poly a rna  (New England Biolabs)


Bioz Verified Symbol New England Biolabs is a verified supplier
Bioz Manufacturer Symbol New England Biolabs manufactures this product  
  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
  • 92
    Name:
    RNA 5’ Pyrophosphohydrolase RppH
    Description:
    RNA 5 Pyrophosphohydrolase RppH 200 units
    Catalog Number:
    m0356s
    Price:
    93
    Size:
    200 units
    Category:
    Other Enzymes
    Buy from Supplier


    Structured Review

    New England Biolabs poly a rna
    RNA 5’ Pyrophosphohydrolase RppH
    RNA 5 Pyrophosphohydrolase RppH 200 units
    https://www.bioz.com/result/poly a rna/product/New England Biolabs
    Average 92 stars, based on 133 article reviews
    Price from $9.99 to $1999.99
    poly a rna - by Bioz Stars, 2020-09
    92/100 stars

    Images

    Related Articles

    GWAS:

    Article Title: Landscape and Regulation of m6A and m6Am Methylome across Human and Mouse Tissues.
    Article Snippet: .. KEY RESOURCES TABLE REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-m6A polyclonal antibody Millipore Cat# ABE572 Chemicals, Peptides, and Recombinant Proteins DMEM GIBCO Cat# 11965 FBS GIBCO Cat# 10438-026 Pen/Strep GIBCO Cat# 15140 TRIzol Reagent Invitrogen Cat# 15596018 Nuclease P1 Sigma Cat# N8630 rSAP NEB Cat# M0371S Magnesium RNA fragmentation buffer NEB Cat# E6150S DNase I NEB Cat# M0303L RiboLock RNase Inhibitor Thermo Fisher Cat# EO0381 RppH NEB Cat# M0356S Dynabeads Protein G for Immunoprecipitation Thermo Fisher Cat# 10004D Dynabeads Protein A for Immunoprecipitation Thermo Fisher Cat# 10002D RNasin Plus RNase Inhibitor Promega Cat# N2615 N6-Methyladenosine 50-monophosphate sodium salt Sigma Cat# M2780 Critical Commercial Assays SMARTer Stranded Total RNA-SeqKit v2 - Pico Input Mammalian Takara - Clontech Cat# 634413 RevertAid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 Deposited Data m6A-seq data for human tissues and cell lines This paper GSA: CRA001315 m6A-seq data for mouse tissues This paper GSA: CRA001962 Protein expression data Human Proteome Map (HPM) http://www.humanproteomemap.org/ GTEx data Genotype-Tissue Expression (GTEx) https://gtexportal.org/home/ miRNA target site miRNA seed region miRbase http://www.mirbase.org miRNA target site starBase v3.0 http://starbase.sysu.edu.cn/index.php Human miRNA expression data miRmine http://guanlab.ccmb.med.umich.edu/mirmine/ rRNA of human mouse NCBI https://www.ncbi.nlm.nih.gov/gene/ Transcriptome reference under hg19 mm10 Refseq annotation UCSC table browser http://genome.ucsc.edu/cgi-bin/hgTables lncRNA reference LNCipedia https://lncipedia.org/download Orthologous gene annotation MGI http://www.informatics.jax.org/ Orthologous lncRNA annotation Sarropoulos et al., 2019 https://apps.kaessmannlab.org/lncRNA_app/ SNP database 90 Han Chinese genomes ftp://parrot.genomics.cn/gigadb/pub/10.5524/ 100001_101000/100302/90_Han_Chinese_ SNP_gatkvqsr_20170303.vcf.gz RNA binding proteins Zhu et al., 2019 http://lulab.life.tsinghua.edu.cn/postar/ GWAS Catalog NHGRI-EBI Catalog https://www.ebi.ac.uk/gwas/ PancanQTL Gong et al., 2018 http://bioinfo.life.hust.edu.cn/PancanQTL/ Experimental Models: Cell Lines Human: HEK293T cells ATCC Cat# CRL-3216, RRID: CVCL_0063 Human: HeLa cells ATCC Cat# CRM-CCL-2, RRID:CVCL_0030 (Continued on next page) e1 Molecular Cell 77, 1–15.e1–e6, February 6, 2020 .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Human: HT29 cells ATCC Cat# HTB-38, RRID:CVCL_0320 Human: GOS-3 cells DSMZ Cat# ACC-408, RRID:CVCL_2050 Human: K562 cells ATCC Cat# CCL-243, RRID:CVCL_0004 Human: U251 cells ECACC Cat# 09063001, RRID:CVCL_0021 Human: WPMY-1 cells ATCC Cat# CRL-2854, RRID:CVCL_3814 Human: U2OS cells ATCC Cat# HTB-96, RRID:CVCL_0042 Human: Jurkat cells ATCC Cat# TIB-152, RRID:CVCL_0367 Experimental Models: Organisms/Strains C57BL/6J Jackson Laboratory JAX: 000664 Oligonucleotides See Method Details for m6A-seq-qPCR based m6A level evaluation This paper N/A Software and Algorithms Trim_galore Babraham Institute http://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ TopHat2 v2.0.13 Kim et al., 2013 https://ccb.jhu.edu/software/tophat/ index.shtml samtools v1.7 Li, 2011 http://samtools.sourceforge.net/ MEME (Web-based) Bailey et al., 2009 http://meme-suite.org/tools/meme bedtools v2.27.1 Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ ANNOVAR Wang et al., 2010 http://annovar.openbioinformatics.org/en/ latest/ Homer v4.8 Heinz et al., 2010 http://homer.ucsd.edu/homer/ HISAT2 v2.1.0 Kim et al., 2015 https://ccb.jhu.edu/software/hisat2/index.shtml IGV v2.4.15 Thorvaldsdóttir et al., 2013 https://software.broadinstitute.org/software/igv/ Cufflinks v2.2.1 Trapnell et al., 2010 http://cole-trapnell-lab.github.io/cufflinks/ TissueEnrich Jain and Tuteja, 2019 https://tissueenrich.gdcb.iastate.edu Rtsne Seo and Lee, 2008 https://github.com/jkrijthe/Rtsne DOSE Yu et al., 2015 https://www.bioconductor.org/packages/ release/bioc/html/DOSE.html LDSC Bulik-Sullivan et al., 2015 https://github.com/bulik/ldsc

    DC Protein Assay:

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    RNA Sequencing Assay:

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    Article Title: DNA Methylation and Histone H1 Jointly Repress Transposable Elements and Aberrant Intragenic Transcripts.
    Article Snippet: .. DNA methylation and histone H1 mediate transcriptional silencing of genes and transposable elements, but how they interact is unclear. ..

    Polyacrylamide Gel Electrophoresis:

    Article Title: Landscape and Regulation of m6A and m6Am Methylome across Human and Mouse Tissues.
    Article Snippet: .. KEY RESOURCES TABLE REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-m6A polyclonal antibody Millipore Cat# ABE572 Chemicals, Peptides, and Recombinant Proteins DMEM GIBCO Cat# 11965 FBS GIBCO Cat# 10438-026 Pen/Strep GIBCO Cat# 15140 TRIzol Reagent Invitrogen Cat# 15596018 Nuclease P1 Sigma Cat# N8630 rSAP NEB Cat# M0371S Magnesium RNA fragmentation buffer NEB Cat# E6150S DNase I NEB Cat# M0303L RiboLock RNase Inhibitor Thermo Fisher Cat# EO0381 RppH NEB Cat# M0356S Dynabeads Protein G for Immunoprecipitation Thermo Fisher Cat# 10004D Dynabeads Protein A for Immunoprecipitation Thermo Fisher Cat# 10002D RNasin Plus RNase Inhibitor Promega Cat# N2615 N6-Methyladenosine 50-monophosphate sodium salt Sigma Cat# M2780 Critical Commercial Assays SMARTer Stranded Total RNA-SeqKit v2 - Pico Input Mammalian Takara - Clontech Cat# 634413 RevertAid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 Deposited Data m6A-seq data for human tissues and cell lines This paper GSA: CRA001315 m6A-seq data for mouse tissues This paper GSA: CRA001962 Protein expression data Human Proteome Map (HPM) http://www.humanproteomemap.org/ GTEx data Genotype-Tissue Expression (GTEx) https://gtexportal.org/home/ miRNA target site miRNA seed region miRbase http://www.mirbase.org miRNA target site starBase v3.0 http://starbase.sysu.edu.cn/index.php Human miRNA expression data miRmine http://guanlab.ccmb.med.umich.edu/mirmine/ rRNA of human mouse NCBI https://www.ncbi.nlm.nih.gov/gene/ Transcriptome reference under hg19 mm10 Refseq annotation UCSC table browser http://genome.ucsc.edu/cgi-bin/hgTables lncRNA reference LNCipedia https://lncipedia.org/download Orthologous gene annotation MGI http://www.informatics.jax.org/ Orthologous lncRNA annotation Sarropoulos et al., 2019 https://apps.kaessmannlab.org/lncRNA_app/ SNP database 90 Han Chinese genomes ftp://parrot.genomics.cn/gigadb/pub/10.5524/ 100001_101000/100302/90_Han_Chinese_ SNP_gatkvqsr_20170303.vcf.gz RNA binding proteins Zhu et al., 2019 http://lulab.life.tsinghua.edu.cn/postar/ GWAS Catalog NHGRI-EBI Catalog https://www.ebi.ac.uk/gwas/ PancanQTL Gong et al., 2018 http://bioinfo.life.hust.edu.cn/PancanQTL/ Experimental Models: Cell Lines Human: HEK293T cells ATCC Cat# CRL-3216, RRID: CVCL_0063 Human: HeLa cells ATCC Cat# CRM-CCL-2, RRID:CVCL_0030 (Continued on next page) e1 Molecular Cell 77, 1–15.e1–e6, February 6, 2020 .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Human: HT29 cells ATCC Cat# HTB-38, RRID:CVCL_0320 Human: GOS-3 cells DSMZ Cat# ACC-408, RRID:CVCL_2050 Human: K562 cells ATCC Cat# CCL-243, RRID:CVCL_0004 Human: U251 cells ECACC Cat# 09063001, RRID:CVCL_0021 Human: WPMY-1 cells ATCC Cat# CRL-2854, RRID:CVCL_3814 Human: U2OS cells ATCC Cat# HTB-96, RRID:CVCL_0042 Human: Jurkat cells ATCC Cat# TIB-152, RRID:CVCL_0367 Experimental Models: Organisms/Strains C57BL/6J Jackson Laboratory JAX: 000664 Oligonucleotides See Method Details for m6A-seq-qPCR based m6A level evaluation This paper N/A Software and Algorithms Trim_galore Babraham Institute http://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ TopHat2 v2.0.13 Kim et al., 2013 https://ccb.jhu.edu/software/tophat/ index.shtml samtools v1.7 Li, 2011 http://samtools.sourceforge.net/ MEME (Web-based) Bailey et al., 2009 http://meme-suite.org/tools/meme bedtools v2.27.1 Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ ANNOVAR Wang et al., 2010 http://annovar.openbioinformatics.org/en/ latest/ Homer v4.8 Heinz et al., 2010 http://homer.ucsd.edu/homer/ HISAT2 v2.1.0 Kim et al., 2015 https://ccb.jhu.edu/software/hisat2/index.shtml IGV v2.4.15 Thorvaldsdóttir et al., 2013 https://software.broadinstitute.org/software/igv/ Cufflinks v2.2.1 Trapnell et al., 2010 http://cole-trapnell-lab.github.io/cufflinks/ TissueEnrich Jain and Tuteja, 2019 https://tissueenrich.gdcb.iastate.edu Rtsne Seo and Lee, 2008 https://github.com/jkrijthe/Rtsne DOSE Yu et al., 2015 https://www.bioconductor.org/packages/ release/bioc/html/DOSE.html LDSC Bulik-Sullivan et al., 2015 https://github.com/bulik/ldsc

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    Article Title: DNA Methylation and Histone H1 Jointly Repress Transposable Elements and Aberrant Intragenic Transcripts.
    Article Snippet: .. DNA methylation and histone H1 mediate transcriptional silencing of genes and transposable elements, but how they interact is unclear. ..

    Protease Inhibitor:

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    Article Title: A rapid, sensitive, scalable method for Precision Run-On sequencing (PRO-seq)
    Article Snippet: .. CAUTION: DEPC is toxic and harmful DEPC treated ddH2 O (0.1% v/v) 4 M KCl (see Note 1) 5 M NaCl (see Note 1) 1M MgCl2 (see Note 1) 10% (v/v) Triton X-100 (see Note 2) 2% (v/v) Sarkosyl (Sigma-Aldrich, cat. no. L5125) (see Note 2) 2% (v/v) Tween-20 (see Note 2) 10 % Igepal® CA-630 (Millipore Sigma cat. no. I8896) (see Note 2) 0.1 M DTT (see Note 2) 1 M Sucrose (see Note 2) 0.5 M EDTA, pH 8.0 (see Note 2) 0.1 M EGTA, pH 8.0 (see Note 2) Tris-Cl, pH 6.8 (See Note 2) Tris-Cl, pH 7.4 (See Note 2) Tris-Cl, pH 8.0 (See Note 2) Glycerol 1 N NaOH 100% Ethanol 75% Ethanol Biotin-11-CTP 10 mM (PerkinElmer, cat. no. NEL542001EA) Biotin-11-UTP 10 mM (PerkinElmer, cat. no. NEL543001EA) Biotin-11-GTP 10 mM (PerkinElmer, cat. no. NEL545001EA) Biotin-11-ATP 10 mM (PerkinElmer, cat. no. NEL544001EA) GTP, 100 mM (Roche, cat. no. 11277057001) ATP, 100 mM (Roche, cat. no. 11277057001) Trypan Blue Dynabeads™ MyOne™ Streptavidin C1 Beads (Invitrogen, cat. no. 65002) TRIzol™ Reagent (Invitrogen, cat. no. 15596018) TRIzol™ LS Reagent (Invitrogen, cat. no. 10296028) (optional, see Note 3) Total RNA Purification Kit (Norgen, cat. no. 37500) (optional, see Note 3) Chloroform GlycoBlue™ (Invitrogen, cat. no. AM9515) SUPERase-In™ RNase Inhibitor (20 U/µL) (Invitrogen, cat. no. AM2694) Pierce™ Protease Inhibitor Tablets (Thermo Scientific cat. no. A32963) T4 RNA Ligase (10 U/µL), supplied with 10X T4 RNA ligase buffer, 10 mM ATP and 50% (w/v) PEG8000 (NEB cat. no. M0204S) RNA 5’ pyrophosphohydrolase (RppH; 5 U/µL) (NEB, cat. no. M0356S) 10X ThermoPol Reaction Buffer (NEB, cat. no. B9004S) T4 polynucleotide kinase (PNK; 10 U/µL), supplied with 10X PNK buffer (NEB, cat. no. M0201) Maxima H Minus Reverse Transcriptase (200 U/µL) (Thermo Scientific, cat. no. EP0751) dNTP mix, 12.5mM each (Roche, cat. no. 03622614001) Q5® High-Fidelity DNA Polymerase, supplied with 5X Q5 Reaction Buffer and 5X High GC-Enhancer (NEB cat. no. M0491S) Micro Bio-Spin™ RNase free P-30 Gel Columns (Bio-Rad, cat. no. 7326250) (optional, see Note 3) RNA and DNA oligos (IDT DNA) (see and Notes 4–6) Agencourt AMPure XP SPRI beads (Beckman-Coulter, cat. no. A63880) SYBR Gold stain (Invitrogen, cat. no. S11494) Costar® Spin-X® 0.22 µm Centrifuge Tube Filters (Corning, cat. no. 1860) SsoAdvanced Universal SYBR Green Supermix (BioRad, cat. no. 1725270) .. 2.2 Buffers Permeabilization Buffer: 10 mM Tris-Cl [pH 8.0], 10 mM KCl, 250 mM Sucrose, 5 mM MgCl2 , 1 mM EGTA, 0.1% (v/v) Igepal, 0.5 mM DTT, 0.05% (v/v) Tween-20, and 10% (v/v) Glycerol in DEPC H2 O.

    Article Title: DNA Methylation and Histone H1 Jointly Repress Transposable Elements and Aberrant Intragenic Transcripts.
    Article Snippet: .. DNA methylation and histone H1 mediate transcriptional silencing of genes and transposable elements, but how they interact is unclear. ..

    Multiplex Assay:

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    Purification:

    Article Title: A rapid, sensitive, scalable method for Precision Run-On sequencing (PRO-seq)
    Article Snippet: .. CAUTION: DEPC is toxic and harmful DEPC treated ddH2 O (0.1% v/v) 4 M KCl (see Note 1) 5 M NaCl (see Note 1) 1M MgCl2 (see Note 1) 10% (v/v) Triton X-100 (see Note 2) 2% (v/v) Sarkosyl (Sigma-Aldrich, cat. no. L5125) (see Note 2) 2% (v/v) Tween-20 (see Note 2) 10 % Igepal® CA-630 (Millipore Sigma cat. no. I8896) (see Note 2) 0.1 M DTT (see Note 2) 1 M Sucrose (see Note 2) 0.5 M EDTA, pH 8.0 (see Note 2) 0.1 M EGTA, pH 8.0 (see Note 2) Tris-Cl, pH 6.8 (See Note 2) Tris-Cl, pH 7.4 (See Note 2) Tris-Cl, pH 8.0 (See Note 2) Glycerol 1 N NaOH 100% Ethanol 75% Ethanol Biotin-11-CTP 10 mM (PerkinElmer, cat. no. NEL542001EA) Biotin-11-UTP 10 mM (PerkinElmer, cat. no. NEL543001EA) Biotin-11-GTP 10 mM (PerkinElmer, cat. no. NEL545001EA) Biotin-11-ATP 10 mM (PerkinElmer, cat. no. NEL544001EA) GTP, 100 mM (Roche, cat. no. 11277057001) ATP, 100 mM (Roche, cat. no. 11277057001) Trypan Blue Dynabeads™ MyOne™ Streptavidin C1 Beads (Invitrogen, cat. no. 65002) TRIzol™ Reagent (Invitrogen, cat. no. 15596018) TRIzol™ LS Reagent (Invitrogen, cat. no. 10296028) (optional, see Note 3) Total RNA Purification Kit (Norgen, cat. no. 37500) (optional, see Note 3) Chloroform GlycoBlue™ (Invitrogen, cat. no. AM9515) SUPERase-In™ RNase Inhibitor (20 U/µL) (Invitrogen, cat. no. AM2694) Pierce™ Protease Inhibitor Tablets (Thermo Scientific cat. no. A32963) T4 RNA Ligase (10 U/µL), supplied with 10X T4 RNA ligase buffer, 10 mM ATP and 50% (w/v) PEG8000 (NEB cat. no. M0204S) RNA 5’ pyrophosphohydrolase (RppH; 5 U/µL) (NEB, cat. no. M0356S) 10X ThermoPol Reaction Buffer (NEB, cat. no. B9004S) T4 polynucleotide kinase (PNK; 10 U/µL), supplied with 10X PNK buffer (NEB, cat. no. M0201) Maxima H Minus Reverse Transcriptase (200 U/µL) (Thermo Scientific, cat. no. EP0751) dNTP mix, 12.5mM each (Roche, cat. no. 03622614001) Q5® High-Fidelity DNA Polymerase, supplied with 5X Q5 Reaction Buffer and 5X High GC-Enhancer (NEB cat. no. M0491S) Micro Bio-Spin™ RNase free P-30 Gel Columns (Bio-Rad, cat. no. 7326250) (optional, see Note 3) RNA and DNA oligos (IDT DNA) (see and Notes 4–6) Agencourt AMPure XP SPRI beads (Beckman-Coulter, cat. no. A63880) SYBR Gold stain (Invitrogen, cat. no. S11494) Costar® Spin-X® 0.22 µm Centrifuge Tube Filters (Corning, cat. no. 1860) SsoAdvanced Universal SYBR Green Supermix (BioRad, cat. no. 1725270) .. 2.2 Buffers Permeabilization Buffer: 10 mM Tris-Cl [pH 8.0], 10 mM KCl, 250 mM Sucrose, 5 mM MgCl2 , 1 mM EGTA, 0.1% (v/v) Igepal, 0.5 mM DTT, 0.05% (v/v) Tween-20, and 10% (v/v) Glycerol in DEPC H2 O.

    SYBR Green Assay:

    Article Title: A rapid, sensitive, scalable method for Precision Run-On sequencing (PRO-seq)
    Article Snippet: .. CAUTION: DEPC is toxic and harmful DEPC treated ddH2 O (0.1% v/v) 4 M KCl (see Note 1) 5 M NaCl (see Note 1) 1M MgCl2 (see Note 1) 10% (v/v) Triton X-100 (see Note 2) 2% (v/v) Sarkosyl (Sigma-Aldrich, cat. no. L5125) (see Note 2) 2% (v/v) Tween-20 (see Note 2) 10 % Igepal® CA-630 (Millipore Sigma cat. no. I8896) (see Note 2) 0.1 M DTT (see Note 2) 1 M Sucrose (see Note 2) 0.5 M EDTA, pH 8.0 (see Note 2) 0.1 M EGTA, pH 8.0 (see Note 2) Tris-Cl, pH 6.8 (See Note 2) Tris-Cl, pH 7.4 (See Note 2) Tris-Cl, pH 8.0 (See Note 2) Glycerol 1 N NaOH 100% Ethanol 75% Ethanol Biotin-11-CTP 10 mM (PerkinElmer, cat. no. NEL542001EA) Biotin-11-UTP 10 mM (PerkinElmer, cat. no. NEL543001EA) Biotin-11-GTP 10 mM (PerkinElmer, cat. no. NEL545001EA) Biotin-11-ATP 10 mM (PerkinElmer, cat. no. NEL544001EA) GTP, 100 mM (Roche, cat. no. 11277057001) ATP, 100 mM (Roche, cat. no. 11277057001) Trypan Blue Dynabeads™ MyOne™ Streptavidin C1 Beads (Invitrogen, cat. no. 65002) TRIzol™ Reagent (Invitrogen, cat. no. 15596018) TRIzol™ LS Reagent (Invitrogen, cat. no. 10296028) (optional, see Note 3) Total RNA Purification Kit (Norgen, cat. no. 37500) (optional, see Note 3) Chloroform GlycoBlue™ (Invitrogen, cat. no. AM9515) SUPERase-In™ RNase Inhibitor (20 U/µL) (Invitrogen, cat. no. AM2694) Pierce™ Protease Inhibitor Tablets (Thermo Scientific cat. no. A32963) T4 RNA Ligase (10 U/µL), supplied with 10X T4 RNA ligase buffer, 10 mM ATP and 50% (w/v) PEG8000 (NEB cat. no. M0204S) RNA 5’ pyrophosphohydrolase (RppH; 5 U/µL) (NEB, cat. no. M0356S) 10X ThermoPol Reaction Buffer (NEB, cat. no. B9004S) T4 polynucleotide kinase (PNK; 10 U/µL), supplied with 10X PNK buffer (NEB, cat. no. M0201) Maxima H Minus Reverse Transcriptase (200 U/µL) (Thermo Scientific, cat. no. EP0751) dNTP mix, 12.5mM each (Roche, cat. no. 03622614001) Q5® High-Fidelity DNA Polymerase, supplied with 5X Q5 Reaction Buffer and 5X High GC-Enhancer (NEB cat. no. M0491S) Micro Bio-Spin™ RNase free P-30 Gel Columns (Bio-Rad, cat. no. 7326250) (optional, see Note 3) RNA and DNA oligos (IDT DNA) (see and Notes 4–6) Agencourt AMPure XP SPRI beads (Beckman-Coulter, cat. no. A63880) SYBR Gold stain (Invitrogen, cat. no. S11494) Costar® Spin-X® 0.22 µm Centrifuge Tube Filters (Corning, cat. no. 1860) SsoAdvanced Universal SYBR Green Supermix (BioRad, cat. no. 1725270) .. 2.2 Buffers Permeabilization Buffer: 10 mM Tris-Cl [pH 8.0], 10 mM KCl, 250 mM Sucrose, 5 mM MgCl2 , 1 mM EGTA, 0.1% (v/v) Igepal, 0.5 mM DTT, 0.05% (v/v) Tween-20, and 10% (v/v) Glycerol in DEPC H2 O.

    Immunoprecipitation:

    Article Title: Landscape and Regulation of m6A and m6Am Methylome across Human and Mouse Tissues.
    Article Snippet: .. KEY RESOURCES TABLE REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-m6A polyclonal antibody Millipore Cat# ABE572 Chemicals, Peptides, and Recombinant Proteins DMEM GIBCO Cat# 11965 FBS GIBCO Cat# 10438-026 Pen/Strep GIBCO Cat# 15140 TRIzol Reagent Invitrogen Cat# 15596018 Nuclease P1 Sigma Cat# N8630 rSAP NEB Cat# M0371S Magnesium RNA fragmentation buffer NEB Cat# E6150S DNase I NEB Cat# M0303L RiboLock RNase Inhibitor Thermo Fisher Cat# EO0381 RppH NEB Cat# M0356S Dynabeads Protein G for Immunoprecipitation Thermo Fisher Cat# 10004D Dynabeads Protein A for Immunoprecipitation Thermo Fisher Cat# 10002D RNasin Plus RNase Inhibitor Promega Cat# N2615 N6-Methyladenosine 50-monophosphate sodium salt Sigma Cat# M2780 Critical Commercial Assays SMARTer Stranded Total RNA-SeqKit v2 - Pico Input Mammalian Takara - Clontech Cat# 634413 RevertAid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 Deposited Data m6A-seq data for human tissues and cell lines This paper GSA: CRA001315 m6A-seq data for mouse tissues This paper GSA: CRA001962 Protein expression data Human Proteome Map (HPM) http://www.humanproteomemap.org/ GTEx data Genotype-Tissue Expression (GTEx) https://gtexportal.org/home/ miRNA target site miRNA seed region miRbase http://www.mirbase.org miRNA target site starBase v3.0 http://starbase.sysu.edu.cn/index.php Human miRNA expression data miRmine http://guanlab.ccmb.med.umich.edu/mirmine/ rRNA of human mouse NCBI https://www.ncbi.nlm.nih.gov/gene/ Transcriptome reference under hg19 mm10 Refseq annotation UCSC table browser http://genome.ucsc.edu/cgi-bin/hgTables lncRNA reference LNCipedia https://lncipedia.org/download Orthologous gene annotation MGI http://www.informatics.jax.org/ Orthologous lncRNA annotation Sarropoulos et al., 2019 https://apps.kaessmannlab.org/lncRNA_app/ SNP database 90 Han Chinese genomes ftp://parrot.genomics.cn/gigadb/pub/10.5524/ 100001_101000/100302/90_Han_Chinese_ SNP_gatkvqsr_20170303.vcf.gz RNA binding proteins Zhu et al., 2019 http://lulab.life.tsinghua.edu.cn/postar/ GWAS Catalog NHGRI-EBI Catalog https://www.ebi.ac.uk/gwas/ PancanQTL Gong et al., 2018 http://bioinfo.life.hust.edu.cn/PancanQTL/ Experimental Models: Cell Lines Human: HEK293T cells ATCC Cat# CRL-3216, RRID: CVCL_0063 Human: HeLa cells ATCC Cat# CRM-CCL-2, RRID:CVCL_0030 (Continued on next page) e1 Molecular Cell 77, 1–15.e1–e6, February 6, 2020 .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Human: HT29 cells ATCC Cat# HTB-38, RRID:CVCL_0320 Human: GOS-3 cells DSMZ Cat# ACC-408, RRID:CVCL_2050 Human: K562 cells ATCC Cat# CCL-243, RRID:CVCL_0004 Human: U251 cells ECACC Cat# 09063001, RRID:CVCL_0021 Human: WPMY-1 cells ATCC Cat# CRL-2854, RRID:CVCL_3814 Human: U2OS cells ATCC Cat# HTB-96, RRID:CVCL_0042 Human: Jurkat cells ATCC Cat# TIB-152, RRID:CVCL_0367 Experimental Models: Organisms/Strains C57BL/6J Jackson Laboratory JAX: 000664 Oligonucleotides See Method Details for m6A-seq-qPCR based m6A level evaluation This paper N/A Software and Algorithms Trim_galore Babraham Institute http://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ TopHat2 v2.0.13 Kim et al., 2013 https://ccb.jhu.edu/software/tophat/ index.shtml samtools v1.7 Li, 2011 http://samtools.sourceforge.net/ MEME (Web-based) Bailey et al., 2009 http://meme-suite.org/tools/meme bedtools v2.27.1 Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ ANNOVAR Wang et al., 2010 http://annovar.openbioinformatics.org/en/ latest/ Homer v4.8 Heinz et al., 2010 http://homer.ucsd.edu/homer/ HISAT2 v2.1.0 Kim et al., 2015 https://ccb.jhu.edu/software/hisat2/index.shtml IGV v2.4.15 Thorvaldsdóttir et al., 2013 https://software.broadinstitute.org/software/igv/ Cufflinks v2.2.1 Trapnell et al., 2010 http://cole-trapnell-lab.github.io/cufflinks/ TissueEnrich Jain and Tuteja, 2019 https://tissueenrich.gdcb.iastate.edu Rtsne Seo and Lee, 2008 https://github.com/jkrijthe/Rtsne DOSE Yu et al., 2015 https://www.bioconductor.org/packages/ release/bioc/html/DOSE.html LDSC Bulik-Sullivan et al., 2015 https://github.com/bulik/ldsc

    Incubation:

    Article Title: ALKBH10B Is an RNA N6-Methyladenosine Demethylase Affecting Arabidopsis Floral Transition
    Article Snippet: .. The mixture was incubated at 37°C for an additional 5 h. For quantification of cap m6 Am , 100 ng poly(A) RNA was decapped with 20 units of RNA 5′pyrophosphohydrolase (RppH; M0356; New England Biolabs) in 1×Thermopol buffer (B9004S; New England Biolabs) for 3 h at 37°C, and then treated with Nuclease P1 and alkaline phosphatase as described above. ..

    Expressing:

    Article Title: Landscape and Regulation of m6A and m6Am Methylome across Human and Mouse Tissues.
    Article Snippet: .. KEY RESOURCES TABLE REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-m6A polyclonal antibody Millipore Cat# ABE572 Chemicals, Peptides, and Recombinant Proteins DMEM GIBCO Cat# 11965 FBS GIBCO Cat# 10438-026 Pen/Strep GIBCO Cat# 15140 TRIzol Reagent Invitrogen Cat# 15596018 Nuclease P1 Sigma Cat# N8630 rSAP NEB Cat# M0371S Magnesium RNA fragmentation buffer NEB Cat# E6150S DNase I NEB Cat# M0303L RiboLock RNase Inhibitor Thermo Fisher Cat# EO0381 RppH NEB Cat# M0356S Dynabeads Protein G for Immunoprecipitation Thermo Fisher Cat# 10004D Dynabeads Protein A for Immunoprecipitation Thermo Fisher Cat# 10002D RNasin Plus RNase Inhibitor Promega Cat# N2615 N6-Methyladenosine 50-monophosphate sodium salt Sigma Cat# M2780 Critical Commercial Assays SMARTer Stranded Total RNA-SeqKit v2 - Pico Input Mammalian Takara - Clontech Cat# 634413 RevertAid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 Deposited Data m6A-seq data for human tissues and cell lines This paper GSA: CRA001315 m6A-seq data for mouse tissues This paper GSA: CRA001962 Protein expression data Human Proteome Map (HPM) http://www.humanproteomemap.org/ GTEx data Genotype-Tissue Expression (GTEx) https://gtexportal.org/home/ miRNA target site miRNA seed region miRbase http://www.mirbase.org miRNA target site starBase v3.0 http://starbase.sysu.edu.cn/index.php Human miRNA expression data miRmine http://guanlab.ccmb.med.umich.edu/mirmine/ rRNA of human mouse NCBI https://www.ncbi.nlm.nih.gov/gene/ Transcriptome reference under hg19 mm10 Refseq annotation UCSC table browser http://genome.ucsc.edu/cgi-bin/hgTables lncRNA reference LNCipedia https://lncipedia.org/download Orthologous gene annotation MGI http://www.informatics.jax.org/ Orthologous lncRNA annotation Sarropoulos et al., 2019 https://apps.kaessmannlab.org/lncRNA_app/ SNP database 90 Han Chinese genomes ftp://parrot.genomics.cn/gigadb/pub/10.5524/ 100001_101000/100302/90_Han_Chinese_ SNP_gatkvqsr_20170303.vcf.gz RNA binding proteins Zhu et al., 2019 http://lulab.life.tsinghua.edu.cn/postar/ GWAS Catalog NHGRI-EBI Catalog https://www.ebi.ac.uk/gwas/ PancanQTL Gong et al., 2018 http://bioinfo.life.hust.edu.cn/PancanQTL/ Experimental Models: Cell Lines Human: HEK293T cells ATCC Cat# CRL-3216, RRID: CVCL_0063 Human: HeLa cells ATCC Cat# CRM-CCL-2, RRID:CVCL_0030 (Continued on next page) e1 Molecular Cell 77, 1–15.e1–e6, February 6, 2020 .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Human: HT29 cells ATCC Cat# HTB-38, RRID:CVCL_0320 Human: GOS-3 cells DSMZ Cat# ACC-408, RRID:CVCL_2050 Human: K562 cells ATCC Cat# CCL-243, RRID:CVCL_0004 Human: U251 cells ECACC Cat# 09063001, RRID:CVCL_0021 Human: WPMY-1 cells ATCC Cat# CRL-2854, RRID:CVCL_3814 Human: U2OS cells ATCC Cat# HTB-96, RRID:CVCL_0042 Human: Jurkat cells ATCC Cat# TIB-152, RRID:CVCL_0367 Experimental Models: Organisms/Strains C57BL/6J Jackson Laboratory JAX: 000664 Oligonucleotides See Method Details for m6A-seq-qPCR based m6A level evaluation This paper N/A Software and Algorithms Trim_galore Babraham Institute http://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ TopHat2 v2.0.13 Kim et al., 2013 https://ccb.jhu.edu/software/tophat/ index.shtml samtools v1.7 Li, 2011 http://samtools.sourceforge.net/ MEME (Web-based) Bailey et al., 2009 http://meme-suite.org/tools/meme bedtools v2.27.1 Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ ANNOVAR Wang et al., 2010 http://annovar.openbioinformatics.org/en/ latest/ Homer v4.8 Heinz et al., 2010 http://homer.ucsd.edu/homer/ HISAT2 v2.1.0 Kim et al., 2015 https://ccb.jhu.edu/software/hisat2/index.shtml IGV v2.4.15 Thorvaldsdóttir et al., 2013 https://software.broadinstitute.org/software/igv/ Cufflinks v2.2.1 Trapnell et al., 2010 http://cole-trapnell-lab.github.io/cufflinks/ TissueEnrich Jain and Tuteja, 2019 https://tissueenrich.gdcb.iastate.edu Rtsne Seo and Lee, 2008 https://github.com/jkrijthe/Rtsne DOSE Yu et al., 2015 https://www.bioconductor.org/packages/ release/bioc/html/DOSE.html LDSC Bulik-Sullivan et al., 2015 https://github.com/bulik/ldsc

    Staining:

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    Article Title: A rapid, sensitive, scalable method for Precision Run-On sequencing (PRO-seq)
    Article Snippet: .. CAUTION: DEPC is toxic and harmful DEPC treated ddH2 O (0.1% v/v) 4 M KCl (see Note 1) 5 M NaCl (see Note 1) 1M MgCl2 (see Note 1) 10% (v/v) Triton X-100 (see Note 2) 2% (v/v) Sarkosyl (Sigma-Aldrich, cat. no. L5125) (see Note 2) 2% (v/v) Tween-20 (see Note 2) 10 % Igepal® CA-630 (Millipore Sigma cat. no. I8896) (see Note 2) 0.1 M DTT (see Note 2) 1 M Sucrose (see Note 2) 0.5 M EDTA, pH 8.0 (see Note 2) 0.1 M EGTA, pH 8.0 (see Note 2) Tris-Cl, pH 6.8 (See Note 2) Tris-Cl, pH 7.4 (See Note 2) Tris-Cl, pH 8.0 (See Note 2) Glycerol 1 N NaOH 100% Ethanol 75% Ethanol Biotin-11-CTP 10 mM (PerkinElmer, cat. no. NEL542001EA) Biotin-11-UTP 10 mM (PerkinElmer, cat. no. NEL543001EA) Biotin-11-GTP 10 mM (PerkinElmer, cat. no. NEL545001EA) Biotin-11-ATP 10 mM (PerkinElmer, cat. no. NEL544001EA) GTP, 100 mM (Roche, cat. no. 11277057001) ATP, 100 mM (Roche, cat. no. 11277057001) Trypan Blue Dynabeads™ MyOne™ Streptavidin C1 Beads (Invitrogen, cat. no. 65002) TRIzol™ Reagent (Invitrogen, cat. no. 15596018) TRIzol™ LS Reagent (Invitrogen, cat. no. 10296028) (optional, see Note 3) Total RNA Purification Kit (Norgen, cat. no. 37500) (optional, see Note 3) Chloroform GlycoBlue™ (Invitrogen, cat. no. AM9515) SUPERase-In™ RNase Inhibitor (20 U/µL) (Invitrogen, cat. no. AM2694) Pierce™ Protease Inhibitor Tablets (Thermo Scientific cat. no. A32963) T4 RNA Ligase (10 U/µL), supplied with 10X T4 RNA ligase buffer, 10 mM ATP and 50% (w/v) PEG8000 (NEB cat. no. M0204S) RNA 5’ pyrophosphohydrolase (RppH; 5 U/µL) (NEB, cat. no. M0356S) 10X ThermoPol Reaction Buffer (NEB, cat. no. B9004S) T4 polynucleotide kinase (PNK; 10 U/µL), supplied with 10X PNK buffer (NEB, cat. no. M0201) Maxima H Minus Reverse Transcriptase (200 U/µL) (Thermo Scientific, cat. no. EP0751) dNTP mix, 12.5mM each (Roche, cat. no. 03622614001) Q5® High-Fidelity DNA Polymerase, supplied with 5X Q5 Reaction Buffer and 5X High GC-Enhancer (NEB cat. no. M0491S) Micro Bio-Spin™ RNase free P-30 Gel Columns (Bio-Rad, cat. no. 7326250) (optional, see Note 3) RNA and DNA oligos (IDT DNA) (see and Notes 4–6) Agencourt AMPure XP SPRI beads (Beckman-Coulter, cat. no. A63880) SYBR Gold stain (Invitrogen, cat. no. S11494) Costar® Spin-X® 0.22 µm Centrifuge Tube Filters (Corning, cat. no. 1860) SsoAdvanced Universal SYBR Green Supermix (BioRad, cat. no. 1725270) .. 2.2 Buffers Permeabilization Buffer: 10 mM Tris-Cl [pH 8.0], 10 mM KCl, 250 mM Sucrose, 5 mM MgCl2 , 1 mM EGTA, 0.1% (v/v) Igepal, 0.5 mM DTT, 0.05% (v/v) Tween-20, and 10% (v/v) Glycerol in DEPC H2 O.

    RNA Binding Assay:

    Article Title: Landscape and Regulation of m6A and m6Am Methylome across Human and Mouse Tissues.
    Article Snippet: .. KEY RESOURCES TABLE REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-m6A polyclonal antibody Millipore Cat# ABE572 Chemicals, Peptides, and Recombinant Proteins DMEM GIBCO Cat# 11965 FBS GIBCO Cat# 10438-026 Pen/Strep GIBCO Cat# 15140 TRIzol Reagent Invitrogen Cat# 15596018 Nuclease P1 Sigma Cat# N8630 rSAP NEB Cat# M0371S Magnesium RNA fragmentation buffer NEB Cat# E6150S DNase I NEB Cat# M0303L RiboLock RNase Inhibitor Thermo Fisher Cat# EO0381 RppH NEB Cat# M0356S Dynabeads Protein G for Immunoprecipitation Thermo Fisher Cat# 10004D Dynabeads Protein A for Immunoprecipitation Thermo Fisher Cat# 10002D RNasin Plus RNase Inhibitor Promega Cat# N2615 N6-Methyladenosine 50-monophosphate sodium salt Sigma Cat# M2780 Critical Commercial Assays SMARTer Stranded Total RNA-SeqKit v2 - Pico Input Mammalian Takara - Clontech Cat# 634413 RevertAid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 Deposited Data m6A-seq data for human tissues and cell lines This paper GSA: CRA001315 m6A-seq data for mouse tissues This paper GSA: CRA001962 Protein expression data Human Proteome Map (HPM) http://www.humanproteomemap.org/ GTEx data Genotype-Tissue Expression (GTEx) https://gtexportal.org/home/ miRNA target site miRNA seed region miRbase http://www.mirbase.org miRNA target site starBase v3.0 http://starbase.sysu.edu.cn/index.php Human miRNA expression data miRmine http://guanlab.ccmb.med.umich.edu/mirmine/ rRNA of human mouse NCBI https://www.ncbi.nlm.nih.gov/gene/ Transcriptome reference under hg19 mm10 Refseq annotation UCSC table browser http://genome.ucsc.edu/cgi-bin/hgTables lncRNA reference LNCipedia https://lncipedia.org/download Orthologous gene annotation MGI http://www.informatics.jax.org/ Orthologous lncRNA annotation Sarropoulos et al., 2019 https://apps.kaessmannlab.org/lncRNA_app/ SNP database 90 Han Chinese genomes ftp://parrot.genomics.cn/gigadb/pub/10.5524/ 100001_101000/100302/90_Han_Chinese_ SNP_gatkvqsr_20170303.vcf.gz RNA binding proteins Zhu et al., 2019 http://lulab.life.tsinghua.edu.cn/postar/ GWAS Catalog NHGRI-EBI Catalog https://www.ebi.ac.uk/gwas/ PancanQTL Gong et al., 2018 http://bioinfo.life.hust.edu.cn/PancanQTL/ Experimental Models: Cell Lines Human: HEK293T cells ATCC Cat# CRL-3216, RRID: CVCL_0063 Human: HeLa cells ATCC Cat# CRM-CCL-2, RRID:CVCL_0030 (Continued on next page) e1 Molecular Cell 77, 1–15.e1–e6, February 6, 2020 .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Human: HT29 cells ATCC Cat# HTB-38, RRID:CVCL_0320 Human: GOS-3 cells DSMZ Cat# ACC-408, RRID:CVCL_2050 Human: K562 cells ATCC Cat# CCL-243, RRID:CVCL_0004 Human: U251 cells ECACC Cat# 09063001, RRID:CVCL_0021 Human: WPMY-1 cells ATCC Cat# CRL-2854, RRID:CVCL_3814 Human: U2OS cells ATCC Cat# HTB-96, RRID:CVCL_0042 Human: Jurkat cells ATCC Cat# TIB-152, RRID:CVCL_0367 Experimental Models: Organisms/Strains C57BL/6J Jackson Laboratory JAX: 000664 Oligonucleotides See Method Details for m6A-seq-qPCR based m6A level evaluation This paper N/A Software and Algorithms Trim_galore Babraham Institute http://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ TopHat2 v2.0.13 Kim et al., 2013 https://ccb.jhu.edu/software/tophat/ index.shtml samtools v1.7 Li, 2011 http://samtools.sourceforge.net/ MEME (Web-based) Bailey et al., 2009 http://meme-suite.org/tools/meme bedtools v2.27.1 Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ ANNOVAR Wang et al., 2010 http://annovar.openbioinformatics.org/en/ latest/ Homer v4.8 Heinz et al., 2010 http://homer.ucsd.edu/homer/ HISAT2 v2.1.0 Kim et al., 2015 https://ccb.jhu.edu/software/hisat2/index.shtml IGV v2.4.15 Thorvaldsdóttir et al., 2013 https://software.broadinstitute.org/software/igv/ Cufflinks v2.2.1 Trapnell et al., 2010 http://cole-trapnell-lab.github.io/cufflinks/ TissueEnrich Jain and Tuteja, 2019 https://tissueenrich.gdcb.iastate.edu Rtsne Seo and Lee, 2008 https://github.com/jkrijthe/Rtsne DOSE Yu et al., 2015 https://www.bioconductor.org/packages/ release/bioc/html/DOSE.html LDSC Bulik-Sullivan et al., 2015 https://github.com/bulik/ldsc

    Recombinant:

    Article Title: Landscape and Regulation of m6A and m6Am Methylome across Human and Mouse Tissues.
    Article Snippet: .. KEY RESOURCES TABLE REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-m6A polyclonal antibody Millipore Cat# ABE572 Chemicals, Peptides, and Recombinant Proteins DMEM GIBCO Cat# 11965 FBS GIBCO Cat# 10438-026 Pen/Strep GIBCO Cat# 15140 TRIzol Reagent Invitrogen Cat# 15596018 Nuclease P1 Sigma Cat# N8630 rSAP NEB Cat# M0371S Magnesium RNA fragmentation buffer NEB Cat# E6150S DNase I NEB Cat# M0303L RiboLock RNase Inhibitor Thermo Fisher Cat# EO0381 RppH NEB Cat# M0356S Dynabeads Protein G for Immunoprecipitation Thermo Fisher Cat# 10004D Dynabeads Protein A for Immunoprecipitation Thermo Fisher Cat# 10002D RNasin Plus RNase Inhibitor Promega Cat# N2615 N6-Methyladenosine 50-monophosphate sodium salt Sigma Cat# M2780 Critical Commercial Assays SMARTer Stranded Total RNA-SeqKit v2 - Pico Input Mammalian Takara - Clontech Cat# 634413 RevertAid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 Deposited Data m6A-seq data for human tissues and cell lines This paper GSA: CRA001315 m6A-seq data for mouse tissues This paper GSA: CRA001962 Protein expression data Human Proteome Map (HPM) http://www.humanproteomemap.org/ GTEx data Genotype-Tissue Expression (GTEx) https://gtexportal.org/home/ miRNA target site miRNA seed region miRbase http://www.mirbase.org miRNA target site starBase v3.0 http://starbase.sysu.edu.cn/index.php Human miRNA expression data miRmine http://guanlab.ccmb.med.umich.edu/mirmine/ rRNA of human mouse NCBI https://www.ncbi.nlm.nih.gov/gene/ Transcriptome reference under hg19 mm10 Refseq annotation UCSC table browser http://genome.ucsc.edu/cgi-bin/hgTables lncRNA reference LNCipedia https://lncipedia.org/download Orthologous gene annotation MGI http://www.informatics.jax.org/ Orthologous lncRNA annotation Sarropoulos et al., 2019 https://apps.kaessmannlab.org/lncRNA_app/ SNP database 90 Han Chinese genomes ftp://parrot.genomics.cn/gigadb/pub/10.5524/ 100001_101000/100302/90_Han_Chinese_ SNP_gatkvqsr_20170303.vcf.gz RNA binding proteins Zhu et al., 2019 http://lulab.life.tsinghua.edu.cn/postar/ GWAS Catalog NHGRI-EBI Catalog https://www.ebi.ac.uk/gwas/ PancanQTL Gong et al., 2018 http://bioinfo.life.hust.edu.cn/PancanQTL/ Experimental Models: Cell Lines Human: HEK293T cells ATCC Cat# CRL-3216, RRID: CVCL_0063 Human: HeLa cells ATCC Cat# CRM-CCL-2, RRID:CVCL_0030 (Continued on next page) e1 Molecular Cell 77, 1–15.e1–e6, February 6, 2020 .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Human: HT29 cells ATCC Cat# HTB-38, RRID:CVCL_0320 Human: GOS-3 cells DSMZ Cat# ACC-408, RRID:CVCL_2050 Human: K562 cells ATCC Cat# CCL-243, RRID:CVCL_0004 Human: U251 cells ECACC Cat# 09063001, RRID:CVCL_0021 Human: WPMY-1 cells ATCC Cat# CRL-2854, RRID:CVCL_3814 Human: U2OS cells ATCC Cat# HTB-96, RRID:CVCL_0042 Human: Jurkat cells ATCC Cat# TIB-152, RRID:CVCL_0367 Experimental Models: Organisms/Strains C57BL/6J Jackson Laboratory JAX: 000664 Oligonucleotides See Method Details for m6A-seq-qPCR based m6A level evaluation This paper N/A Software and Algorithms Trim_galore Babraham Institute http://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ TopHat2 v2.0.13 Kim et al., 2013 https://ccb.jhu.edu/software/tophat/ index.shtml samtools v1.7 Li, 2011 http://samtools.sourceforge.net/ MEME (Web-based) Bailey et al., 2009 http://meme-suite.org/tools/meme bedtools v2.27.1 Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ ANNOVAR Wang et al., 2010 http://annovar.openbioinformatics.org/en/ latest/ Homer v4.8 Heinz et al., 2010 http://homer.ucsd.edu/homer/ HISAT2 v2.1.0 Kim et al., 2015 https://ccb.jhu.edu/software/hisat2/index.shtml IGV v2.4.15 Thorvaldsdóttir et al., 2013 https://software.broadinstitute.org/software/igv/ Cufflinks v2.2.1 Trapnell et al., 2010 http://cole-trapnell-lab.github.io/cufflinks/ TissueEnrich Jain and Tuteja, 2019 https://tissueenrich.gdcb.iastate.edu Rtsne Seo and Lee, 2008 https://github.com/jkrijthe/Rtsne DOSE Yu et al., 2015 https://www.bioconductor.org/packages/ release/bioc/html/DOSE.html LDSC Bulik-Sullivan et al., 2015 https://github.com/bulik/ldsc

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    Article Title: DNA Methylation and Histone H1 Jointly Repress Transposable Elements and Aberrant Intragenic Transcripts.
    Article Snippet: .. DNA methylation and histone H1 mediate transcriptional silencing of genes and transposable elements, but how they interact is unclear. ..

    Chromatin Immunoprecipitation:

    Article Title: Directed RNase H Cleavage of Nascent Transcripts Causes Transcription Termination.
    Article Snippet: .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism. .. An attractive approach to reduce gene expression is via the use of antisense oligonucleotides (ASOs) that harness the RNase H1 mechanism.

    ChIP-sequencing:

    Article Title: DNA Methylation and Histone H1 Jointly Repress Transposable Elements and Aberrant Intragenic Transcripts.
    Article Snippet: .. DNA methylation and histone H1 mediate transcriptional silencing of genes and transposable elements, but how they interact is unclear. ..

    Software:

    Article Title: DNA Methylation and Histone H1 Jointly Repress Transposable Elements and Aberrant Intragenic Transcripts.
    Article Snippet: .. DNA methylation and histone H1 mediate transcriptional silencing of genes and transposable elements, but how they interact is unclear. ..

    Similar Products

  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
  • 99
    New England Biolabs pyrophosphohydrolase
    Pyrophosphohydrolase, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/pyrophosphohydrolase/product/New England Biolabs
    Average 99 stars, based on 8 article reviews
    Price from $9.99 to $1999.99
    pyrophosphohydrolase - by Bioz Stars, 2020-09
    99/100 stars
      Buy from Supplier

    99
    New England Biolabs thermopol buffer new england biolabs
    Thermopol Buffer New England Biolabs, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/thermopol buffer new england biolabs/product/New England Biolabs
    Average 99 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    thermopol buffer new england biolabs - by Bioz Stars, 2020-09
    99/100 stars
      Buy from Supplier

    Image Search Results