cell extraction buffer c Search Results


sterile phosphate buffered solution  (Thermo Fisher)
99
Thermo Fisher sterile phosphate buffered solution
Data obtained from the chosen articles.
Sterile Phosphate Buffered Solution, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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dna ligation buffer  (New England Biolabs)
97
New England Biolabs dna ligation buffer
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Dna Ligation Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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m per mammalian extraction buffer  (Thermo Fisher)
86
Thermo Fisher m per mammalian extraction buffer
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
M Per Mammalian Extraction Buffer, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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denaturing cell extraction buffer  (Thermo Fisher)
90
Thermo Fisher denaturing cell extraction buffer
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Denaturing Cell Extraction Buffer, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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cell extract buffer  (Thermo Fisher)
99
Thermo Fisher cell extract buffer
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Cell Extract Buffer, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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protein lysate buffer  (Cell Signaling Technology Inc)
98
Cell Signaling Technology Inc protein lysate buffer
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Protein Lysate Buffer, supplied by Cell Signaling Technology Inc, used in various techniques. Bioz Stars score: 98/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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extraction buffer (eb) (1x ip buffer, 100 mm nacl, 1 mm dtt)  (Thermo Fisher)
90
Thermo Fisher extraction buffer (eb) (1x ip buffer, 100 mm nacl, 1 mm dtt)
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Extraction Buffer (Eb) (1x Ip Buffer, 100 Mm Nacl, 1 Mm Dtt), supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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dnase i  (Thermo Fisher)
99
Thermo Fisher dnase i
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Dnase I, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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trizol solution  (Thermo Fisher)
99
Thermo Fisher trizol solution
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Trizol Solution, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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wash buffer with pi  (Thermo Fisher)
86
Thermo Fisher wash buffer with pi
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Wash Buffer With Pi, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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taq dna polymerase  (New England Biolabs)
99
New England Biolabs taq dna polymerase
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
Taq Dna Polymerase, 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
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t7 2× rapid ligation buffer  (New England Biolabs)
96
New England Biolabs t7 2× rapid ligation buffer
a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and <t>DNA</t> is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after <t>adaptor</t> <t>ligation.</t> The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.
T7 2× Rapid Ligation Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Image Search Results


Data obtained from the chosen articles.

Journal: The Science of the Total Environment

Article Title: Sampling methods and assays applied in SARS-CoV-2 exposure assessment

doi: 10.1016/j.scitotenv.2021.145903

Figure Lengend Snippet: Data obtained from the chosen articles.

Article Snippet: , 34. SARS-CoV-2 RNA contamination on surfaces of a COVID-19 ward in a hospital of Northern Italy: what risk of transmission? , Italy , No , Surface samples from ward in University Hospital of Ferrara , Sampling performed with sterile rayon swabs pre-moistened in sterile phosphate-buffered solution , Viral RNA extraction with Patho Gene-spin Extraction kit (Generon) RT-qPCR targeted the RNA-dependent RNA polymerase ( RdRp ) gene (Generon), and the orf1ab , spike ( S ), and nucleocapsid ( N ) genes (ThermoFisher) , • SARS-CoV-2 was only detected in 3 samples of two floors and one-bathroom sink. • Reported to persist for a longer duration on surfaces under controlled laboratory conditions. , ( ) .

Techniques: Sampling, Lysis, RNA Extraction, Environmental Monitoring, Virus, Multiplex Assay, Northern Blot, Marker, RNA Detection, Isolation, Membrane, Control, Environmental Sampling, Amplification, Transmission Assay, Aerosol, Diagnostic Assay, Infection, Sterility, Real-time Polymerase Chain Reaction, Nested PCR, Reverse Transcription, Extraction, Purification, Digital PCR, Preserving, Quantitative RT-PCR, cDNA Synthesis, Magnetic Beads, Incubation, Modification, One Step RT-PCR, Cell Culture, Sequencing

a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and DNA is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after adaptor ligation. The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet: a, Polyacrylamide gel image of library products after paired-end tagging by MmeI. Red arrows indicate the locations where gel slices are cut and DNA is recovered. Although lacking discernable bands, the slice that was cut at ~100 bp for the mock sample (see Step 114 for details) contains adequate background DNA to serve as a control sample for downstream steps. Image adapted with permission from Li et al.8, Springer Nature. b, Polyacrylamide gel image of library products after adaptor ligation. The two distinct bands in the sample lane are adaptor-ligated products. The red arrow indicates the band containing the product ligated at both ends that needs to be recovered for downstream steps in library construction. c, Polyacrylamide gel image of library products after PCR amplification. The final library products, indicated by the red arrow, all have a precise size of 194 bp. The sample lanes of the gel images in a, b and c are quantified, and the normalized intensity is illustrated on the right side of each gel. PET, paired-end tag that denotes a linker simultaneously ligated with RNA and DNA on each side; ST, singleton tag that denotes one-side-ligated linker.

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Ligation, Amplification, Paired-end Tag

Troubleshooting table

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet: Troubleshooting table

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Oligo Synthesis, Concentration Assay, Incubation, Cell Culture, Centrifugation, Transferring, Microscopy, DNA Extraction, DNA Ligation, Ligation, Gel Extraction, Electrophoresis, Purification, Paired-end Tag, Amplification, Generated, Staining, Activity Assay

Table 1

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet: Table 1

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Concentration Assay

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet:

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Concentration Assay, DNA Ligation

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet:

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Concentration Assay, DNA Ligation

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet:

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Concentration Assay

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet:

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Concentration Assay

Table 1

Journal: Nature protocols

Article Title: GRID-seq for comprehensive analysis of global RNA–chromatin interactions

doi: 10.1038/s41596-019-0172-4

Figure Lengend Snippet: Table 1

Article Snippet: Reagent Volume (μl) per reaction Final concentration Nuclease-free distilled water 352 10× DNA Ligation Buffer (supplied with T4 DNA ligase from New England Biolabs, without PEG) 40 1× RiboLock RNase inhibitor 4 0.4 U/µl 10% (vol/vol) Tween 20 4 0.1% Total 400 Open in a separate window .

Techniques: Concentration Assay