The largest database of trusted experimental protocols

Anti m6a rabbit polyclonal antibody

Manufactured by Synaptic Systems
Sourced in Germany

The Anti-m6A rabbit polyclonal antibody is a laboratory reagent used to detect the presence of N6-methyladenosine (m6A) modification in RNA samples. This antibody is specifically raised against the m6A modification, allowing for the identification and quantification of m6A-containing RNAs.

Automatically generated - may contain errors

25 protocols using anti m6a rabbit polyclonal antibody

1

m6A-seq Analysis of Lentiviral Knockdown

Check if the same lab product or an alternative is used in the 5 most similar protocols
PBT003 cells were transduced with lentivirus expressing control shRNA or relevant shRNA. 7 days after transduction, total RNA was extracted using Trizol reagent (Ambion). mRNA was further purified using a Dynabeads mRNA purification kit (Ambion, catalog no. 61006). Fragmented RNA was subjected to m6A-immunoprecipitation (m6A IP) using anti-m6A rabbit polyclonal antibody (Synaptic Systems; catalog no. 202003) followed by RNA-seq. Further details of m6A-seq and data analysis are in Supplemental Experimental Procedures.
+ Open protocol
+ Expand
2

m6A Methylation Immunoprecipitation Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA (3–5 ug) and an m6A spike-in control mixture were immunoprecipitated using 2 µg anti-m6A rabbit polyclonal antibody (Synaptic Systems, Gottingen, Germany, Cat. No. 202003), and the reaction was incubated with head-over-tail rotation at 4°C for 2 h. Then, 20 μL of Dynabeads™ M-280 Sheep Anti-Rabbit IgG suspension (Invitrogen, Carlsbad, CA, USA, Cat. No. 11203D) per sample was blocked with freshly prepared 0.5% bovine serum albumin (BSA) at 4°C for 2 h. The enriched RNA was eluted with 200 μL of elution buffer (10 mM Tris-HCl, pH 7.4, 1 mM EDTA, 0.05% SDS, 40U proteinase K, and 1 μL RNase inhibitor) at 50°C for 1 h. RNA was extracted using acid phenol–chloroform and ethanol precipitations. qPCR of the positive and negative m6A spike-in controls was carried out to check the MeRIP enrichment efficiency. CTA850 (positive control) was used to determine the exogenous RNA, where m6A modification occurred, and CTA650 (negative control) was used to identify the exogenous RNA in the absence of m6A modification.
+ Open protocol
+ Expand
3

m6A-Epitranscriptomic Profiling in Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA (3-5 μg) and an m6A spike-in control mixture were immunoprecipitated with 2 μg anti-m6A rabbit polyclonal antibody (Synaptic Systems, Gottingen, Germany, Cat.No.202003), which was incubated with head-over-tail rotation at 4°C for 2 h. A total of 20 μl of Dynabeads™ M-280 Sheep Anti-Rabbit IgG suspension (Invitrogen, Carlsbad, CA, USA, Cat.No.11203D) per sample was blocked with 0.5% bovine serum albumin at 4°C for 2 h. The immunoprecipitated (IP) fraction containing m6A-modified RNA was eluted from the immunoprecipitated magnetic beads, while the supernatant (Sup) fraction containing the m6A-unmodified RNA was recovered from the centrifuged supernatant. Then, the IP and Sup RNAs were labeled with Cy5 and Cy3, respectively, referred to as cRNAs by using Arraystar Super RNA Labeling Kit (Arraystar, Rockville, MD, USA, Cat.No.AL-SE-005). These cRNAs labeled with fluorescent dye were merged and hybridized in Human Arraystar mRNA&lncRNA Epitranscriptomic Arrays (8x60K, Arraystar) that contained 44,122 mRNAs and 12,496 lncRNAs. The arrays were washed and then detected with an Agilent scanner G2505C (Agilent Technologies, Santa Clara, CA, USA).
+ Open protocol
+ Expand
4

m6A RNA Immunoprecipitation Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA (3 μg) and m6A spike-in control mixture were added to IP buffer (50 mM Tris-HCl, pH 7.4, 150 mM NaCl, 0.1% NP40, 40 U/μL RNase inhibitor) containing 2 μg anti-m6A rabbit polyclonal antibody (Synaptic Systems). The reaction was incubated with head-over-tail rotation at 4°C for 2 h. Dynabeads™ M-280 sheep antirabbit IgG beads per sample were blocked with freshly prepared 0.5% BSA at 4°C for 2 h, washed three times with IP buffer, and then resuspended in the total RNA-antibody mixture prepared above. The RNA binding to the m6A-antibody beads was carried out with head-over-tail rotation at 4°C for 2 h. The beads were then washed three times with IP buffer, and twice with wash buffer (50 mM Tris-HCl, pH 7.4, 50 mM NaCl, 0.1% NP40, 40 U/μL RNase Inhibitor). The enriched RNA was eluted with elution buffer (10 mM Tris-HCl, pH 7.4, 1 mM EDTA, 0.05% SDS, 40 U Proteinase K) at 50°C for 1 h. The RNA was extracted by acid phenol–chloroform and ethanol precipitation.
+ Open protocol
+ Expand
5

m6A-Immunoprecipitation of Total RNA

Check if the same lab product or an alternative is used in the 5 most similar protocols
Using TRIzol (Invitrogen) and following kit recommendations, total RNA was isolated from the LECs of the included DC patients and controls, as well as SRA01/04 cells, followed by RNA quantification and purity evaluation with a NanoDrop ND-1000 spectrophotometer purchased from Thermo Fisher Scientific. This was followed by immunoprecipitation (IP) of the extracted total RNA from the NC (n = 3) and DC samples (n = 3) with an anti-m6A antibody by referring to the manufacturer’s recommendations. In brief, we placed 2 μg total RNA and m6A spike-in control mixture into a 300 μL IP buffer supplemented with 2 μg anti-m6A rabbit polyclonal antibody (Synaptic Systems, Goettingen, Germany), and let the reaction mixture rotate head-over-tail for 2 h at 4 °C. A DynabeadsTM M-280 sheep anti-rabbit immunoglobulin G (IgG) suspension (20 μL) was blocked with freshly prepared 0.5% bovine serum albumin at 4 °C for 2 h, followed by three rinses with IP buffer (300 μL) and resuspension in the total RNA-antibody mixture prepared. The RNA was then allowed to bind to the m6A-antibody beads for 2 h at 4 °C via head-over-tail rotation. After washing the beads thrice with 500 μL 1 × IP buffer and twice with 500 μL wash buffer, and incubation with 200 μL elution buffer (50 °C, 1 h), the enriched RNA was eluted and extracted using acid phenol-chloroform for ethanol precipitation.
+ Open protocol
+ Expand
6

m6A RNA Immunoprecipitation and Enrichment

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA (1-3ug) mixed with m6A spike-in control was immunoprecipitated with anti-m6A rabbit polyclonal antibody (Synaptic Systems, Göttingen, Germany) at 4 °C for 2 h. Dynabeads™ M-280 Sheep Anti-Rabbit IgG suspension (20 μL per sample) (Ivitrogen) was blocked with 0.5% bovine serum albumin (BSA) at 4 °C for 2 h, washed three times with IP buffer (300 μL) for 5 min, and resuspended in the prepared RNA-antibody mixture. The RNA was bound to the m6A-antibody beads for 2 h at 4 °C, then the beads were washed with IP buffer (500 μL, three times), followed by Wash buffer (500 μL, twice). In this case, the adsorbed RNA was eluted with Elution buffer (200 μL) at 50 °C for 1 h. The immunoprecipitated (IP) RNA and supernatant (Sup) RNA were extracted by acid phenol–chloroform and ethanol precipitation.
+ Open protocol
+ Expand
7

m6A-SMART-seq for Mouse Dentate Gyrus Transcriptome

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA from adult mouse DG was isolated using the TRIzol reagent according to the manufacturer’s instructions (Invitrogen). mRNA purification was performed with poly(A)+ RNA selection twice using Dynabeads Oligo (dT)25 (Thermo Fisher; 61006). A total of 150 ng of mRNA was subjected to m6A-SMART-seq using anti-m6A rabbit polyclonal antibody (Synaptic Systems, 202003) as previously described9 (link). Briefly, 5 μg of anti-m6A polyclonal antibody was conjugated to Dynabeads Protein A (Thermo Fisher; 10001D) and used for each affinity pull-down. The m6A RNA was eluted twice with 6.7 mM N6-Methyladenosine (Sigma-Aldrich; M2780) in 1 × IP buffer (10 mM Tris-HCl (pH 7.5), 150 mM NaCl, and 0.1% (vol/vol) Igepal CA-630) and recovered by RNA Clean and Concentrator-5 (Zymo Research). Libraries were generated using the SMART-seq protocol as described35 (link). Three biological replicates for each condition were sequenced using Illumina NextSeq 550 from a single end for 75 bases.
+ Open protocol
+ Expand
8

Synovial m6A-Enriched RNA Extraction

Check if the same lab product or an alternative is used in the 5 most similar protocols
Synovial RNA was extracted. Total RNA was extracted with TRIzol (Life Technologies, Waltham, MA, USA). The mRNA was mixed with 2 μg of anti-m6A rabbit polyclonal antibody (Synaptic system, Goettingen, Germany) into a 500-μL IP reaction system and incubated at 4°C for 2 h, followed by incubation with blocked Dynabeads (Thermo, Waltham, MA, USA) for 2 h and purification of the final mRNA.
+ Open protocol
+ Expand
9

Profiling m6A Modifications in Co-Cultured Ovarian Cancer Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA was extracted from the co‐cultured ovarian cancer cell lines (HO8910 and A2780) and their controls using TRIzol reagent (Ambion). mRNA was further purified using a dynabeads mRNA purification kit (Ambion, catalog no. 61006) and then submitted to further analysis conducted by Kangchen Biological Engineering Co. Fragmented RNA was subjected to m6A immunoprecipitation (m6A IP) using anti‐m6A rabbit polyclonal antibody (Synaptic Systems; catalog No. 202003) followed by RNA‐Seq.
+ Open protocol
+ Expand
10

m6A-SMART-seq for Mouse Dentate Gyrus Transcriptome

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA from adult mouse DG was isolated using the TRIzol reagent according to the manufacturer’s instructions (Invitrogen). mRNA purification was performed with poly(A)+ RNA selection twice using Dynabeads Oligo (dT)25 (Thermo Fisher; 61006). A total of 150 ng of mRNA was subjected to m6A-SMART-seq using anti-m6A rabbit polyclonal antibody (Synaptic Systems, 202003) as previously described9 (link). Briefly, 5 μg of anti-m6A polyclonal antibody was conjugated to Dynabeads Protein A (Thermo Fisher; 10001D) and used for each affinity pull-down. The m6A RNA was eluted twice with 6.7 mM N6-Methyladenosine (Sigma-Aldrich; M2780) in 1 × IP buffer (10 mM Tris-HCl (pH 7.5), 150 mM NaCl, and 0.1% (vol/vol) Igepal CA-630) and recovered by RNA Clean and Concentrator-5 (Zymo Research). Libraries were generated using the SMART-seq protocol as described35 (link). Three biological replicates for each condition were sequenced using Illumina NextSeq 550 from a single end for 75 bases.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!