oligo  (New England Biolabs)


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    Name:
    Oligo dT25 Magnetic Beads
    Description:
    Oligo dT25 Magnetic Beads 5 ml
    Catalog Number:
    s1419s
    Price:
    292
    Size:
    5 ml
    Category:
    RNA Purification Kit Components
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    Structured Review

    New England Biolabs oligo
    Oligo dT25 Magnetic Beads
    Oligo dT25 Magnetic Beads 5 ml
    https://www.bioz.com/result/oligo/product/New England Biolabs
    Average 95 stars, based on 14 article reviews
    Price from $9.99 to $1999.99
    oligo - by Bioz Stars, 2020-02
    95/100 stars

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    Related Articles

    Amplification:

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: .. 10 μg of total RNA from each sample used for library preparation after poly(A)-containing mRNA molecule purification (NEB, #S1419S), RNA amplification, double-strand cDNA synthesis, and adaptor ligation (NEB, #E7645S). .. For the small RNA sequencing, 10 μg enriched small RNA were separated on a 15% denaturing polyacrylamide gel and 18- to 30-nt RNAs were purified according to RNA oligo markers.

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Libraries were then amplified by PCR (Phusion Hot Start II, ThermoFisher Scientific, #F549L) and purified (Zymo #D5205) for high-throughput sequencing.

    Synthesized:

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: .. For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L) .. For ChIP-seq experiments, a cross-linking step with paraformaldehyde was performed immediately after staining but before microglia sorting.

    Blocking Assay:

    Article Title: RNA exploits an exposed regulatory site to inhibit the enzymatic activity of PRC2
    Article Snippet: The 24-well plate was then placed onto an aluminium block within a container of ice and was irradiated by UV (254 nm, 6 rounds of 0.83 J/cm2 each) in a UVP CL-1000 Ultraviolet Crosslinker (Scientifix #CL-1000) with the top of the 24-well plate at a distance of ~10 cm below five 8-watt tube lamps. .. The remaining sample was applied to 1 mL of oligo d(T)25 magnetic beads (NEB #S1419S) that were pre-washed with- and pre-incubated in 1X RNA-binding buffer for 10 min at 25 °C with gentle agitation.

    Real-time Polymerase Chain Reaction:

    Article Title: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3′ mRNA profiling
    Article Snippet: Following lysis, mRNA from lysates were isolated using magnetic oligo-dt beads (NEB, S1419S) following manufacturer's instructions. mRNA was quantified using NanoDrop 2000 spectrophotometer. .. For qPCR, 10 ng of mRNA was used as input for all conditions and reactions were run on CFX Connect Real-Time PCR machine (Biorad) using SsoFast EvaGreen PCR supermix (Biorad) following manufacturer's instructions.

    Incubation:

    Article Title: RNA exploits an exposed regulatory site to inhibit the enzymatic activity of PRC2
    Article Snippet: Digestion of the crosslinked ribonucleoprotein complexes by ArgC (Promega #V1881) and LysC (NEB #P8109S) was then performed by adding 5 μL of 100 ng/μL ArgC or LysC stock solution to the appropriate samples, after which the samples were incubated at room temperature overnight. .. The remaining sample was applied to 1 mL of oligo d(T)25 magnetic beads (NEB #S1419S) that were pre-washed with- and pre-incubated in 1X RNA-binding buffer for 10 min at 25 °C with gentle agitation.

    Article Title: Pervasive and dynamic protein binding sites of the mRNA transcriptome in Saccharomyces cerevisiae
    Article Snippet: .. Chemical biotinylation and polyA selection Sixty microliters of freshly prepared 10 mM EZ-Link NHS-SS-Biotin (Pierce 21441; Rockford, IL, USA) dissolved in dimethylformamide was added to the recovered lysate and incubated on a Nutator for 2 h at 4°C; 50 µl of 5 M NaCl was added to increase the total salt concentration to 0.5 M. Biotinylated lysate was mixed with 1 mg of oligo(dT)25 magnetic beads (NEB S1419S; Ipswich, MA, USA), then incubated on a Nutator for 30 minutes at 4°C. .. The beads were washed four times with ice-cold hybridization buffer (10 mM HEPES pH 7.5, 0.5 M NaCl, 1 mM EDTA) and the RNAs were eluted by incubating beads with 500 µl of elution buffer (10 mM HEPES pH 7.5, 1 mM EDTA) and heating at 65°C for 3 minutes.

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: .. For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L) .. For ChIP-seq experiments, a cross-linking step with paraformaldehyde was performed immediately after staining but before microglia sorting.

    Article Title: Diverse motif ensembles specify non-redundant DNA binding activities of AP-1 family members in macrophages
    Article Snippet: Collect 10 μL oligo (dT) (NEB cat# S1419S) beads per RNA sample. .. 50 μL of beads were mixed with 50 μL RNA and heated to 65 °C for 2 min. RNA-beads were then incubated for 10 min at RT while rotating.

    Article Title: High throughput characterizations of poly(A) site choice in plants
    Article Snippet: After this time, 3 μL of 0.5M EDTA, pH 8.0 is added, the sample incubated at room temperature for 5 min, and the RNA purified using QIAquick RNA isolation columns and reagents. .. The fragmented RNA is poly(A)-enriched using oligo-dT magnetic beads (New England Biolabs, #S1419S) following the manufacturer’s recommendations.

    Article Title: Capturing the interactome of newly transcribed RNA
    Article Snippet: 100 μl oligo(dT) beads (New England Biolabs, cat# S1419) were washed twice using lysis buffer and added to the cell lysate to incubate for 1 h at 4 °C. .. After that, the supernatants were incubated with Dynabeads MyOne Streptavidin C1 beads and then processed for RICK isolation.

    Expressing:

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: 10 μg of total RNA from each sample used for library preparation after poly(A)-containing mRNA molecule purification (NEB, #S1419S), RNA amplification, double-strand cDNA synthesis, and adaptor ligation (NEB, #E7645S). .. For CDS gene expression analysis, all the sequencing reads were mapped to the D.mel genome (BDGP6) using STAR program (options: --outFilterMultimapNmax 20 --alignIntronMin 20 --alignIntronMax 500000).

    RNA Binding Assay:

    Article Title: RNA exploits an exposed regulatory site to inhibit the enzymatic activity of PRC2
    Article Snippet: .. The remaining sample was applied to 1 mL of oligo d(T)25 magnetic beads (NEB #S1419S) that were pre-washed with- and pre-incubated in 1X RNA-binding buffer for 10 min at 25 °C with gentle agitation. ..

    Hybridization:

    Article Title: Pervasive and dynamic protein binding sites of the mRNA transcriptome in Saccharomyces cerevisiae
    Article Snippet: Chemical biotinylation and polyA selection Sixty microliters of freshly prepared 10 mM EZ-Link NHS-SS-Biotin (Pierce 21441; Rockford, IL, USA) dissolved in dimethylformamide was added to the recovered lysate and incubated on a Nutator for 2 h at 4°C; 50 µl of 5 M NaCl was added to increase the total salt concentration to 0.5 M. Biotinylated lysate was mixed with 1 mg of oligo(dT)25 magnetic beads (NEB S1419S; Ipswich, MA, USA), then incubated on a Nutator for 30 minutes at 4°C. .. The beads were washed four times with ice-cold hybridization buffer (10 mM HEPES pH 7.5, 0.5 M NaCl, 1 mM EDTA) and the RNAs were eluted by incubating beads with 500 µl of elution buffer (10 mM HEPES pH 7.5, 1 mM EDTA) and heating at 65°C for 3 minutes.

    Ligation:

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: .. 10 μg of total RNA from each sample used for library preparation after poly(A)-containing mRNA molecule purification (NEB, #S1419S), RNA amplification, double-strand cDNA synthesis, and adaptor ligation (NEB, #E7645S). .. For the small RNA sequencing, 10 μg enriched small RNA were separated on a 15% denaturing polyacrylamide gel and 18- to 30-nt RNAs were purified according to RNA oligo markers.

    Protease Inhibitor:

    Article Title: Capturing the interactome of newly transcribed RNA
    Article Snippet: Cells (5 × 10 cm plates) were harvested by scraping and lysed in lysis buffer (100 mM Tris–HCl, pH 7.5, 500 mM LiCl, 10 mM EDTA pH 8.0, 1% LiDS, 5 mM DTT, and protease inhibitor cocktail) after click reaction, as described above. .. 100 μl oligo(dT) beads (New England Biolabs, cat# S1419) were washed twice using lysis buffer and added to the cell lysate to incubate for 1 h at 4 °C.

    Cell Culture:

    Article Title: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3′ mRNA profiling
    Article Snippet: NIH3T3 mouse fibroblasts (ATCC) were cultured in DMEM media containing 10% bovine calf serum, 4 mM l -glutamine and 100 units/ml penicillin G sodium and 100 μg/ml streptomycin sulfate. .. Following lysis, mRNA from lysates were isolated using magnetic oligo-dt beads (NEB, S1419S) following manufacturer's instructions. mRNA was quantified using NanoDrop 2000 spectrophotometer.

    Sequencing:

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: 10 μg of total RNA from each sample used for library preparation after poly(A)-containing mRNA molecule purification (NEB, #S1419S), RNA amplification, double-strand cDNA synthesis, and adaptor ligation (NEB, #E7645S). .. All the libraries were prepared by following the manufacturer’s instructions and subsequent sequencing on the Illumina GAII instrument (Vazyme, NR801).

    Article Title: High throughput characterizations of poly(A) site choice in plants
    Article Snippet: An alternative to the use of restriction enzymes to truncate cDNAs prior to adapting and sequencing is to fragment purified RNA prior to reverse transcription. .. The fragmented RNA is poly(A)-enriched using oligo-dT magnetic beads (New England Biolabs, #S1419S) following the manufacturer’s recommendations.

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Libraries were then amplified by PCR (Phusion Hot Start II, ThermoFisher Scientific, #F549L) and purified (Zymo #D5205) for high-throughput sequencing.

    Binding Assay:

    Article Title: UV crosslinked mRNA-binding proteins captured from leaf mesophyll protoplasts
    Article Snippet: 1.8 mL oligo-d(T)25 magnetic beads stock (5 mg/mL, New England BioLabs, cat no. S1419S) was aliquoted into 6 round bottom microcentrifuge tubes (2 mL, SARSTEDT) on ice. .. The oligo-d(T)25 bead capture involves the following three steps: In the binding step, tubes were first put into a magnetic rack at 4 °C for 3 min resulting in magnetic capture of the beads and clearing of the suspension.

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: .. For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L) .. For ChIP-seq experiments, a cross-linking step with paraformaldehyde was performed immediately after staining but before microglia sorting.

    Article Title: RNA interactome capture in yeast
    Article Snippet: 2.1.5 RNA interactome capture Oligo d(T) beads (NEB S1419) were pre-equilibrated with lysis buffer: we washed 1 ml of beads 3 times with 1 ml of lysis buffer using a magnet to remove the supernatant. .. Binding of the beads to RNA was then performed in an overhead rotating device in the cold for 1 h using a rotation of 20 rpm.

    RNA Sequencing Assay:

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: Paragraph title: RNA-seq library preparation: Isolation and fragmentation of poly(A) RNA and synthesis of cDNA ... For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L)

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: Paragraph title: RNA sequencing and computational analysis ... 10 μg of total RNA from each sample used for library preparation after poly(A)-containing mRNA molecule purification (NEB, #S1419S), RNA amplification, double-strand cDNA synthesis, and adaptor ligation (NEB, #E7645S).

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: .. RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Selected RNA was fragmented, followed by single strand cDNA synthesis using a SuperScript III First-Strand Synthesis System (ThermoFisher Scientific # 18080051), followed by second strand synthesis using DNA Polymerase I (Qiagen/Enzymatics, Beverly, MA, #P7050L). dsDNA ends were repaired with T4 DNA Polymerase (Enzymatics #P7080L).

    Article Title: Promoter-proximal pausing mediated by the exon junction complex regulates splicing
    Article Snippet: Paragraph title: RNA extraction and RNA-seq ... The purified RNA was subjected to oligodT (NEB, Cat No-S1419S) selection to isolate mRNA.

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: 6) In subsection “RNA sequencing and computational analysis”, please indicate the manufacture and kits used to generate the small RNA- and RNA-seq libraries. .. We used Oligo d(T)25 magnetic beads (NEB, #S1419S) to purify mRNA and NEBNext ultra DNA library prep kits for Illumina (NEB, #E7645S) to generate the library.

    Magnetic Beads:

    Article Title: RNA exploits an exposed regulatory site to inhibit the enzymatic activity of PRC2
    Article Snippet: .. The remaining sample was applied to 1 mL of oligo d(T)25 magnetic beads (NEB #S1419S) that were pre-washed with- and pre-incubated in 1X RNA-binding buffer for 10 min at 25 °C with gentle agitation. ..

    Article Title: UV crosslinked mRNA-binding proteins captured from leaf mesophyll protoplasts
    Article Snippet: .. 1.8 mL oligo-d(T)25 magnetic beads stock (5 mg/mL, New England BioLabs, cat no. S1419S) was aliquoted into 6 round bottom microcentrifuge tubes (2 mL, SARSTEDT) on ice. .. In each tube, the beads suspension was mixed with 600 μL lysis/binding buffer using rotation at 4 °C for 2 min.

    Article Title: Pervasive and dynamic protein binding sites of the mRNA transcriptome in Saccharomyces cerevisiae
    Article Snippet: .. Chemical biotinylation and polyA selection Sixty microliters of freshly prepared 10 mM EZ-Link NHS-SS-Biotin (Pierce 21441; Rockford, IL, USA) dissolved in dimethylformamide was added to the recovered lysate and incubated on a Nutator for 2 h at 4°C; 50 µl of 5 M NaCl was added to increase the total salt concentration to 0.5 M. Biotinylated lysate was mixed with 1 mg of oligo(dT)25 magnetic beads (NEB S1419S; Ipswich, MA, USA), then incubated on a Nutator for 30 minutes at 4°C. .. The beads were washed four times with ice-cold hybridization buffer (10 mM HEPES pH 7.5, 0.5 M NaCl, 1 mM EDTA) and the RNAs were eluted by incubating beads with 500 µl of elution buffer (10 mM HEPES pH 7.5, 1 mM EDTA) and heating at 65°C for 3 minutes.

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: .. For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L) .. For ChIP-seq experiments, a cross-linking step with paraformaldehyde was performed immediately after staining but before microglia sorting.

    Article Title: High throughput characterizations of poly(A) site choice in plants
    Article Snippet: .. The fragmented RNA is poly(A)-enriched using oligo-dT magnetic beads (New England Biolabs, #S1419S) following the manufacturer’s recommendations. ..

    Article Title: Evolution of the RNA N6-Methyladenosine Methylome Mediated by Genomic Duplication
    Article Snippet: .. Polyadenylated (PolyA+) mRNA selection was performed using oligo(dT)25 magnetic beads (code no. S1419S; New England Biolabs) following the manufacturer’s protocol. .. mRNA was randomly fragmented into ∼200-nucleotide-long fragments by RNA Fragmentation Reagents (Ambion).

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: .. We used Oligo d(T)25 magnetic beads (NEB, #S1419S) to purify mRNA and NEBNext ultra DNA library prep kits for Illumina (NEB, #E7645S) to generate the library. .. For small RNA library, we used a VAHTS small RNA library prep kit for Illumina (Vazyme, NR801).

    Isolation:

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: Paragraph title: RNA-seq library preparation: Isolation and fragmentation of poly(A) RNA and synthesis of cDNA ... For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L)

    Article Title: Diverse motif ensembles specify non-redundant DNA binding activities of AP-1 family members in macrophages
    Article Snippet: Paragraph title: PolyA RNA isolation and fragmentation ... Collect 10 μL oligo (dT) (NEB cat# S1419S) beads per RNA sample.

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: RNA sequencing and computational analysis Total RNA from ovaries was isolated using TRIzol reagent (TaKaRa). .. 10 μg of total RNA from each sample used for library preparation after poly(A)-containing mRNA molecule purification (NEB, #S1419S), RNA amplification, double-strand cDNA synthesis, and adaptor ligation (NEB, #E7645S).

    Article Title: High throughput characterizations of poly(A) site choice in plants
    Article Snippet: After this time, 3 μL of 0.5M EDTA, pH 8.0 is added, the sample incubated at room temperature for 5 min, and the RNA purified using QIAquick RNA isolation columns and reagents. .. The fragmented RNA is poly(A)-enriched using oligo-dT magnetic beads (New England Biolabs, #S1419S) following the manufacturer’s recommendations.

    Article Title: Evolution of the RNA N6-Methyladenosine Methylome Mediated by Genomic Duplication
    Article Snippet: Paragraph title: RNA Isolation and PolyA+ mRNA Selection ... Polyadenylated (PolyA+) mRNA selection was performed using oligo(dT)25 magnetic beads (code no. S1419S; New England Biolabs) following the manufacturer’s protocol.

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: .. RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Selected RNA was fragmented, followed by single strand cDNA synthesis using a SuperScript III First-Strand Synthesis System (ThermoFisher Scientific # 18080051), followed by second strand synthesis using DNA Polymerase I (Qiagen/Enzymatics, Beverly, MA, #P7050L). dsDNA ends were repaired with T4 DNA Polymerase (Enzymatics #P7080L).

    Article Title: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3′ mRNA profiling
    Article Snippet: .. Following lysis, mRNA from lysates were isolated using magnetic oligo-dt beads (NEB, S1419S) following manufacturer's instructions. mRNA was quantified using NanoDrop 2000 spectrophotometer. .. For qPCR, 10 ng of mRNA was used as input for all conditions and reactions were run on CFX Connect Real-Time PCR machine (Biorad) using SsoFast EvaGreen PCR supermix (Biorad) following manufacturer's instructions.

    Article Title: Capturing the interactome of newly transcribed RNA
    Article Snippet: 100 μl oligo(dT) beads (New England Biolabs, cat# S1419) were washed twice using lysis buffer and added to the cell lysate to incubate for 1 h at 4 °C. .. After that, the supernatants were incubated with Dynabeads MyOne Streptavidin C1 beads and then processed for RICK isolation.

    Purification:

    Article Title: UV crosslinked mRNA-binding proteins captured from leaf mesophyll protoplasts
    Article Snippet: Paragraph title: mRNP pull-down and purification by oligo-d(T)25 beads ... 1.8 mL oligo-d(T)25 magnetic beads stock (5 mg/mL, New England BioLabs, cat no. S1419S) was aliquoted into 6 round bottom microcentrifuge tubes (2 mL, SARSTEDT) on ice.

    Article Title: Ovaries absent links dLsd1 to HP1a for local H3K4 demethylation required for heterochromatic gene silencing
    Article Snippet: .. 10 μg of total RNA from each sample used for library preparation after poly(A)-containing mRNA molecule purification (NEB, #S1419S), RNA amplification, double-strand cDNA synthesis, and adaptor ligation (NEB, #E7645S). .. For the small RNA sequencing, 10 μg enriched small RNA were separated on a 15% denaturing polyacrylamide gel and 18- to 30-nt RNAs were purified according to RNA oligo markers.

    Article Title: High throughput characterizations of poly(A) site choice in plants
    Article Snippet: After this time, 3 μL of 0.5M EDTA, pH 8.0 is added, the sample incubated at room temperature for 5 min, and the RNA purified using QIAquick RNA isolation columns and reagents. .. The fragmented RNA is poly(A)-enriched using oligo-dT magnetic beads (New England Biolabs, #S1419S) following the manufacturer’s recommendations.

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Libraries were then amplified by PCR (Phusion Hot Start II, ThermoFisher Scientific, #F549L) and purified (Zymo #D5205) for high-throughput sequencing.

    Article Title: Promoter-proximal pausing mediated by the exon junction complex regulates splicing
    Article Snippet: .. The purified RNA was subjected to oligodT (NEB, Cat No-S1419S) selection to isolate mRNA. ..

    Polymerase Chain Reaction:

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Libraries were then amplified by PCR (Phusion Hot Start II, ThermoFisher Scientific, #F549L) and purified (Zymo #D5205) for high-throughput sequencing.

    Article Title: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3′ mRNA profiling
    Article Snippet: Following lysis, mRNA from lysates were isolated using magnetic oligo-dt beads (NEB, S1419S) following manufacturer's instructions. mRNA was quantified using NanoDrop 2000 spectrophotometer. .. For qPCR, 10 ng of mRNA was used as input for all conditions and reactions were run on CFX Connect Real-Time PCR machine (Biorad) using SsoFast EvaGreen PCR supermix (Biorad) following manufacturer's instructions.

    Irradiation:

    Article Title: RNA exploits an exposed regulatory site to inhibit the enzymatic activity of PRC2
    Article Snippet: The 24-well plate was then placed onto an aluminium block within a container of ice and was irradiated by UV (254 nm, 6 rounds of 0.83 J/cm2 each) in a UVP CL-1000 Ultraviolet Crosslinker (Scientifix #CL-1000) with the top of the 24-well plate at a distance of ~10 cm below five 8-watt tube lamps. .. The remaining sample was applied to 1 mL of oligo d(T)25 magnetic beads (NEB #S1419S) that were pre-washed with- and pre-incubated in 1X RNA-binding buffer for 10 min at 25 °C with gentle agitation.

    RNA Extraction:

    Article Title: Promoter-proximal pausing mediated by the exon junction complex regulates splicing
    Article Snippet: Paragraph title: RNA extraction and RNA-seq ... The purified RNA was subjected to oligodT (NEB, Cat No-S1419S) selection to isolate mRNA.

    Selection:

    Article Title: Pervasive and dynamic protein binding sites of the mRNA transcriptome in Saccharomyces cerevisiae
    Article Snippet: .. Chemical biotinylation and polyA selection Sixty microliters of freshly prepared 10 mM EZ-Link NHS-SS-Biotin (Pierce 21441; Rockford, IL, USA) dissolved in dimethylformamide was added to the recovered lysate and incubated on a Nutator for 2 h at 4°C; 50 µl of 5 M NaCl was added to increase the total salt concentration to 0.5 M. Biotinylated lysate was mixed with 1 mg of oligo(dT)25 magnetic beads (NEB S1419S; Ipswich, MA, USA), then incubated on a Nutator for 30 minutes at 4°C. .. The beads were washed four times with ice-cold hybridization buffer (10 mM HEPES pH 7.5, 0.5 M NaCl, 1 mM EDTA) and the RNAs were eluted by incubating beads with 500 µl of elution buffer (10 mM HEPES pH 7.5, 1 mM EDTA) and heating at 65°C for 3 minutes.

    Article Title: Evolution of the RNA N6-Methyladenosine Methylome Mediated by Genomic Duplication
    Article Snippet: .. Polyadenylated (PolyA+) mRNA selection was performed using oligo(dT)25 magnetic beads (code no. S1419S; New England Biolabs) following the manufacturer’s protocol. .. mRNA was randomly fragmented into ∼200-nucleotide-long fragments by RNA Fragmentation Reagents (Ambion).

    Article Title: Promoter-proximal pausing mediated by the exon junction complex regulates splicing
    Article Snippet: .. The purified RNA was subjected to oligodT (NEB, Cat No-S1419S) selection to isolate mRNA. ..

    In Vitro:

    Article Title: RNA exploits an exposed regulatory site to inhibit the enzymatic activity of PRC2
    Article Snippet: Paragraph title: Mapping protein-RNA interactions of an in vitro reconstituted complex using RBDmap ... The remaining sample was applied to 1 mL of oligo d(T)25 magnetic beads (NEB #S1419S) that were pre-washed with- and pre-incubated in 1X RNA-binding buffer for 10 min at 25 °C with gentle agitation.

    Spectrophotometry:

    Article Title: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3′ mRNA profiling
    Article Snippet: .. Following lysis, mRNA from lysates were isolated using magnetic oligo-dt beads (NEB, S1419S) following manufacturer's instructions. mRNA was quantified using NanoDrop 2000 spectrophotometer. .. For qPCR, 10 ng of mRNA was used as input for all conditions and reactions were run on CFX Connect Real-Time PCR machine (Biorad) using SsoFast EvaGreen PCR supermix (Biorad) following manufacturer's instructions.

    Concentration Assay:

    Article Title: Pervasive and dynamic protein binding sites of the mRNA transcriptome in Saccharomyces cerevisiae
    Article Snippet: .. Chemical biotinylation and polyA selection Sixty microliters of freshly prepared 10 mM EZ-Link NHS-SS-Biotin (Pierce 21441; Rockford, IL, USA) dissolved in dimethylformamide was added to the recovered lysate and incubated on a Nutator for 2 h at 4°C; 50 µl of 5 M NaCl was added to increase the total salt concentration to 0.5 M. Biotinylated lysate was mixed with 1 mg of oligo(dT)25 magnetic beads (NEB S1419S; Ipswich, MA, USA), then incubated on a Nutator for 30 minutes at 4°C. .. The beads were washed four times with ice-cold hybridization buffer (10 mM HEPES pH 7.5, 0.5 M NaCl, 1 mM EDTA) and the RNAs were eluted by incubating beads with 500 µl of elution buffer (10 mM HEPES pH 7.5, 1 mM EDTA) and heating at 65°C for 3 minutes.

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: .. For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L) .. For ChIP-seq experiments, a cross-linking step with paraformaldehyde was performed immediately after staining but before microglia sorting.

    High Throughput Screening Assay:

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Libraries were then amplified by PCR (Phusion Hot Start II, ThermoFisher Scientific, #F549L) and purified (Zymo #D5205) for high-throughput sequencing.

    Lysis:

    Article Title: UV crosslinked mRNA-binding proteins captured from leaf mesophyll protoplasts
    Article Snippet: 1.8 mL oligo-d(T)25 magnetic beads stock (5 mg/mL, New England BioLabs, cat no. S1419S) was aliquoted into 6 round bottom microcentrifuge tubes (2 mL, SARSTEDT) on ice. .. In each tube, the beads suspension was mixed with 600 μL lysis/binding buffer using rotation at 4 °C for 2 min.

    Article Title: An environment-dependent transcriptional network specifies human microglia identity
    Article Snippet: .. For human brain cortical RNA, 500 ng of RNA was diluted with proper volume of 2× lysis/ Oligo d(T) Magnetic Beads binding buffer to a final concentration of 1× lysis/Oligo d(T) Magnetic Beads binding buffer. mRNAs were enriched by incubation with Oligo d(T) Magnetic Beads (NEB, S1419S) and then fragmented/eluted by incubation at 94 °C for 9 min. cDNA was then synthesized with Superscript III (first-strand synthesis; Life Technologies kit 18080-044) and then DNA Polymerase I (second-strand synthesis; Enzymatics P7050L) .. For ChIP-seq experiments, a cross-linking step with paraformaldehyde was performed immediately after staining but before microglia sorting.

    Article Title: RNA interactome capture in yeast
    Article Snippet: .. 2.1.5 RNA interactome capture Oligo d(T) beads (NEB S1419) were pre-equilibrated with lysis buffer: we washed 1 ml of beads 3 times with 1 ml of lysis buffer using a magnet to remove the supernatant. .. The yeast lysate in the 50 ml tube was filled up to 25 ml with lysis buffer and an aliquot (100–500 μl) was saved at -20 °C as input sample.

    Article Title: Transcriptional networks specifying homeostatic and inflammatory programs of gene expression in human aortic endothelial cells
    Article Snippet: .. RNA-seq HAECs were resuspended in RNA Lysis Buffer and RNA was extracted from cells using the Quick-RNA Micro Prep kit from ZymoResearch (Irvine, CA, #R1051), including optional DNase I treatment. mRNA was selected through poly-A isolation using Oligo d(T)25 beads (New England BioLabs, Ipswich, MA, #S1419S). .. Selected RNA was fragmented, followed by single strand cDNA synthesis using a SuperScript III First-Strand Synthesis System (ThermoFisher Scientific # 18080051), followed by second strand synthesis using DNA Polymerase I (Qiagen/Enzymatics, Beverly, MA, #P7050L). dsDNA ends were repaired with T4 DNA Polymerase (Enzymatics #P7080L).

    Article Title: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3′ mRNA profiling
    Article Snippet: .. Following lysis, mRNA from lysates were isolated using magnetic oligo-dt beads (NEB, S1419S) following manufacturer's instructions. mRNA was quantified using NanoDrop 2000 spectrophotometer. .. For qPCR, 10 ng of mRNA was used as input for all conditions and reactions were run on CFX Connect Real-Time PCR machine (Biorad) using SsoFast EvaGreen PCR supermix (Biorad) following manufacturer's instructions.

    Article Title: Capturing the interactome of newly transcribed RNA
    Article Snippet: .. 100 μl oligo(dT) beads (New England Biolabs, cat# S1419) were washed twice using lysis buffer and added to the cell lysate to incubate for 1 h at 4 °C. ..

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    New England Biolabs oligo dt25 magnetic beads
    Oligo Dt25 Magnetic Beads, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 95/100, based on 45 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Average 95 stars, based on 45 article reviews
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    oligo dt25 magnetic beads - by Bioz Stars, 2020-02
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