequencing, Sequencing, RNAscope, Ligation

    (a) Gene specificity score (GSS) and association of spatial spots with skin cancer heritability. GSS score for each gene in a spot/cell represents the enrichment of the gene as a top rank most abundant gene in the spot/cell and its neighbour spots/cells in an anatomical region, a spatial domain, or a cell type. The p-value shows the spatial heritability enrichment significance of a spot with a trait based on SNPs mapped to the genes with high GSS scores (one-sided Z-test for stratified coefficient different to 0). The p-value is more significant if the SNPs that are mapped to the high GSS genes explain a higher proportion of heritability for the trait. (b) Cell types with the highest enrichment of heritability explained by SNPs tagged to GSS genes of cells in a cell type. The white asterisks indicate the most enriched cell-type for heritability of cutaneous melanoma, cSCC and BCC traits. (c) gsMAP significance spatial heritability enrichment is shown at single-cell resolution across the tissue (upper tissue plots) or per annotated skin regions (lower violin plots) from the cosMx data of the sample mel48974. (d) LR pairs with significant association with SNP heritability explained by the corresponding cell types. The rectangles show cases where both L and R genes had PCC >0.3 between GSS of the gene and the gsMAP P-values (the significance level for the LD stratified coefficients for the spot bigger than 0). The results suggest which LR pairs are related with the heritability of a cell type pairs. (e) GSS of two LR pairs showing specificity of the L and R genes to tissue regions at the immune-rich dermal layers and the epidermis of the skin. (f) Manhattan plot showing top significant GWAS SNPs co-localizing with genes in melanocytes (red) and T cells (blue) that had the highest Pearson correlation between GSS and the gsMAP trait association P-value or associated with SNPs with genome-wide significance. The Y-axis shows the -log(P-value) from GWAS analysis.

    Journal: bioRxiv

    Article Title: Integrating 12 Spatial and Single Cell Technologies to Characterise Tumour Neighbourhoods and Cellular Interactions in three Skin Cancer Types

    doi: 10.1101/2025.07.25.666708

    Figure Lengend Snippet: (a) Gene specificity score (GSS) and association of spatial spots with skin cancer heritability. GSS score for each gene in a spot/cell represents the enrichment of the gene as a top rank most abundant gene in the spot/cell and its neighbour spots/cells in an anatomical region, a spatial domain, or a cell type. The p-value shows the spatial heritability enrichment significance of a spot with a trait based on SNPs mapped to the genes with high GSS scores (one-sided Z-test for stratified coefficient different to 0). The p-value is more significant if the SNPs that are mapped to the high GSS genes explain a higher proportion of heritability for the trait. (b) Cell types with the highest enrichment of heritability explained by SNPs tagged to GSS genes of cells in a cell type. The white asterisks indicate the most enriched cell-type for heritability of cutaneous melanoma, cSCC and BCC traits. (c) gsMAP significance spatial heritability enrichment is shown at single-cell resolution across the tissue (upper tissue plots) or per annotated skin regions (lower violin plots) from the cosMx data of the sample mel48974. (d) LR pairs with significant association with SNP heritability explained by the corresponding cell types. The rectangles show cases where both L and R genes had PCC >0.3 between GSS of the gene and the gsMAP P-values (the significance level for the LD stratified coefficients for the spot bigger than 0). The results suggest which LR pairs are related with the heritability of a cell type pairs. (e) GSS of two LR pairs showing specificity of the L and R genes to tissue regions at the immune-rich dermal layers and the epidermis of the skin. (f) Manhattan plot showing top significant GWAS SNPs co-localizing with genes in melanocytes (red) and T cells (blue) that had the highest Pearson correlation between GSS and the gsMAP trait association P-value or associated with SNPs with genome-wide significance. The Y-axis shows the -log(P-value) from GWAS analysis.

    Article Snippet: Cells expressing the two genes are visualized on single-cell level resolution spatial data from STOmics and Curio-Seeker (Takara Bio, USA) melanoma samples and appear to be in spatial proximity ( ).

    Techniques: Genome Wide

    Journal: Cell

    Article Title: Spatiotemporal analysis of human intestinal development at single-cell resolution

    doi: 10.1016/j.cell.2020.12.016

    Figure Lengend Snippet:

    Article Snippet: STAR-FINDer Single Cell and Spatial Transcriptomics Data Portal , This study , https://simmonslab.shinyapps.io/FetalAtlasDataPortal.

    Techniques: Conjugation Assay, Recombinant, Saline, Modification, Plasmid Preparation, Gene Expression, RNAscope, Generated, Software