allprep dna rna micro kit  (Qiagen)

 
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    Name:
    AllPrep DNA RNA Micro Kit
    Description:
    For simultaneous purification of DNA and RNA from small cell and tissue samples Kit contents Qiagen AllPrep DNA RNA Micro Kit 50 preps 5mg Tissue Sample DNA 30L RNA 10L Elution Volume Cells Tissue Sample Silica Technology Manual Processing DNA and RNA Purification 35 min Time Run Ideal for PCR RT PCR cDNA Synthesis Microarray Blotting For Simultaneous Purification of DNA and RNA from Small Cell and Tissue Samples Includes AllPrep DNA Spin Columns RNeasy minElute Spin Columns Collection Tubes Carrier RNA RNase free Water and Buffers Benefits High quality DNA and RNA from the same sample Maximal yields of DNA and RNA from precious samples Rapid purification with short streamlined protocol Ready to use DNA and RNA for any downstream analysis
    Catalog Number:
    80284
    Price:
    722
    Category:
    AllPrep DNA RNA Micro Kit
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    Structured Review

    Qiagen allprep dna rna micro kit
    AllPrep DNA RNA Micro Kit
    For simultaneous purification of DNA and RNA from small cell and tissue samples Kit contents Qiagen AllPrep DNA RNA Micro Kit 50 preps 5mg Tissue Sample DNA 30L RNA 10L Elution Volume Cells Tissue Sample Silica Technology Manual Processing DNA and RNA Purification 35 min Time Run Ideal for PCR RT PCR cDNA Synthesis Microarray Blotting For Simultaneous Purification of DNA and RNA from Small Cell and Tissue Samples Includes AllPrep DNA Spin Columns RNeasy minElute Spin Columns Collection Tubes Carrier RNA RNase free Water and Buffers Benefits High quality DNA and RNA from the same sample Maximal yields of DNA and RNA from precious samples Rapid purification with short streamlined protocol Ready to use DNA and RNA for any downstream analysis
    https://www.bioz.com/result/allprep dna rna micro kit/product/Qiagen
    Average 99 stars, based on 135 article reviews
    Price from $9.99 to $1999.99
    allprep dna rna micro kit - by Bioz Stars, 2020-08
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    Images

    1) Product Images from "Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies"

    Article Title: Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies

    Journal: Journal of Clinical Pathology

    doi: 10.1136/jclinpath-2017-204329

    DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.
    Figure Legend Snippet: DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.

    Techniques Used: DNA Extraction, Fluorescence, FACS

    RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.
    Figure Legend Snippet: RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.

    Techniques Used: Isolation

    Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.
    Figure Legend Snippet: Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.

    Techniques Used: Isolation, Next-Generation Sequencing, Amplification, Hybridization

    2) Product Images from "TET1-mediated DNA hydroxy-methylation regulates adult remyelination"

    Article Title: TET1-mediated DNA hydroxy-methylation regulates adult remyelination

    Journal: bioRxiv

    doi: 10.1101/819995

    Identification of TET1-gene targets in adult oligodendrocyte progenitors. ( A ) Schematic of our experimental design of lysolecithin lesions performed in young P60 control Olig1 +/+ ;Tet1 fl/fl mice. RNA-Sequencing on oligodendroglial-enriched control and 4dpl tissues identifies 2,469 up- and 1,609 down-regulated genes after lesions in control mice. ( B ) Schematic of our experimental design of lysolecithin lesions performed in young constitutive Tet1 mutant ( Olig1 cre/+ ;Tet1 fl/fl ) mice. RNA-Sequencing on oligodendroglial-enriched control and 4dpl tissues identifies only 121 up- and 498 down-regulated genes after lesions in mutant mice, confirming the role of TET1 in oligodendroglial cells during repair. ( C ) Flow-Activated cell-sorting of P60 adult OPCs ( Pdgfrα-EGFP ) and P60 adult OLs ( Plp-EGFP ) for RNA-Sequencing and RRHP DNA hydroxy-methylation analysis. ( D ) Of the 917up-regulated genes during adult oligodendrocyte differentiation, 323 are also hyper-hydroxy-methylated, representing 35.2% of the upregulated genes, which includes solute carrier family members. ( E ) Quantitative real-time PCR analysis of Slc12a2 , Slc22a23 and Scl9a6 in Olig1 +/+ ;Tet1 fl/fl and Olig1 cre/+ ;Tet1 fl/fl spinal cord tissue, showing a decrease of all three Slc12a2 , Slc22a23 and Slc9a6 expression levels in mutant tissues. Data represent average transcript levels relative to control, after normalization ± SEM for n=3 independent experiments each performed in triplicates. *p
    Figure Legend Snippet: Identification of TET1-gene targets in adult oligodendrocyte progenitors. ( A ) Schematic of our experimental design of lysolecithin lesions performed in young P60 control Olig1 +/+ ;Tet1 fl/fl mice. RNA-Sequencing on oligodendroglial-enriched control and 4dpl tissues identifies 2,469 up- and 1,609 down-regulated genes after lesions in control mice. ( B ) Schematic of our experimental design of lysolecithin lesions performed in young constitutive Tet1 mutant ( Olig1 cre/+ ;Tet1 fl/fl ) mice. RNA-Sequencing on oligodendroglial-enriched control and 4dpl tissues identifies only 121 up- and 498 down-regulated genes after lesions in mutant mice, confirming the role of TET1 in oligodendroglial cells during repair. ( C ) Flow-Activated cell-sorting of P60 adult OPCs ( Pdgfrα-EGFP ) and P60 adult OLs ( Plp-EGFP ) for RNA-Sequencing and RRHP DNA hydroxy-methylation analysis. ( D ) Of the 917up-regulated genes during adult oligodendrocyte differentiation, 323 are also hyper-hydroxy-methylated, representing 35.2% of the upregulated genes, which includes solute carrier family members. ( E ) Quantitative real-time PCR analysis of Slc12a2 , Slc22a23 and Scl9a6 in Olig1 +/+ ;Tet1 fl/fl and Olig1 cre/+ ;Tet1 fl/fl spinal cord tissue, showing a decrease of all three Slc12a2 , Slc22a23 and Slc9a6 expression levels in mutant tissues. Data represent average transcript levels relative to control, after normalization ± SEM for n=3 independent experiments each performed in triplicates. *p

    Techniques Used: Mouse Assay, RNA Sequencing Assay, Mutagenesis, FACS, Plasmid Purification, Methylation, Real-time Polymerase Chain Reaction, Expressing

    3) Product Images from "Selective Nucleic Acid Removal via Exclusion (SNARE): Capturing mRNA and DNA from a single sample"

    Article Title: Selective Nucleic Acid Removal via Exclusion (SNARE): Capturing mRNA and DNA from a single sample

    Journal: Analytical chemistry

    doi: 10.1021/ac402162r

    RNA and DNA extraction methods from a single sample, using the traditional Trizol (guanidinium thiocyanate-phenol-chloroform) or Spin Column methods as compared to SNARE
    Figure Legend Snippet: RNA and DNA extraction methods from a single sample, using the traditional Trizol (guanidinium thiocyanate-phenol-chloroform) or Spin Column methods as compared to SNARE

    Techniques Used: DNA Extraction

    4) Product Images from "Clonotypic heterogeneity in cutaneous T-cell lymphoma (mycosis fungoides) revealed by comprehensive whole-exome sequencing"

    Article Title: Clonotypic heterogeneity in cutaneous T-cell lymphoma (mycosis fungoides) revealed by comprehensive whole-exome sequencing

    Journal: Blood Advances

    doi: 10.1182/bloodadvances.2018027482

    Schematic representation of sample collection, processing, and TCR sequencing. Four-millimeter punch biopsies were collected from early lesions (plaques; red circles) or tumors (green squares) in 27 patients with MF. Biopsies were cryosectioned and laser microdissected to capture tumor cells that were pooled together. Original magnification ×10; hematoxylin and eosin staining. DNA and RNA were isolated simultaneously from the microdissected material and processed for WES and WTS. WTS data are available only for samples MF4_2T, MF4_3P, MF5_1T, MF5_2P, MF7_1T, MF7_2P, MF11T, MF11_1P, MF19_1T, and MF19_2P and a pool of normal CD4 + lymphocytes (data not shown). The gene sequence is indicated in green, the adapter sequence is indicated in red, and the index sequence is indicated in blue.
    Figure Legend Snippet: Schematic representation of sample collection, processing, and TCR sequencing. Four-millimeter punch biopsies were collected from early lesions (plaques; red circles) or tumors (green squares) in 27 patients with MF. Biopsies were cryosectioned and laser microdissected to capture tumor cells that were pooled together. Original magnification ×10; hematoxylin and eosin staining. DNA and RNA were isolated simultaneously from the microdissected material and processed for WES and WTS. WTS data are available only for samples MF4_2T, MF4_3P, MF5_1T, MF5_2P, MF7_1T, MF7_2P, MF11T, MF11_1P, MF19_1T, and MF19_2P and a pool of normal CD4 + lymphocytes (data not shown). The gene sequence is indicated in green, the adapter sequence is indicated in red, and the index sequence is indicated in blue.

    Techniques Used: Sequencing, Staining, Isolation

    5) Product Images from "Mitochondria Transcription Factor A: A Putative Target for the Effect of Melatonin on U87MG Malignant Glioma Cell Line"

    Article Title: Mitochondria Transcription Factor A: A Putative Target for the Effect of Melatonin on U87MG Malignant Glioma Cell Line

    Journal: Molecules : A Journal of Synthetic Chemistry and Natural Product Chemistry

    doi: 10.3390/molecules23051129

    Melatonin inhibits mitochondrial NADH dehydrogenase 1 gene expression but does not affect mitochondrial DNA (mtDNA) replication—Cultured U87MG cells were incubated with melatonin (1 mM or 3 mM) for 72 h, and the medium was exchanged every 24 h. The relative expression of the NADH dehydrogenase 1 gene ( A ) and mtDNA copy number ( B ) were determined by qRT-PCR, using mitochondrial RNA and DNA as a template, respectively. The data are expressed as the relative quantification (2 −ΔΔCt ) compared to the vehicle-treated groups (ethanol 0.3% or 0.9%). Gene expression did not differ in cells treated with vehicle or 0.3% and 0.9% ethanol, and these groups were represented as a single bar * p
    Figure Legend Snippet: Melatonin inhibits mitochondrial NADH dehydrogenase 1 gene expression but does not affect mitochondrial DNA (mtDNA) replication—Cultured U87MG cells were incubated with melatonin (1 mM or 3 mM) for 72 h, and the medium was exchanged every 24 h. The relative expression of the NADH dehydrogenase 1 gene ( A ) and mtDNA copy number ( B ) were determined by qRT-PCR, using mitochondrial RNA and DNA as a template, respectively. The data are expressed as the relative quantification (2 −ΔΔCt ) compared to the vehicle-treated groups (ethanol 0.3% or 0.9%). Gene expression did not differ in cells treated with vehicle or 0.3% and 0.9% ethanol, and these groups were represented as a single bar * p

    Techniques Used: Expressing, Cell Culture, Incubation, Quantitative RT-PCR

    6) Product Images from "Routine genetic testing of lung cancer specimens derived from surgery, bronchoscopy and fluid aspiration by next generation sequencing"

    Article Title: Routine genetic testing of lung cancer specimens derived from surgery, bronchoscopy and fluid aspiration by next generation sequencing

    Journal: International Journal of Oncology

    doi: 10.3892/ijo.2017.3935

    Overview of genetic testing. (A) DNA was used for the conventional method. RNA was used for both conventional and NGS methods. (B) Surgical indicates surgical materials. Endoscopic indicates bronchoscope lavage.
    Figure Legend Snippet: Overview of genetic testing. (A) DNA was used for the conventional method. RNA was used for both conventional and NGS methods. (B) Surgical indicates surgical materials. Endoscopic indicates bronchoscope lavage.

    Techniques Used: Next-Generation Sequencing

    7) Product Images from "Engrailed homeoprotein blocks degeneration in adult dopaminergic neurons through LINE‐1 repression"

    Article Title: Engrailed homeoprotein blocks degeneration in adult dopaminergic neurons through LINE‐1 repression

    Journal: The EMBO Journal

    doi: 10.15252/embj.201797374

    Stavudine and si RNA against Orf2 protect in vivo against oxidative stress‐induced DNA damage and cell death
    Figure Legend Snippet: Stavudine and si RNA against Orf2 protect in vivo against oxidative stress‐induced DNA damage and cell death

    Techniques Used: In Vivo

    8) Product Images from "Bombesin-like receptor 3 (Brs3) expression in glutamatergic, but not GABAergic, neurons is required for regulation of energy metabolism"

    Article Title: Bombesin-like receptor 3 (Brs3) expression in glutamatergic, but not GABAergic, neurons is required for regulation of energy metabolism

    Journal: Molecular Metabolism

    doi: 10.1016/j.molmet.2017.08.013

    Generation of Brs3 fl/y mice. (A) Scheme for creation of floxed Brs3 allele. Homologous recombination of the Brs3 targeting construct in embryonic stem (ES) cells produced the targeted allele, and a founder was bred with an EIIa-Cre female to remove the PGK-Neo cassette. Deletion of exon 2 by Cre recombinase generates the null allele. (B) Southern hybridization of ES DNA digested with EcoRV using a 5′ flanking probe, detected bands of 5.4 kb (WT) and 3.8 kb (floxed). (C) PCR genotyping using primers x213 and x214, produces products of 203 bp (WT) and 237 bp (floxed). (D, E) Brs3 DNA and RNA were quantified by PCR in hypothalamus of (D) Brs3 fl/y ;Vglut2-Cre (Vglut2-Cre) or (E) Brs3 fl/y ;Vgat-Cre (Vgat-Cre) and littermate control Brs3 fl/y (flox/y) mice. Primers x213 and x214 were used for DNA and x573 and x574 for RNA. N = 4–5/group; * indicates P
    Figure Legend Snippet: Generation of Brs3 fl/y mice. (A) Scheme for creation of floxed Brs3 allele. Homologous recombination of the Brs3 targeting construct in embryonic stem (ES) cells produced the targeted allele, and a founder was bred with an EIIa-Cre female to remove the PGK-Neo cassette. Deletion of exon 2 by Cre recombinase generates the null allele. (B) Southern hybridization of ES DNA digested with EcoRV using a 5′ flanking probe, detected bands of 5.4 kb (WT) and 3.8 kb (floxed). (C) PCR genotyping using primers x213 and x214, produces products of 203 bp (WT) and 237 bp (floxed). (D, E) Brs3 DNA and RNA were quantified by PCR in hypothalamus of (D) Brs3 fl/y ;Vglut2-Cre (Vglut2-Cre) or (E) Brs3 fl/y ;Vgat-Cre (Vgat-Cre) and littermate control Brs3 fl/y (flox/y) mice. Primers x213 and x214 were used for DNA and x573 and x574 for RNA. N = 4–5/group; * indicates P

    Techniques Used: Mouse Assay, Homologous Recombination, Construct, Produced, Hybridization, Polymerase Chain Reaction

    Generation of Brs3 loxTB/y mice. (A) A loxP-flanked transcriptional blocker (loxTB) was inserted in the first intron of Brs3 . Cre recombinase will cause re-expression of Brs3 from the silent Brs3 loxTB allele. (B) PCR (primers x559, x561, and x562) genotyping gives 214 bp wild type (WT) and 395 bp unrecombined loxTB products. (C) The fraction of recombined loxTB DNA was measured by subtracting the unrecombined level in the Cre-expressing mice from that in loxTB mice. PCR (primers x669 and x212) was performed on hypothalamus DNA from Brs3 loxTB/y (loxTB), Brs3 loxTB/y ;Vglut2-Cre (Vglut2-Cre), and Brs3 loxTB/y ;Vgat-Cre (Vgat-Cre) mice. (D) Brs3 RNA in hypothalamus was quantified by RT-PCR (using primers x573 and x574). N = 4–5/group.
    Figure Legend Snippet: Generation of Brs3 loxTB/y mice. (A) A loxP-flanked transcriptional blocker (loxTB) was inserted in the first intron of Brs3 . Cre recombinase will cause re-expression of Brs3 from the silent Brs3 loxTB allele. (B) PCR (primers x559, x561, and x562) genotyping gives 214 bp wild type (WT) and 395 bp unrecombined loxTB products. (C) The fraction of recombined loxTB DNA was measured by subtracting the unrecombined level in the Cre-expressing mice from that in loxTB mice. PCR (primers x669 and x212) was performed on hypothalamus DNA from Brs3 loxTB/y (loxTB), Brs3 loxTB/y ;Vglut2-Cre (Vglut2-Cre), and Brs3 loxTB/y ;Vgat-Cre (Vgat-Cre) mice. (D) Brs3 RNA in hypothalamus was quantified by RT-PCR (using primers x573 and x574). N = 4–5/group.

    Techniques Used: Mouse Assay, Expressing, Polymerase Chain Reaction, Reverse Transcription Polymerase Chain Reaction

    9) Product Images from "Resolving mechanisms of immune-mediated disease in primary CD4 T cells"

    Article Title: Resolving mechanisms of immune-mediated disease in primary CD4 T cells

    Journal: bioRxiv

    doi: 10.1101/2020.01.16.908988

    MPRA in CD4 T cells identifies an expression-modulating variant that disrupts NF-κB binding and enhancer function a IBD GWAS results 62 at a multi-disease-associated locus on chromosome 6q23. b Fine-mapping results 3 (posterior probabilities) for candidate SNPs at this locus. c A single variant (rs6927172) has the largest and most significant expression-modulating activity in resting (left panel) and stimulated CD4 T cells (right panel) with the risk allele reducing transcription. Plots represent median and IQR (box) and min-to-max (whiskers). FDR-corrected meta-analysis P value shown. d Sequence logo for an experimentally-validated NF-κB binding motif. The genomic sequence around rs6927172 is aligned below. e Allele-specific NF-κB binding in CD4 T cells from rs6927172 heterozygotes, demonstrating reduced NF-κB binding to the risk allele following stimulation (n=8; one-sample t -test, two-tailed). f Allele-specific expression of enhancer RNA in heterozygous CD4 T cells. DNA represents technical control (n=6; paired t -test; two-tailed). g Genome-wide H3K27ac ChIP-seq in stimulated CD4 T cells from major- and minor-allele homozygotes at rs6927172 (n=6). Upper panels show input-normalised H3K27ac signals (generated by ROSE 46 ) plotted against enhancer rank. Super-enhancers are conventionally defined above the inflection point of the curve. Lower panels show H3K27ac reads from a major-(left) and a minor (risk) allele homozygote (right) in a 9kb window around rs6927172. h Promoter-capture Hi-C overview plot depicting interactions of the 6q23 super-enhancer. Data from ref 33. i Expression of genes on 6q23 in CD4 T cells from 131 patients with active IBD, stratified by rs6927172 genotype (qPCR; one-way ANOVA). Error bars represent SD. IL20RA and IL22RAR2 expression was not detected. Data represent mean+/-SEM, unless indicated. * P
    Figure Legend Snippet: MPRA in CD4 T cells identifies an expression-modulating variant that disrupts NF-κB binding and enhancer function a IBD GWAS results 62 at a multi-disease-associated locus on chromosome 6q23. b Fine-mapping results 3 (posterior probabilities) for candidate SNPs at this locus. c A single variant (rs6927172) has the largest and most significant expression-modulating activity in resting (left panel) and stimulated CD4 T cells (right panel) with the risk allele reducing transcription. Plots represent median and IQR (box) and min-to-max (whiskers). FDR-corrected meta-analysis P value shown. d Sequence logo for an experimentally-validated NF-κB binding motif. The genomic sequence around rs6927172 is aligned below. e Allele-specific NF-κB binding in CD4 T cells from rs6927172 heterozygotes, demonstrating reduced NF-κB binding to the risk allele following stimulation (n=8; one-sample t -test, two-tailed). f Allele-specific expression of enhancer RNA in heterozygous CD4 T cells. DNA represents technical control (n=6; paired t -test; two-tailed). g Genome-wide H3K27ac ChIP-seq in stimulated CD4 T cells from major- and minor-allele homozygotes at rs6927172 (n=6). Upper panels show input-normalised H3K27ac signals (generated by ROSE 46 ) plotted against enhancer rank. Super-enhancers are conventionally defined above the inflection point of the curve. Lower panels show H3K27ac reads from a major-(left) and a minor (risk) allele homozygote (right) in a 9kb window around rs6927172. h Promoter-capture Hi-C overview plot depicting interactions of the 6q23 super-enhancer. Data from ref 33. i Expression of genes on 6q23 in CD4 T cells from 131 patients with active IBD, stratified by rs6927172 genotype (qPCR; one-way ANOVA). Error bars represent SD. IL20RA and IL22RAR2 expression was not detected. Data represent mean+/-SEM, unless indicated. * P

    Techniques Used: Expressing, Variant Assay, Binding Assay, GWAS, Activity Assay, Sequencing, Two Tailed Test, Genome Wide, Chromatin Immunoprecipitation, Generated, Hi-C, Real-time Polymerase Chain Reaction

    10) Product Images from "Selective Nucleic Acid Removal via Exclusion (SNARE): Capturing mRNA and DNA from a single sample"

    Article Title: Selective Nucleic Acid Removal via Exclusion (SNARE): Capturing mRNA and DNA from a single sample

    Journal: Analytical chemistry

    doi: 10.1021/ac402162r

    RNA and DNA extraction methods from a single sample, using the traditional Trizol (guanidinium thiocyanate-phenol-chloroform) or Spin Column methods as compared to SNARE
    Figure Legend Snippet: RNA and DNA extraction methods from a single sample, using the traditional Trizol (guanidinium thiocyanate-phenol-chloroform) or Spin Column methods as compared to SNARE

    Techniques Used: DNA Extraction

    11) Product Images from "Intraindividual dynamics of transcriptome and genome-wide stability of DNA methylation"

    Article Title: Intraindividual dynamics of transcriptome and genome-wide stability of DNA methylation

    Journal: Scientific Reports

    doi: 10.1038/srep26424

    Sample summaries. ( a ) Monocyte gating strategy. Typical light-scatter density-plot of PBMCs (left) and CD14 high CD16 low monocytes were isolated from the monocyte-containing gate based on CD14 and CD16 expression (right). ( b ) Isolated CD14 high CD16 low monocyte population (96.7% ± 1.0% purity). ( c ) Cell numbers (left) and DNA (middle) and RNA (right) yields obtained for each cell population. ( d ) Estimated cellular composition for each sample as determined by reference information on cell-specific DNA methylation signatures using the “estimateCellCounts” function implemented in the minfi package. Bars in ( c , d ) represent mean ± standard deviation (grey, participant #1; black, participant #2).
    Figure Legend Snippet: Sample summaries. ( a ) Monocyte gating strategy. Typical light-scatter density-plot of PBMCs (left) and CD14 high CD16 low monocytes were isolated from the monocyte-containing gate based on CD14 and CD16 expression (right). ( b ) Isolated CD14 high CD16 low monocyte population (96.7% ± 1.0% purity). ( c ) Cell numbers (left) and DNA (middle) and RNA (right) yields obtained for each cell population. ( d ) Estimated cellular composition for each sample as determined by reference information on cell-specific DNA methylation signatures using the “estimateCellCounts” function implemented in the minfi package. Bars in ( c , d ) represent mean ± standard deviation (grey, participant #1; black, participant #2).

    Techniques Used: Isolation, Expressing, DNA Methylation Assay, Standard Deviation

    12) Product Images from "Selective Nucleic Acid Removal via Exclusion (SNARE): Capturing mRNA and DNA from a single sample"

    Article Title: Selective Nucleic Acid Removal via Exclusion (SNARE): Capturing mRNA and DNA from a single sample

    Journal: Analytical chemistry

    doi: 10.1021/ac402162r

    RNA and DNA extraction methods from a single sample, using the traditional Trizol (guanidinium thiocyanate-phenol-chloroform) or Spin Column methods as compared to SNARE
    Figure Legend Snippet: RNA and DNA extraction methods from a single sample, using the traditional Trizol (guanidinium thiocyanate-phenol-chloroform) or Spin Column methods as compared to SNARE

    Techniques Used: DNA Extraction

    13) Product Images from "Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies"

    Article Title: Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies

    Journal: Journal of Clinical Pathology

    doi: 10.1136/jclinpath-2017-204329

    DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.
    Figure Legend Snippet: DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.

    Techniques Used: DNA Extraction, Fluorescence, FACS

    RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.
    Figure Legend Snippet: RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.

    Techniques Used: Isolation

    Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.
    Figure Legend Snippet: Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.

    Techniques Used: Isolation, Next-Generation Sequencing, Amplification, Hybridization

    14) Product Images from "Sexual Dimorphism in the Early Embryogenesis in Zebra Finches"

    Article Title: Sexual Dimorphism in the Early Embryogenesis in Zebra Finches

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0114625

    Agarose gel electrophoresis of the PCR amplification products of the GH1 and NR5A1 genes. A – expression of the GH1 gene in the 6 h zebra finch embryos. B – amplification of the reaction product in the nested PCR. Lanes: 1, 2, 3–6 h embryo samples, PC- positive control, reverse transcribed RNA from adult zebra finch pituitary gland. The negative control was RNA treated in the absence of reverse transcriptase. The negative control is not shown, but in all repeats it showed no products. C – expression of the steroidogenic factor 1 gene ( NR5A1 ) in female (Lanes: F1, F2 and F3) and lack of the product in male (Lanes: M1, M2 and M3) zebra finch embryos incubated for 36 h. On all photos M is a DNA marker (100–1000 b.p.).
    Figure Legend Snippet: Agarose gel electrophoresis of the PCR amplification products of the GH1 and NR5A1 genes. A – expression of the GH1 gene in the 6 h zebra finch embryos. B – amplification of the reaction product in the nested PCR. Lanes: 1, 2, 3–6 h embryo samples, PC- positive control, reverse transcribed RNA from adult zebra finch pituitary gland. The negative control was RNA treated in the absence of reverse transcriptase. The negative control is not shown, but in all repeats it showed no products. C – expression of the steroidogenic factor 1 gene ( NR5A1 ) in female (Lanes: F1, F2 and F3) and lack of the product in male (Lanes: M1, M2 and M3) zebra finch embryos incubated for 36 h. On all photos M is a DNA marker (100–1000 b.p.).

    Techniques Used: Agarose Gel Electrophoresis, Polymerase Chain Reaction, Amplification, Expressing, Nested PCR, Positive Control, Negative Control, Incubation, Marker

    15) Product Images from "Engrailed homeoprotein blocks degeneration in adult dopaminergic neurons through LINE‐1 repression"

    Article Title: Engrailed homeoprotein blocks degeneration in adult dopaminergic neurons through LINE‐1 repression

    Journal: The EMBO Journal

    doi: 10.15252/embj.201797374

    Stavudine and si RNA against Orf2 protect in vivo against oxidative stress‐induced DNA damage and cell death
    Figure Legend Snippet: Stavudine and si RNA against Orf2 protect in vivo against oxidative stress‐induced DNA damage and cell death

    Techniques Used: In Vivo

    16) Product Images from "Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies"

    Article Title: Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies

    Journal: Journal of Clinical Pathology

    doi: 10.1136/jclinpath-2017-204329

    DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.
    Figure Legend Snippet: DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.

    Techniques Used: DNA Extraction, Fluorescence, FACS

    RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.
    Figure Legend Snippet: RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.

    Techniques Used: Isolation

    Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.
    Figure Legend Snippet: Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.

    Techniques Used: Isolation, Next-Generation Sequencing, Amplification, Hybridization

    17) Product Images from "Mitochondria Transcription Factor A: A Putative Target for the Effect of Melatonin on U87MG Malignant Glioma Cell Line"

    Article Title: Mitochondria Transcription Factor A: A Putative Target for the Effect of Melatonin on U87MG Malignant Glioma Cell Line

    Journal: Molecules : A Journal of Synthetic Chemistry and Natural Product Chemistry

    doi: 10.3390/molecules23051129

    Melatonin inhibits mitochondrial NADH dehydrogenase 1 gene expression but does not affect mitochondrial DNA (mtDNA) replication—Cultured U87MG cells were incubated with melatonin (1 mM or 3 mM) for 72 h, and the medium was exchanged every 24 h. The relative expression of the NADH dehydrogenase 1 gene ( A ) and mtDNA copy number ( B ) were determined by qRT-PCR, using mitochondrial RNA and DNA as a template, respectively. The data are expressed as the relative quantification (2 −ΔΔCt ) compared to the vehicle-treated groups (ethanol 0.3% or 0.9%). Gene expression did not differ in cells treated with vehicle or 0.3% and 0.9% ethanol, and these groups were represented as a single bar * p
    Figure Legend Snippet: Melatonin inhibits mitochondrial NADH dehydrogenase 1 gene expression but does not affect mitochondrial DNA (mtDNA) replication—Cultured U87MG cells were incubated with melatonin (1 mM or 3 mM) for 72 h, and the medium was exchanged every 24 h. The relative expression of the NADH dehydrogenase 1 gene ( A ) and mtDNA copy number ( B ) were determined by qRT-PCR, using mitochondrial RNA and DNA as a template, respectively. The data are expressed as the relative quantification (2 −ΔΔCt ) compared to the vehicle-treated groups (ethanol 0.3% or 0.9%). Gene expression did not differ in cells treated with vehicle or 0.3% and 0.9% ethanol, and these groups were represented as a single bar * p

    Techniques Used: Expressing, Cell Culture, Incubation, Quantitative RT-PCR

    18) Product Images from "Resolving mechanisms of immune-mediated disease in primary CD4 T cells"

    Article Title: Resolving mechanisms of immune-mediated disease in primary CD4 T cells

    Journal: bioRxiv

    doi: 10.1101/2020.01.16.908988

    MPRA in CD4 T cells identifies an expression-modulating variant that disrupts NF-κB binding and enhancer function a IBD GWAS results 62 at a multi-disease-associated locus on chromosome 6q23. b Fine-mapping results 3 (posterior probabilities) for candidate SNPs at this locus. c A single variant (rs6927172) has the largest and most significant expression-modulating activity in resting (left panel) and stimulated CD4 T cells (right panel) with the risk allele reducing transcription. Plots represent median and IQR (box) and min-to-max (whiskers). FDR-corrected meta-analysis P value shown. d Sequence logo for an experimentally-validated NF-κB binding motif. The genomic sequence around rs6927172 is aligned below. e Allele-specific NF-κB binding in CD4 T cells from rs6927172 heterozygotes, demonstrating reduced NF-κB binding to the risk allele following stimulation (n=8; one-sample t -test, two-tailed). f Allele-specific expression of enhancer RNA in heterozygous CD4 T cells. DNA represents technical control (n=6; paired t -test; two-tailed). g Genome-wide H3K27ac ChIP-seq in stimulated CD4 T cells from major- and minor-allele homozygotes at rs6927172 (n=6). Upper panels show input-normalised H3K27ac signals (generated by ROSE 46 ) plotted against enhancer rank. Super-enhancers are conventionally defined above the inflection point of the curve. Lower panels show H3K27ac reads from a major-(left) and a minor (risk) allele homozygote (right) in a 9kb window around rs6927172. h Promoter-capture Hi-C overview plot depicting interactions of the 6q23 super-enhancer. Data from ref 33. i Expression of genes on 6q23 in CD4 T cells from 131 patients with active IBD, stratified by rs6927172 genotype (qPCR; one-way ANOVA). Error bars represent SD. IL20RA and IL22RAR2 expression was not detected. Data represent mean+/-SEM, unless indicated. * P
    Figure Legend Snippet: MPRA in CD4 T cells identifies an expression-modulating variant that disrupts NF-κB binding and enhancer function a IBD GWAS results 62 at a multi-disease-associated locus on chromosome 6q23. b Fine-mapping results 3 (posterior probabilities) for candidate SNPs at this locus. c A single variant (rs6927172) has the largest and most significant expression-modulating activity in resting (left panel) and stimulated CD4 T cells (right panel) with the risk allele reducing transcription. Plots represent median and IQR (box) and min-to-max (whiskers). FDR-corrected meta-analysis P value shown. d Sequence logo for an experimentally-validated NF-κB binding motif. The genomic sequence around rs6927172 is aligned below. e Allele-specific NF-κB binding in CD4 T cells from rs6927172 heterozygotes, demonstrating reduced NF-κB binding to the risk allele following stimulation (n=8; one-sample t -test, two-tailed). f Allele-specific expression of enhancer RNA in heterozygous CD4 T cells. DNA represents technical control (n=6; paired t -test; two-tailed). g Genome-wide H3K27ac ChIP-seq in stimulated CD4 T cells from major- and minor-allele homozygotes at rs6927172 (n=6). Upper panels show input-normalised H3K27ac signals (generated by ROSE 46 ) plotted against enhancer rank. Super-enhancers are conventionally defined above the inflection point of the curve. Lower panels show H3K27ac reads from a major-(left) and a minor (risk) allele homozygote (right) in a 9kb window around rs6927172. h Promoter-capture Hi-C overview plot depicting interactions of the 6q23 super-enhancer. Data from ref 33. i Expression of genes on 6q23 in CD4 T cells from 131 patients with active IBD, stratified by rs6927172 genotype (qPCR; one-way ANOVA). Error bars represent SD. IL20RA and IL22RAR2 expression was not detected. Data represent mean+/-SEM, unless indicated. * P

    Techniques Used: Expressing, Variant Assay, Binding Assay, GWAS, Activity Assay, Sequencing, Two Tailed Test, Genome Wide, Chromatin Immunoprecipitation, Generated, Hi-C, Real-time Polymerase Chain Reaction

    19) Product Images from "Follicular Helper T Cells Are Major Human Immunodeficiency Virus-2 Reservoirs and Support Productive Infection"

    Article Title: Follicular Helper T Cells Are Major Human Immunodeficiency Virus-2 Reservoirs and Support Productive Infection

    Journal: The Journal of Infectious Diseases

    doi: 10.1093/infdis/jiz431

    In vitro infection of tonsillar follicular helper T cells (Tfh) by human immunodeficiency virus (HIV)-2. (A) Illustrative dot plots of the sorting strategy, based on CXCR5, PD-1, and ICOS expression, used to isolate Tfh from human tonsillar mononuclear cells enriched for CD4 T cells by magnetic isolation. (B) Total HIV deoxyribonucleic acid (DNA) and (C) gag messenger ribonucleic acid (mRNA) quantified after 24-hour infection with R5- or X4-tropic HIV-2 or HIV-1 primary isolates. (D) Correlation of total HIV DNA and viral gag mRNA levels. (E) Comparison of total viral DNA at 24 hours postinfection and after 48-hour T-cell receptor (TCR)-mediated stimulation with α-CD3i/α-CD28s. (F) Infectivity of culture supernatants harvested after 48-hour TCR stimulation of HIV-infected Tfh assessed using a TZM-bl reporter cell line and chlorophenolred-β- d -galactopyranoside colorimetric assay (CPRG). Each dot represents 1 independent experiment, and each color refers to a different tonsil donor. * P
    Figure Legend Snippet: In vitro infection of tonsillar follicular helper T cells (Tfh) by human immunodeficiency virus (HIV)-2. (A) Illustrative dot plots of the sorting strategy, based on CXCR5, PD-1, and ICOS expression, used to isolate Tfh from human tonsillar mononuclear cells enriched for CD4 T cells by magnetic isolation. (B) Total HIV deoxyribonucleic acid (DNA) and (C) gag messenger ribonucleic acid (mRNA) quantified after 24-hour infection with R5- or X4-tropic HIV-2 or HIV-1 primary isolates. (D) Correlation of total HIV DNA and viral gag mRNA levels. (E) Comparison of total viral DNA at 24 hours postinfection and after 48-hour T-cell receptor (TCR)-mediated stimulation with α-CD3i/α-CD28s. (F) Infectivity of culture supernatants harvested after 48-hour TCR stimulation of HIV-infected Tfh assessed using a TZM-bl reporter cell line and chlorophenolred-β- d -galactopyranoside colorimetric assay (CPRG). Each dot represents 1 independent experiment, and each color refers to a different tonsil donor. * P

    Techniques Used: In Vitro, Infection, Expressing, Isolation, Colorimetric Assay

    20) Product Images from "Preeclampsia-Associated Alteration of DNA Methylation in Fetal Endothelial Progenitor Cells"

    Article Title: Preeclampsia-Associated Alteration of DNA Methylation in Fetal Endothelial Progenitor Cells

    Journal: Frontiers in Cell and Developmental Biology

    doi: 10.3389/fcell.2019.00032

    STRING analysis of protein-protein interaction networks in panel (A) Passage 5, and panel (B) Passage 3 ECFCs, respectively. In both analyses, three clusters of interacting proteins were identified that were related to proteasomal function, pre-mRNA splicing, and DNA-dependent RNA transcription (from left to right).
    Figure Legend Snippet: STRING analysis of protein-protein interaction networks in panel (A) Passage 5, and panel (B) Passage 3 ECFCs, respectively. In both analyses, three clusters of interacting proteins were identified that were related to proteasomal function, pre-mRNA splicing, and DNA-dependent RNA transcription (from left to right).

    Techniques Used:

    Related Articles

    Real-time Polymerase Chain Reaction:

    Article Title: Selective Nucleic Acid Removal via Exclusion (SNARE): Capturing mRNA and DNA from a single sample
    Article Snippet: .. In summary, SNARE was shown to isolate as much or more mRNA and DNA from 1–10 cells as compared to the Qiagen Allprep DNA/RNA micro kit as demonstrated by qPCR. .. We also demonstrated the mRNA and DNA extracted from a low number of cells could be used as template for Sanger sequencing.

    Article Title: Bombesin-like receptor 3 (Brs3) expression in glutamatergic, but not GABAergic, neurons is required for regulation of energy metabolism
    Article Snippet: .. Quantitative PCR and RT-PCR : Tissue DNA and RNA were extracted (Qiagen Allprep DNA/RNA micro Kit, Germantown, MD). .. RNA was reverse transcribed (Roche Transcriptor High Fidelity cDNA Synthesis Kit, Indianapolis, IN).

    Isolation:

    Article Title: Clonotypic heterogeneity in cutaneous T-cell lymphoma (mycosis fungoides) revealed by comprehensive whole-exome sequencing
    Article Snippet: .. The microdissected tumor cell clusters were pooled together, collected in RLT buffer (catalog number 79216), and used for simultaneous DNA/RNA isolation using an AllPrep DNA/RNA Micro Kit (catalog number 80284; both from QIAGEN, Hilden, Germany). .. Isolated DNA was preamplified using a REPLI-g Single Cell Kit (catalog number 150343; QIAGEN).

    Article Title: Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies
    Article Snippet: .. Thus even though total yields of RNA provided by AllPrep DNA/RNA Micro Kit and RNeasy Micro Kit (Qiagen) were more or less comparable, the AllPrep DNA/RNA Micro Kit had an advantage of parallel isolation of both DNA and RNA from one sample and could better exploit a sample with a low number of cells. .. Despite the DNA amount being almost constant for all human cell types, transcribed RNA is highly dependent on cell type and its transcriptional activity.

    Reverse Transcription Polymerase Chain Reaction:

    Article Title: Bombesin-like receptor 3 (Brs3) expression in glutamatergic, but not GABAergic, neurons is required for regulation of energy metabolism
    Article Snippet: .. Quantitative PCR and RT-PCR : Tissue DNA and RNA were extracted (Qiagen Allprep DNA/RNA micro Kit, Germantown, MD). .. RNA was reverse transcribed (Roche Transcriptor High Fidelity cDNA Synthesis Kit, Indianapolis, IN).

    Quantitative RT-PCR:

    Article Title: Engrailed homeoprotein blocks degeneration in adult dopaminergic neurons through LINE‐1 repression
    Article Snippet: .. Total RNA from laser microdissected tissue was extracted using the AllPrep DNA/RNA Micro Kit (Qiagen) followed by DNase I digestion using the RNeasy MinElute Cleanup protocol for on‐column DNase I treatment, followed by RT–qPCR. .. Total RNA from SNpc biopsies was extracted using the RNeasy Lipid Tissue kit (Qiagen) followed by DNase I (Thermo) digestion.

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  • 99
    Qiagen allprep dna rna mirna universal kit protocol
    Comparison of <t>DNA/RNA</t> yields and RNA quality (inset). (A) Comparison between the <t>AllPrep</t> standard protocol (APS; described below figure), enzymatic lysis (Enz), enzymatic/bead beating (Bead), and Mirvana extraction protocols (Mirvana). (B) Comparison between different iterations of the AP protocol, examining the effect of preservation method {P}, lysis conditions {L}, and other extraction modification steps {E}. The data presents changes in yield relative to a control, where each column shows the effect of one factor relative to a control that differed in that factor only. The control was extracted using either the AP standard protocol or a modification as indicated by the X-axis labels below the horizontal lines. The factor that was changed is indicated just below the data column. The dotted line indicates no change relative to control. All data represent averages of three extractions, with error bars indicating the 95% confidence interval, except for the effect of lysozyme, which averaged the relative yield effects from multiple samples (from DL, LH, and HR samples, three replicate extractions each). Inset: RIN = RNA integrity number quality (0 (poor)- 10 (high) range) assessment by Bioanalyzer; NT = no preservation treatment.
    Allprep Dna Rna Mirna Universal Kit Protocol, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Qiagen allprep dna rna micro kit
    <t>DNA</t> isolation. Comparison of two parallel <t>DNA/RNA</t> kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.
    Allprep Dna Rna Micro Kit, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 135 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/allprep dna rna micro kit/product/Qiagen
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    Comparison of DNA/RNA yields and RNA quality (inset). (A) Comparison between the AllPrep standard protocol (APS; described below figure), enzymatic lysis (Enz), enzymatic/bead beating (Bead), and Mirvana extraction protocols (Mirvana). (B) Comparison between different iterations of the AP protocol, examining the effect of preservation method {P}, lysis conditions {L}, and other extraction modification steps {E}. The data presents changes in yield relative to a control, where each column shows the effect of one factor relative to a control that differed in that factor only. The control was extracted using either the AP standard protocol or a modification as indicated by the X-axis labels below the horizontal lines. The factor that was changed is indicated just below the data column. The dotted line indicates no change relative to control. All data represent averages of three extractions, with error bars indicating the 95% confidence interval, except for the effect of lysozyme, which averaged the relative yield effects from multiple samples (from DL, LH, and HR samples, three replicate extractions each). Inset: RIN = RNA integrity number quality (0 (poor)- 10 (high) range) assessment by Bioanalyzer; NT = no preservation treatment.

    Journal: PLoS ONE

    Article Title: RNA Preservation Agents and Nucleic Acid Extraction Method Bias Perceived Bacterial Community Composition

    doi: 10.1371/journal.pone.0121659

    Figure Lengend Snippet: Comparison of DNA/RNA yields and RNA quality (inset). (A) Comparison between the AllPrep standard protocol (APS; described below figure), enzymatic lysis (Enz), enzymatic/bead beating (Bead), and Mirvana extraction protocols (Mirvana). (B) Comparison between different iterations of the AP protocol, examining the effect of preservation method {P}, lysis conditions {L}, and other extraction modification steps {E}. The data presents changes in yield relative to a control, where each column shows the effect of one factor relative to a control that differed in that factor only. The control was extracted using either the AP standard protocol or a modification as indicated by the X-axis labels below the horizontal lines. The factor that was changed is indicated just below the data column. The dotted line indicates no change relative to control. All data represent averages of three extractions, with error bars indicating the 95% confidence interval, except for the effect of lysozyme, which averaged the relative yield effects from multiple samples (from DL, LH, and HR samples, three replicate extractions each). Inset: RIN = RNA integrity number quality (0 (poor)- 10 (high) range) assessment by Bioanalyzer; NT = no preservation treatment.

    Article Snippet: The combined extraction method was based on the AllPrep DNA/RNA/miRNA Universal kit protocol (Qiagen).

    Techniques: Lysis, Preserving, Modification

    Schematic representation of DNA procedure from LBC samples. Left side : manual procedure; middle : outline procedure; right side : automated procedure. RT = room temperature; EB = elution buffer; AW1 and AW2 = buffer concentrate provided from AllPrep DNA/RNA/miRNA Universal Kit. LBC, liquid-based cytology.

    Journal: Biopreservation and Biobanking

    Article Title: Comparison of Automated and Manual DNA Isolation Methods of Liquid-Based Cytology Samples

    doi: 10.1089/bio.2018.0148

    Figure Lengend Snippet: Schematic representation of DNA procedure from LBC samples. Left side : manual procedure; middle : outline procedure; right side : automated procedure. RT = room temperature; EB = elution buffer; AW1 and AW2 = buffer concentrate provided from AllPrep DNA/RNA/miRNA Universal Kit. LBC, liquid-based cytology.

    Article Snippet: Each sample was extracted by either a manual or an automated (Qiacube™; Qiagen, Germantown, MD) method available at the time, following in both cases the protocol of AllPrep DNA/RNA/microRNA Universal Kit™ (Qiagen) as indicated in , using 600 μL of homogenized lysate as a starting material.

    Techniques:

    DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.

    Journal: Journal of Clinical Pathology

    Article Title: Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies

    doi: 10.1136/jclinpath-2017-204329

    Figure Lengend Snippet: DNA isolation. Comparison of two parallel DNA/RNA kits and one DNA isolation kit. Mean values were obtained from duplicates of aliquots of 1, 10, 20, 50, 100, 150 and 200×10 3 cells sorted by fluorescence activated cell sorting using forward scatter and side scatter.

    Article Snippet: Thus even though total yields of RNA provided by AllPrep DNA/RNA Micro Kit and RNeasy Micro Kit (Qiagen) were more or less comparable, the AllPrep DNA/RNA Micro Kit had an advantage of parallel isolation of both DNA and RNA from one sample and could better exploit a sample with a low number of cells.

    Techniques: DNA Extraction, Fluorescence, FACS

    RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.

    Journal: Journal of Clinical Pathology

    Article Title: Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies

    doi: 10.1136/jclinpath-2017-204329

    Figure Lengend Snippet: RNA isolation from the multiple myeloma cell line RPMI 8226 using the AllPrep DNA/RNA Micro Kit. Whiskers show SD of the mean values from samples performed in triplicate.

    Article Snippet: Thus even though total yields of RNA provided by AllPrep DNA/RNA Micro Kit and RNeasy Micro Kit (Qiagen) were more or less comparable, the AllPrep DNA/RNA Micro Kit had an advantage of parallel isolation of both DNA and RNA from one sample and could better exploit a sample with a low number of cells.

    Techniques: Isolation

    Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.

    Journal: Journal of Clinical Pathology

    Article Title: Biobanking strategy and sample preprocessing for integrative research in monoclonal gammopathies

    doi: 10.1136/jclinpath-2017-204329

    Figure Lengend Snippet: Diagram of preprocessing of samples with small amounts of input material. For a typical number of aberrant cells in various monoclonal gammopathies (MGs), we suggest nucleic acid isolation strategies and expected yield and suitability for downstream applications. For the isolation of nucleic acids with ≤10 5 cells, the most efficient isolation kit was the AllPrep DNA/RNA Micro Kit. For less starting material or for improved DNA yield for next generation sequencing (NGS), amplification by REPLI-g Single Cell of REPLI-g Mini Kit is recommended. aDNA, amplified genomic DNA; ALA, light chain amyloidosis; CGH, comparative genomic hybridisation; MGUS, monoclonal gammopathy of undetermined significance; MM, multiple myeloma; MRD, minimal residual disease; PCL, plasma cell leukaemia.

    Article Snippet: Thus even though total yields of RNA provided by AllPrep DNA/RNA Micro Kit and RNeasy Micro Kit (Qiagen) were more or less comparable, the AllPrep DNA/RNA Micro Kit had an advantage of parallel isolation of both DNA and RNA from one sample and could better exploit a sample with a low number of cells.

    Techniques: Isolation, Next-Generation Sequencing, Amplification, Hybridization

    Stavudine and si RNA against Orf2 protect in vivo against oxidative stress‐induced DNA damage and cell death

    Journal: The EMBO Journal

    Article Title: Engrailed homeoprotein blocks degeneration in adult dopaminergic neurons through LINE‐1 repression

    doi: 10.15252/embj.201797374

    Figure Lengend Snippet: Stavudine and si RNA against Orf2 protect in vivo against oxidative stress‐induced DNA damage and cell death

    Article Snippet: Total RNA from laser microdissected tissue was extracted using the AllPrep DNA/RNA Micro Kit (Qiagen) followed by DNase I digestion using the RNeasy MinElute Cleanup protocol for on‐column DNase I treatment, followed by RT–qPCR.

    Techniques: