cacl2  (New England Biolabs)


Bioz Verified Symbol New England Biolabs is a verified supplier  
  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
  • 99
    Name:
    Micrococcal Nuclease
    Description:
    Micrococcal Nuclease 320 000 gel units
    Catalog Number:
    M0247S
    Price:
    74
    Size:
    320 000 gel units
    Category:
    Exonucleases
    Score:
    85
    Buy from Supplier


    Structured Review

    New England Biolabs cacl2
    Micrococcal Nuclease
    Micrococcal Nuclease 320 000 gel units
    https://www.bioz.com/result/cacl2/product/New England Biolabs
    Average 99 stars, based on 0 article reviews
    Price from $9.99 to $1999.99
    cacl2 - by Bioz Stars, 2019-12
    99/100 stars

    Images

    Related Articles

    Centrifugation:

    Article Title: N6-methyladenine is an epigenetic marker of mammalian early life stress
    Article Snippet: Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp). .. Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp).

    Article Title: TRF2 is recruited to the pre-initiation complex as a testis-specific subunit of TFIIA/ALF to promote haploid cell gene expression
    Article Snippet: The cell pellet was collected by centrifugation for 5 min at 4000 rpm, lysed in 5 volumes of lysis buffer (50 mM Tris pH8, 10 mM EDTA, 1% SDS, protease inhibitors) and sonicated for 10 min on a Covaris sonicator. .. The lysate was sonicated for 30 sec as described above, CaCl2 and MgCl2 were added to 5 mM final concentration each and digestion was performed with MNase (10 gel units/uL final) (M0247S, New England BioLabs) for 10 min of incubation.

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: For DNA purification, Crithidia mellificae (∼106 trypanosomes/mL culture medium) were pelleted by centrifugation (800×g for 6 min) and washed with PBS prior to DNA extraction. .. Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    Article Title: Transient Downregulation of Nanog and Oct4 Induced by DETA/NO Exposure in Mouse Embryonic Stem Cells Leads to Mesodermal/Endodermal Lineage Differentiation
    Article Snippet: Following centrifugation at 4°C for 5 min, supernatants were discarded and pellets were washed by gentle inversion with 10 mM Tris HCl buffer, pH 8.0 containing 15 mM NaCl, and 60 mM KCl and centrifuged for 5 min at 4°C. .. Pellets were then resuspended in washing buffer supplemented with 3 mM CaCl2 , protease inhibitors, 0.5 mM DTT, and 5–10 μ L of 1 : 200 micrococcal nuclease (New England BioLabs) and incubated for 20 min at 37°C with orbital shaking.

    Article Title: Androgen Receptor Serine 81 Phosphorylation Mediates Chromatin Binding and Transcriptional Activation
    Article Snippet: The supernatant was removed and saved, and the pellet was resuspended in 100 μl of TLB containing 50 m m of NaCl and gently shaken for 10 min in at 4 °C, followed by centrifugation at 11,000 × g for 5 min. .. The insoluble fraction (pellet left from cytoplasmic and nuclear protein extraction) was suspended in 40 μl of micrococcal nuclease digestion buffer (M0247, New England Biolabs), kept at room temperature, and treated with 600 units of micrococcal nuclease for 2 min.

    Amplification:

    Article Title: Nucleosome positioning in the regulatory region of SV40 chromatin correlates with the activation and repression of early and late transcription during infection
    Article Snippet: Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C. .. Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C.

    Polymerase Chain Reaction:

    Article Title: Measuring Nucleosome Assembly Activity in vitro with the Nucleosome Assembly and Quantification (NAQ) Assay
    Article Snippet: Low retention pipette tips (USA Scientific) PCR tubes (USA Scientific, catalog number: 1402-4308) 1.5 ml tubes (Fisher Scientific, catalog number: 05-408-129) 207 bp DNA (procedure explained in ) Loading control DNA [of length between 400 and 1,000 bp, we use a 621 bp DNA (procedure explained in )] Refolded H2A-H2B (procedure explained in ) or H2A-H2B labeled with ATTO 647N (procedure explained in ). .. Refolded (H3-H4)2 (procedure explained in ) Recombinant histone chaperone Salt-assembled nucleosome (procedures explained in ) 50% glycerol (autoclaved and stored at room temperature) 50 bp DNA ladder (Gold Bio, catalog number: D100-500) 10x MNase buffer (New England Biolabs, provided with M0247S) 100x BSA (New England Biolabs, catalog number: B9001) Note: This product has been discontinued.

    Article Title: Nucleosome positioning in the regulatory region of SV40 chromatin correlates with the activation and repression of early and late transcription during infection
    Article Snippet: Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C. .. Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C.

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: DNA was extracted using the DNeasy Genomic DNA Extraction Kit (Qiagen) as per the manufacturer's instructions. .. Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB). .. Total nucleic acid from all twenty monitor hives at time-point 17 (August 5, 2009) was pooled (approximately 3 µg per hive).

    Article Title: Single-molecule compaction of megabase-long chromatin molecules by multivalent cations
    Article Snippet: Chromatin was digested by Micrococcal Nuclease (MNase) (New England Biolabs) following established procedure with modifications ( ). .. After the addition of 25 μg of Proteinase K (Thermofisher Scientific), the solution was incubated at 50°C for 30 min.

    Article Title: DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution
    Article Snippet: Single cells were sorted directly into 100 μl lysis buffer (nuclei isolation buffer, NucleiEZ kit, Sigma) in flexible unskirted PCR plates (Bio-Rad) fitted into a rigid plate holder for sorting and spinning. .. Next, 40 μl of 1.25× micrococcal nuclease (MNase) master mix (62.5 mM Tris-HCl pH 7.9, 6.25 mM CaCl, 0.03125 U/μl MNase enzyme, New England Biolabs) was added to each well containing a nucleus (as well as to no-cell negative-control wells containing only lysis buffer).

    Construct:

    Article Title: Determinants of nucleosome positioning and their influence on plant gene expression
    Article Snippet: For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform. .. For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform.

    Incubation:

    Article Title: ASSAY DEVELOPMENT AND HIGH THROUGHPUT SCREENING FOR INHIBITORS OF KAPOSI'S SARCOMA-ASSOCIATED HERPESVIRUS N-TERMINAL LANA BINDING TO NUCLEOSOMES
    Article Snippet: Flow-through containing RBC nuclei was centrifuged 5 min at 3500xg and pelleted nuclei were washed once with 10 volumes RBC lysis buffer followed by two additional washes (or until the supernatant and pellet were no longer red) with washing buffer (RBC lysis buffer without NP-40). .. Nuclei were then resuspended in micronuclease (MNase) buffer (15mM HEPES pH 7.5, 65mM NaCl, 65mM KCl, 2mM MgCl2 , 5mM CaCl2 and Complete EDTA-Free protease inhibitors cocktail tablet [Roche]) and incubated 2h at 37°C with 800 kunitz units MNase (NEB #M0247S)/10mL MNase buffer, to generate short chromatin of 1-6 nucleosomes long. .. MNase digests linker DNA.

    Article Title: N6-methyladenine is an epigenetic marker of mammalian early life stress
    Article Snippet: Samples were homogenized with a pestle then lightly sonicated via probe-based sonication to fully lyse cells and the nuclear envelope. .. Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp). .. The MNase reaction was stopped with 1.25 μmol EGTA.

    Article Title: TRF2 is recruited to the pre-initiation complex as a testis-specific subunit of TFIIA/ALF to promote haploid cell gene expression
    Article Snippet: Nuclei were washed once with 1X PBS and spin and resuspended in 2 volumes of MNase lysis buffer (50 mM Tris pH8, 0.5% Na deoxycholate). .. The lysate was sonicated for 30 sec as described above, CaCl2 and MgCl2 were added to 5 mM final concentration each and digestion was performed with MNase (10 gel units/uL final) (M0247S, New England BioLabs) for 10 min of incubation. .. The reaction was stopped by addition of EDTA to 10 mM final concentration.

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: Transformed cells were grown overnight at 37 °C with shaking and 100 µl of this culture was used to inoculate 5 ml of fresh medium. .. Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested. .. The cell lysate was brought to a volume of 1 ml with binding buffer [20 mM Tris/HCl (pH 7.5), 500 mM NaCl and 0.05 % Tween-20] and a 300 µl volume was retained as crude lysate.

    Article Title: Nonantibiotic Effects of Fluoroquinolones in Mammalian Cells
    Article Snippet: RNase A solution (Thermo Scientific, final concentration 10 mg/ml) and proteinase K solution (Sigma, final concentration 10 mg/ml) were added to the lysed nuclei and incubated overnight at 55 °C. .. The resulting 40-μl mixture contained 3 μg of DNA, 1× micrococcal nuclease buffer (New England Biolabs), 400 mm MgCl2 , 4 mm ZnCl2 , 20 units of deoxyribonuclease I (New England Biolabs), 2000 units of micrococcal nuclease I (New England Biolabs), 5 units of antarctic phosphatase (New England Biolabs), and 0.4 units of snake venom phosphodiesterase.

    Article Title: Single-molecule compaction of megabase-long chromatin molecules by multivalent cations
    Article Snippet: Chromatin was digested by Micrococcal Nuclease (MNase) (New England Biolabs) following established procedure with modifications ( ). .. Digestion was stopped by addition of EDTA to 100 mM final concentration.

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Beads were collected and washed twice with Wash Buffer (1X PBS with 0.1% SDS, 0.5% sodium deoxycholate, and 0.5% NP-40), twice with High Salt Wash Buffer (5X PBS, 0.1% SDS, 0.5% sodium deoxycholate, and 0.5% NP-40) and twice with Polynucleotide Kinase Buffer (PNK Buffer) (50 mM Tris-Cl pH 7.4, 10 mM MgCl2 and 0.5% NP-40). .. Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min). .. Beads were then washed twice with PNK+EGTA Buffer (50 mM Tris-Cl pH 7.4, 20 mM EGTA and 0.5% NP-40), twice with Wash Buffer and twice with PNK Buffer.

    Article Title: Transient Downregulation of Nanog and Oct4 Induced by DETA/NO Exposure in Mouse Embryonic Stem Cells Leads to Mesodermal/Endodermal Lineage Differentiation
    Article Snippet: Following centrifugation at 4°C for 5 min, supernatants were discarded and pellets were washed by gentle inversion with 10 mM Tris HCl buffer, pH 8.0 containing 15 mM NaCl, and 60 mM KCl and centrifuged for 5 min at 4°C. .. Pellets were then resuspended in washing buffer supplemented with 3 mM CaCl2 , protease inhibitors, 0.5 mM DTT, and 5–10 μ L of 1 : 200 micrococcal nuclease (New England BioLabs) and incubated for 20 min at 37°C with orbital shaking. .. Nuclease activity was halted by addition of 20 μ L 0.5 mM EDTA and preparations were then centrifuged for 5 min at 3000 rpm.

    Expressing:

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: Paragraph title: Tandem SigO/RsoA expression and pull-down assays. ... Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested.

    Article Title: Determinants of nucleosome positioning and their influence on plant gene expression
    Article Snippet: For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform. .. Instead of cutting the 150 bp DNA fragments from the agarose gels , all the purified DNA fragments were used to construct libraries for 50-bp paired-end (PE) sequencing, following an approach that evaluates not only nucleosome occupancy but also regulator binding sites ( ).

    Cell Fractionation:

    Article Title: Androgen Receptor Serine 81 Phosphorylation Mediates Chromatin Binding and Transcriptional Activation
    Article Snippet: Paragraph title: Cellular Fractionation Assay ... The insoluble fraction (pellet left from cytoplasmic and nuclear protein extraction) was suspended in 40 μl of micrococcal nuclease digestion buffer (M0247, New England Biolabs), kept at room temperature, and treated with 600 units of micrococcal nuclease for 2 min.

    Modification:

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min). .. Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min).

    Transformation Assay:

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested. .. Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested.

    RNA Binding Assay:

    Article Title: Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor
    Article Snippet: The beads tethering SBP-eIF4A were treated with 1x Micrococcal Nuclease Buffer (NEB), 0.5x lysis buffer, 0.5% Triton X-100, and 200 U/μl Micrococcal Nuclease (NEB) in 30 μl at 25 °C for 30 min, washed 5 times with lysis buffer containing 1% Triton X-100, 1M NaCl, and 5 mM EGTA pH 7.4, and rinsed twice with lysis buffer containing 0.1% Triton X-100. .. SBP-eIF4A/RNA complex was eluted with 30 μl of lysis buffer containing 0.1% Triton X-100, 2 mM AMP-PNP, and 5 mM biotin.

    Flow Cytometry:

    Article Title: ASSAY DEVELOPMENT AND HIGH THROUGHPUT SCREENING FOR INHIBITORS OF KAPOSI'S SARCOMA-ASSOCIATED HERPESVIRUS N-TERMINAL LANA BINDING TO NUCLEOSOMES
    Article Snippet: Flow-through containing RBC nuclei was centrifuged 5 min at 3500xg and pelleted nuclei were washed once with 10 volumes RBC lysis buffer followed by two additional washes (or until the supernatant and pellet were no longer red) with washing buffer (RBC lysis buffer without NP-40). .. Nuclei were then resuspended in micronuclease (MNase) buffer (15mM HEPES pH 7.5, 65mM NaCl, 65mM KCl, 2mM MgCl2 , 5mM CaCl2 and Complete EDTA-Free protease inhibitors cocktail tablet [Roche]) and incubated 2h at 37°C with 800 kunitz units MNase (NEB #M0247S)/10mL MNase buffer, to generate short chromatin of 1-6 nucleosomes long.

    Immunoprecipitation:

    Article Title: Transient Downregulation of Nanog and Oct4 Induced by DETA/NO Exposure in Mouse Embryonic Stem Cells Leads to Mesodermal/Endodermal Lineage Differentiation
    Article Snippet: Pellets were then resuspended in washing buffer supplemented with 3 mM CaCl2 , protease inhibitors, 0.5 mM DTT, and 5–10 μ L of 1 : 200 micrococcal nuclease (New England BioLabs) and incubated for 20 min at 37°C with orbital shaking. .. Supernatants were discarded and pellets were resuspended in buffer containing 150 mM NaCl, 50 mM Tris HCl (pH 7.5), 5 mM EDTA, 0.5% NP-40, 1% Triton, and 0.01% SDS and sonicated with 3 pulses, 10 s each at 10% amplitude.

    Protease Inhibitor:

    Article Title: N6-methyladenine is an epigenetic marker of mammalian early life stress
    Article Snippet: Samples were washed 2x with PBS and cOmplete protease inhibitor (CPI) tablets (Roche, Basel, Switzerland; catalog #04693116001) then resuspended in 400 μL RIPA lysis buffer + CPI tablets. .. Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp).

    Article Title: Determinants of nucleosome positioning and their influence on plant gene expression
    Article Snippet: The harvested samples were ground with liquid nitrogen and divided into three aliquots for nucleosome genomic DNA (gDNA), naked gDNA, and RNA isolation. .. For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform. .. To generate the naked gDNA sample, the gDNA was isolated without the nucleus isolation step as described previously , purified with phenol/chloroform to strip off proteins, and digested with 0.25 units/μL MNase (NEB) for 1.75 or 3 min.

    Article Title: Ectopic T Cell Receptor-? Locus Control Region Activity in B Cells Is Suppressed by Direct Linkage to Two Flanking Genes at Once
    Article Snippet: Thymocytes and B cells of analyzed transgenic mouse lines were fixed in 10 ml RPMI medium with 1% formaldehyde at room temperature for 10 minutes. .. The cells were washed twice with 1× PBS and the cell pellets were re-suspended in 1 ml 1× micrococcal nuclease (MNase) buffer (NEB) containing 2.5 µl protease inhibitor cocktail (Sigma) and 1 µl 100 mM PMSF. .. Nucleosomes were prepared by incubating with 500 units of MNase (NEB) for 10 minutes at 37°C.

    Article Title: Androgen Receptor Serine 81 Phosphorylation Mediates Chromatin Binding and Transcriptional Activation
    Article Snippet: For extraction, LNCaP cells grown in a 10-cm dish were washed once in cold PBS, harvested for resuspension in 800 μl of TLB containing protease inhibitor and phosphatase inhibitor but no salt (NaCl), vortexed, and kept on ice for 15 min, followed by centrifugation at 11,000 × g for 5 min. .. The insoluble fraction (pellet left from cytoplasmic and nuclear protein extraction) was suspended in 40 μl of micrococcal nuclease digestion buffer (M0247, New England Biolabs), kept at room temperature, and treated with 600 units of micrococcal nuclease for 2 min.

    Transferring:

    Article Title: Measuring Nucleosome Assembly Activity in vitro with the Nucleosome Assembly and Quantification (NAQ) Assay
    Article Snippet: Low retention pipette tips (USA Scientific) PCR tubes (USA Scientific, catalog number: 1402-4308) 1.5 ml tubes (Fisher Scientific, catalog number: 05-408-129) 207 bp DNA (procedure explained in ) Loading control DNA [of length between 400 and 1,000 bp, we use a 621 bp DNA (procedure explained in )] Refolded H2A-H2B (procedure explained in ) or H2A-H2B labeled with ATTO 647N (procedure explained in ). .. Refolded (H3-H4)2 (procedure explained in ) Recombinant histone chaperone Salt-assembled nucleosome (procedures explained in ) 50% glycerol (autoclaved and stored at room temperature) 50 bp DNA ladder (Gold Bio, catalog number: D100-500) 10x MNase buffer (New England Biolabs, provided with M0247S) 100x BSA (New England Biolabs, catalog number: B9001) Note: This product has been discontinued.

    Hemagglutination Assay:

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: The rsoA gene (and mutant derivatives of the gene) was fused to the T25 cyaA gene fragment and an HA epitope was imparted 3′ to rsoA . .. Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested.

    Light Microscopy:

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: Light microscopy of live parasites was performed using a Leica DM6000 microscope equipped with Hamamatsu C4742-95 camera and Volocity Software (PerkinElmer). .. Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    Imaging:

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: Imaging fixed parasites (4% paraformaldehyde, 20 min) facilitated visualization of DAPI (4′,6-diamidino-2-phenylindole) stained nuclear and kinetoplast DNA. .. Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    Sequencing:

    Article Title: Nucleosome positioning in the regulatory region of SV40 chromatin correlates with the activation and repression of early and late transcription during infection
    Article Snippet: Paragraph title: 4.4. Preparation of sequencing libraries from SV40 chromatin fragmented by either sonication or micrococcal nuclease digestion ... Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C.

    Article Title: Determinants of nucleosome positioning and their influence on plant gene expression
    Article Snippet: For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform. .. For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform.

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Paragraph title: Crosslinking Immunoprecipitation and deep sequencing (CLIP-seq) in C. elegans ... Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min).

    Sonication:

    Article Title: N6-methyladenine is an epigenetic marker of mammalian early life stress
    Article Snippet: Samples were homogenized with a pestle then lightly sonicated via probe-based sonication to fully lyse cells and the nuclear envelope. .. Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp).

    Article Title: TRF2 is recruited to the pre-initiation complex as a testis-specific subunit of TFIIA/ALF to promote haploid cell gene expression
    Article Snippet: Nuclei were washed once with 1X PBS and spin and resuspended in 2 volumes of MNase lysis buffer (50 mM Tris pH8, 0.5% Na deoxycholate). .. The lysate was sonicated for 30 sec as described above, CaCl2 and MgCl2 were added to 5 mM final concentration each and digestion was performed with MNase (10 gel units/uL final) (M0247S, New England BioLabs) for 10 min of incubation. .. The reaction was stopped by addition of EDTA to 10 mM final concentration.

    Article Title: Nucleosome positioning in the regulatory region of SV40 chromatin correlates with the activation and repression of early and late transcription during infection
    Article Snippet: The sample (200 μl) in an Eppendorf tube was placed in a cup containing cold flowing water for cooling. .. Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C. .. Following digestion, the DNA was purified as described for sonicated DNA.

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Worms were lysed by sonication in Homogenization Buffer (100 mM NaCl, 25 mM HEPES, 250 μM EDTA, 2 mM DTT, 0.1% NP-40, 25 units/ml RNasin and Protease Inhibitors). .. Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min).

    Article Title: Transient Downregulation of Nanog and Oct4 Induced by DETA/NO Exposure in Mouse Embryonic Stem Cells Leads to Mesodermal/Endodermal Lineage Differentiation
    Article Snippet: Pellets were then resuspended in washing buffer supplemented with 3 mM CaCl2 , protease inhibitors, 0.5 mM DTT, and 5–10 μ L of 1 : 200 micrococcal nuclease (New England BioLabs) and incubated for 20 min at 37°C with orbital shaking. .. Nuclease activity was halted by addition of 20 μ L 0.5 mM EDTA and preparations were then centrifuged for 5 min at 3000 rpm.

    Recombinant:

    Article Title: Measuring Nucleosome Assembly Activity in vitro with the Nucleosome Assembly and Quantification (NAQ) Assay
    Article Snippet: Low retention pipette tips (USA Scientific) PCR tubes (USA Scientific, catalog number: 1402-4308) 1.5 ml tubes (Fisher Scientific, catalog number: 05-408-129) 207 bp DNA (procedure explained in ) Loading control DNA [of length between 400 and 1,000 bp, we use a 621 bp DNA (procedure explained in )] Refolded H2A-H2B (procedure explained in ) or H2A-H2B labeled with ATTO 647N (procedure explained in ). .. Refolded (H3-H4)2 (procedure explained in ) Recombinant histone chaperone Salt-assembled nucleosome (procedures explained in ) 50% glycerol (autoclaved and stored at room temperature) 50 bp DNA ladder (Gold Bio, catalog number: D100-500) 10x MNase buffer (New England Biolabs, provided with M0247S) 100x BSA (New England Biolabs, catalog number: B9001) Note: This product has been discontinued. .. Micrococcal nuclease (MNase) (New England Biolabs, catalog number: M0247S) MinElute kit (QIAGEN, catalog number: 28006) Proteinase K, 20 mg/ml solution (BioExpress, catalog number: E195-5ML) Tris (2-Carboxyethyl) phosphine Hydrochloride (TCEP) (Gold Bio, catalog number: TCEP100) Sodium hydroxide (NaOH) (Fisher Scientific, catalog number: S318-3) Tris base (Fisher Scientific, catalog number: BP152-5) Sodium chloride (NaCl) (Fisher Scientific, catalog number: S271-10) 500 mM EDTA solution at pH ~8 (stored at room temperature) Tween-20 (Fisher Scientific, catalog number: BP337) SYBR Gold nucleic acid gel stain (Thermo Fisher Scientific, Invitrogen™ , catalog number: S11494) Boric acid (Acros Organics, catalog number: 180570025) Ammonium persulfate (AMRESCO, catalog number: 0486) 30% acrylamide 37.5:1 (Life science Products, catalog number: EC-890) Tetramethylethylenediamine (TEMED) (Fisher Scientific, catalog number: BP150-20) Bromophenol blue (Fisher Scientific, catalog number: B392-5) Xylene cyanol FF (Sigma Aldrich, catalog number: X4126) Sodium acetate (Fisher Scientific, catalog number: S210-500) Acetic acid (Avantor Performance Materials, catalog number: V193-46) 1 M TCEP (Tris (2-Carboxyethyl) phosphine Hydrochloride; see Recipes) NA buffer (see Recipes) SYBR Gold stain solution (see Recipes) 10x TBE (Tris/Borate/EDTA; see Recipes) 25% APS (Ammonium Persulfate; see Recipes) 6% PAGE gels (see Recipes) 10% PAGE gels (see Recipes) DNA sample buffer (see Recipes) 3 M Na acetate pH 5.0 solution (see Recipes)

    Staining:

    Article Title: The ATP-dependent chromatin remodeling enzymes CHD6, CHD7, and CHD8 exhibit distinct nucleosome binding and remodeling activities
    Article Snippet: After 30 min, 1.5 mm final CaCl2 and 1 gel unit of MNase (New England Biolabs, M0247S) were supplemented, and the reaction proceeded at 37 °C for 10 min. .. DNA was immediately mixed with loading dye and subjected to 0.5× TBE 4% (29:1) native PAGE at 100 V for 40 min.

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: Imaging fixed parasites (4% paraformaldehyde, 20 min) facilitated visualization of DAPI (4′,6-diamidino-2-phenylindole) stained nuclear and kinetoplast DNA. .. Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    DNA Extraction:

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: DNA was extracted using the DNeasy Genomic DNA Extraction Kit (Qiagen) as per the manufacturer's instructions. .. Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    Article Title: Nonantibiotic Effects of Fluoroquinolones in Mammalian Cells
    Article Snippet: Paragraph title: Genomic DNA Extraction and Hydrolysis ... The resulting 40-μl mixture contained 3 μg of DNA, 1× micrococcal nuclease buffer (New England Biolabs), 400 mm MgCl2 , 4 mm ZnCl2 , 20 units of deoxyribonuclease I (New England Biolabs), 2000 units of micrococcal nuclease I (New England Biolabs), 5 units of antarctic phosphatase (New England Biolabs), and 0.4 units of snake venom phosphodiesterase.

    DNA Purification:

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: Paragraph title: Crithidia mellificae strain SF - Microscopy, Culturing and DNA Purification ... Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    Methylation:

    Article Title: Planarian MBD2/3 is required for adult stem cell pluripotency independently of DNA methylation
    Article Snippet: Genomic DNA was prepared from S. mediterranea , which had been starved for at least 2 weeks weeks to minimize any potential dietary source of methylated DNA. .. Each 20 ml reaction contained S. mediterranea DNA, 5 units of Antarctic Phosphatase (NEB) and 2 mU Snake venom Phosphodiesterase (Phosphodiesterase I from Crotalus adamentus venom; Sigma) in a buffer that was 0.5×Micrococcal Nuclease Buffer (NEB) and 0.5×Antarctic Phosphatase Buffer (NEB).

    Mutagenesis:

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: The rsoA gene (and mutant derivatives of the gene) was fused to the T25 cyaA gene fragment and an HA epitope was imparted 3′ to rsoA . .. Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested.

    Isolation:

    Article Title: ASSAY DEVELOPMENT AND HIGH THROUGHPUT SCREENING FOR INHIBITORS OF KAPOSI'S SARCOMA-ASSOCIATED HERPESVIRUS N-TERMINAL LANA BINDING TO NUCLEOSOMES
    Article Snippet: Erythrocytes were isolated immediately when received by washing three times (or until no more thin cream-colored layer of white cells was observed over the red cells) with PBS containing 5% citrate (to prevent coagulation). .. Nuclei were then resuspended in micronuclease (MNase) buffer (15mM HEPES pH 7.5, 65mM NaCl, 65mM KCl, 2mM MgCl2 , 5mM CaCl2 and Complete EDTA-Free protease inhibitors cocktail tablet [Roche]) and incubated 2h at 37°C with 800 kunitz units MNase (NEB #M0247S)/10mL MNase buffer, to generate short chromatin of 1-6 nucleosomes long.

    Article Title: Determinants of nucleosome positioning and their influence on plant gene expression
    Article Snippet: Paragraph title: Plant materials and isolation of DNA and RNA ... For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform.

    Article Title: DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution
    Article Snippet: Single cells were sorted directly into 100 μl lysis buffer (nuclei isolation buffer, NucleiEZ kit, Sigma) in flexible unskirted PCR plates (Bio-Rad) fitted into a rigid plate holder for sorting and spinning. .. Next, 40 μl of 1.25× micrococcal nuclease (MNase) master mix (62.5 mM Tris-HCl pH 7.9, 6.25 mM CaCl, 0.03125 U/μl MNase enzyme, New England Biolabs) was added to each well containing a nucleus (as well as to no-cell negative-control wells containing only lysis buffer).

    Magnetic Beads:

    Article Title: N6-methyladenine is an epigenetic marker of mammalian early life stress
    Article Snippet: Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp). .. Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp).

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested. .. The cell lysate was brought to a volume of 1 ml with binding buffer [20 mM Tris/HCl (pH 7.5), 500 mM NaCl and 0.05 % Tween-20] and a 300 µl volume was retained as crude lysate.

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Lysates were centrifuged at 16,000g for 15 min at 4°C and supernatants collected and incubated with M2 magnetic beads (Sigma) overnight on a rotator. .. Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min).

    Size-exclusion Chromatography:

    Article Title: TRF2 is recruited to the pre-initiation complex as a testis-specific subunit of TFIIA/ALF to promote haploid cell gene expression
    Article Snippet: Nuclei were washed once with 1X PBS and spin and resuspended in 2 volumes of MNase lysis buffer (50 mM Tris pH8, 0.5% Na deoxycholate). .. The lysate was sonicated for 30 sec as described above, CaCl2 and MgCl2 were added to 5 mM final concentration each and digestion was performed with MNase (10 gel units/uL final) (M0247S, New England BioLabs) for 10 min of incubation. .. The reaction was stopped by addition of EDTA to 10 mM final concentration.

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Beads were collected and washed twice with Wash Buffer (1X PBS with 0.1% SDS, 0.5% sodium deoxycholate, and 0.5% NP-40), twice with High Salt Wash Buffer (5X PBS, 0.1% SDS, 0.5% sodium deoxycholate, and 0.5% NP-40) and twice with Polynucleotide Kinase Buffer (PNK Buffer) (50 mM Tris-Cl pH 7.4, 10 mM MgCl2 and 0.5% NP-40). .. Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min). .. Beads were then washed twice with PNK+EGTA Buffer (50 mM Tris-Cl pH 7.4, 20 mM EGTA and 0.5% NP-40), twice with Wash Buffer and twice with PNK Buffer.

    Labeling:

    Article Title: Measuring Nucleosome Assembly Activity in vitro with the Nucleosome Assembly and Quantification (NAQ) Assay
    Article Snippet: Low retention pipette tips (USA Scientific) PCR tubes (USA Scientific, catalog number: 1402-4308) 1.5 ml tubes (Fisher Scientific, catalog number: 05-408-129) 207 bp DNA (procedure explained in ) Loading control DNA [of length between 400 and 1,000 bp, we use a 621 bp DNA (procedure explained in )] Refolded H2A-H2B (procedure explained in ) or H2A-H2B labeled with ATTO 647N (procedure explained in ). .. Refolded (H3-H4)2 (procedure explained in ) Recombinant histone chaperone Salt-assembled nucleosome (procedures explained in ) 50% glycerol (autoclaved and stored at room temperature) 50 bp DNA ladder (Gold Bio, catalog number: D100-500) 10x MNase buffer (New England Biolabs, provided with M0247S) 100x BSA (New England Biolabs, catalog number: B9001) Note: This product has been discontinued.

    Article Title: Neutrophil accumulation and NET release contribute to thrombosis in HIT
    Article Snippet: KKO was labeled with Alexa Fluor 647 (Thermo Fisher Scientific) prior to NET channel infusion. .. Similar studies were done using 100 U/ml bacterial-derived micrococcal nuclease (New England Biolabs).

    Purification:

    Article Title: ASSAY DEVELOPMENT AND HIGH THROUGHPUT SCREENING FOR INHIBITORS OF KAPOSI'S SARCOMA-ASSOCIATED HERPESVIRUS N-TERMINAL LANA BINDING TO NUCLEOSOMES
    Article Snippet: Paragraph title: Nucleosome purification from chicken erythrocytes ... Nuclei were then resuspended in micronuclease (MNase) buffer (15mM HEPES pH 7.5, 65mM NaCl, 65mM KCl, 2mM MgCl2 , 5mM CaCl2 and Complete EDTA-Free protease inhibitors cocktail tablet [Roche]) and incubated 2h at 37°C with 800 kunitz units MNase (NEB #M0247S)/10mL MNase buffer, to generate short chromatin of 1-6 nucleosomes long.

    Article Title: The ATP-dependent chromatin remodeling enzymes CHD6, CHD7, and CHD8 exhibit distinct nucleosome binding and remodeling activities
    Article Snippet: 200 ng of chromatinized pGIE-0 plasmid in MNase buffer (20 mm Tris (pH 8.0), 50 mm NaCl, 5 mm MgCl2 , 5% v/v glycerol, 1 mm DTT, 0.1% v/v Tween 20, and 1 mm ATP) was mixed with purified CHD enzyme in MNase buffer on ice, and then the reaction (10 μl) was shifted to 30 °C. .. After 30 min, 1.5 mm final CaCl2 and 1 gel unit of MNase (New England Biolabs, M0247S) were supplemented, and the reaction proceeded at 37 °C for 10 min.

    Article Title: Nucleosome positioning in the regulatory region of SV40 chromatin correlates with the activation and repression of early and late transcription during infection
    Article Snippet: The sample (200 μl) in an Eppendorf tube was placed in a cup containing cold flowing water for cooling. .. Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C. .. Following digestion, the DNA was purified as described for sonicated DNA.

    Article Title: Nonantibiotic Effects of Fluoroquinolones in Mammalian Cells
    Article Snippet: The resulting 40-μl mixture contained 3 μg of DNA, 1× micrococcal nuclease buffer (New England Biolabs), 400 mm MgCl2 , 4 mm ZnCl2 , 20 units of deoxyribonuclease I (New England Biolabs), 2000 units of micrococcal nuclease I (New England Biolabs), 5 units of antarctic phosphatase (New England Biolabs), and 0.4 units of snake venom phosphodiesterase. .. The resulting 40-μl mixture contained 3 μg of DNA, 1× micrococcal nuclease buffer (New England Biolabs), 400 mm MgCl2 , 4 mm ZnCl2 , 20 units of deoxyribonuclease I (New England Biolabs), 2000 units of micrococcal nuclease I (New England Biolabs), 5 units of antarctic phosphatase (New England Biolabs), and 0.4 units of snake venom phosphodiesterase.

    Article Title: Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor
    Article Snippet: SBP-tagged eIF4A was purified as described in “RIP-Seq”, without DMSO or RocA treatment. .. The beads tethering SBP-eIF4A were treated with 1x Micrococcal Nuclease Buffer (NEB), 0.5x lysis buffer, 0.5% Triton X-100, and 200 U/μl Micrococcal Nuclease (NEB) in 30 μl at 25 °C for 30 min, washed 5 times with lysis buffer containing 1% Triton X-100, 1M NaCl, and 5 mM EGTA pH 7.4, and rinsed twice with lysis buffer containing 0.1% Triton X-100.

    Article Title: Single-molecule compaction of megabase-long chromatin molecules by multivalent cations
    Article Snippet: Chromatin was digested by Micrococcal Nuclease (MNase) (New England Biolabs) following established procedure with modifications ( ). .. After the addition of 25 μg of Proteinase K (Thermofisher Scientific), the solution was incubated at 50°C for 30 min.

    Article Title: Determinants of nucleosome positioning and their influence on plant gene expression
    Article Snippet: The harvested samples were ground with liquid nitrogen and divided into three aliquots for nucleosome genomic DNA (gDNA), naked gDNA, and RNA isolation. .. For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform. .. To generate the naked gDNA sample, the gDNA was isolated without the nucleus isolation step as described previously , purified with phenol/chloroform to strip off proteins, and digested with 0.25 units/μL MNase (NEB) for 1.75 or 3 min.

    Article Title: Planarian MBD2/3 is required for adult stem cell pluripotency independently of DNA methylation
    Article Snippet: Up to 5 mg of purified DNA was digested to nucleosides for subsequent LC–MS analysis. .. Each 20 ml reaction contained S. mediterranea DNA, 5 units of Antarctic Phosphatase (NEB) and 2 mU Snake venom Phosphodiesterase (Phosphodiesterase I from Crotalus adamentus venom; Sigma) in a buffer that was 0.5×Micrococcal Nuclease Buffer (NEB) and 0.5×Antarctic Phosphatase Buffer (NEB).

    Transgenic Assay:

    Article Title: Ectopic T Cell Receptor-? Locus Control Region Activity in B Cells Is Suppressed by Direct Linkage to Two Flanking Genes at Once
    Article Snippet: Thymocytes and B cells of analyzed transgenic mouse lines were fixed in 10 ml RPMI medium with 1% formaldehyde at room temperature for 10 minutes. .. The cells were washed twice with 1× PBS and the cell pellets were re-suspended in 1 ml 1× micrococcal nuclease (MNase) buffer (NEB) containing 2.5 µl protease inhibitor cocktail (Sigma) and 1 µl 100 mM PMSF.

    Protein Extraction:

    Article Title: Androgen Receptor Serine 81 Phosphorylation Mediates Chromatin Binding and Transcriptional Activation
    Article Snippet: The micrococcal nuclease digestion was performed as follows. .. The insoluble fraction (pellet left from cytoplasmic and nuclear protein extraction) was suspended in 40 μl of micrococcal nuclease digestion buffer (M0247, New England Biolabs), kept at room temperature, and treated with 600 units of micrococcal nuclease for 2 min. .. The reaction was stopped by adding EGTA (5 m m , final concentration), followed by centrifugation at 11,000 × g for 5 min.

    Coagulation:

    Article Title: ASSAY DEVELOPMENT AND HIGH THROUGHPUT SCREENING FOR INHIBITORS OF KAPOSI'S SARCOMA-ASSOCIATED HERPESVIRUS N-TERMINAL LANA BINDING TO NUCLEOSOMES
    Article Snippet: Erythrocytes were isolated immediately when received by washing three times (or until no more thin cream-colored layer of white cells was observed over the red cells) with PBS containing 5% citrate (to prevent coagulation). .. Nuclei were then resuspended in micronuclease (MNase) buffer (15mM HEPES pH 7.5, 65mM NaCl, 65mM KCl, 2mM MgCl2 , 5mM CaCl2 and Complete EDTA-Free protease inhibitors cocktail tablet [Roche]) and incubated 2h at 37°C with 800 kunitz units MNase (NEB #M0247S)/10mL MNase buffer, to generate short chromatin of 1-6 nucleosomes long.

    Microscopy:

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: Paragraph title: Crithidia mellificae strain SF - Microscopy, Culturing and DNA Purification ... Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    Article Title: Neutrophil accumulation and NET release contribute to thrombosis in HIT
    Article Snippet: NET complexes were imaged with a Zeiss LSM 710 laser-scanning confocal microscope. .. Similar studies were done using 100 U/ml bacterial-derived micrococcal nuclease (New England Biolabs).

    Polyacrylamide Gel Electrophoresis:

    Article Title: Single-molecule compaction of megabase-long chromatin molecules by multivalent cations
    Article Snippet: Chromatin was digested by Micrococcal Nuclease (MNase) (New England Biolabs) following established procedure with modifications ( ). .. After the addition of 25 μg of Proteinase K (Thermofisher Scientific), the solution was incubated at 50°C for 30 min.

    Nuclease Assay:

    Article Title: CHD1L Regulated PARP1‐Driven Pluripotency and Chromatin Remodeling During the Early‐Stage Cell Reprogramming
    Article Snippet: Paragraph title: Micrococcal Nuclease Assay ... Permeabilized cells were then exposed to micrococcal nuclease (MNase) (NEB, MA) at 37 °C for various lengths of time.

    Concentration Assay:

    Article Title: TRF2 is recruited to the pre-initiation complex as a testis-specific subunit of TFIIA/ALF to promote haploid cell gene expression
    Article Snippet: Nuclei were washed once with 1X PBS and spin and resuspended in 2 volumes of MNase lysis buffer (50 mM Tris pH8, 0.5% Na deoxycholate). .. The lysate was sonicated for 30 sec as described above, CaCl2 and MgCl2 were added to 5 mM final concentration each and digestion was performed with MNase (10 gel units/uL final) (M0247S, New England BioLabs) for 10 min of incubation. .. The reaction was stopped by addition of EDTA to 10 mM final concentration.

    Article Title: Nonantibiotic Effects of Fluoroquinolones in Mammalian Cells
    Article Snippet: RNase A solution (Thermo Scientific, final concentration 10 mg/ml) and proteinase K solution (Sigma, final concentration 10 mg/ml) were added to the lysed nuclei and incubated overnight at 55 °C. .. The resulting 40-μl mixture contained 3 μg of DNA, 1× micrococcal nuclease buffer (New England Biolabs), 400 mm MgCl2 , 4 mm ZnCl2 , 20 units of deoxyribonuclease I (New England Biolabs), 2000 units of micrococcal nuclease I (New England Biolabs), 5 units of antarctic phosphatase (New England Biolabs), and 0.4 units of snake venom phosphodiesterase.

    Article Title: Single-molecule compaction of megabase-long chromatin molecules by multivalent cations
    Article Snippet: Chromatin was digested by Micrococcal Nuclease (MNase) (New England Biolabs) following established procedure with modifications ( ). .. Chromatin was digested by Micrococcal Nuclease (MNase) (New England Biolabs) following established procedure with modifications ( ).

    Chromatin Immunoprecipitation:

    Article Title: N6-methyladenine is an epigenetic marker of mammalian early life stress
    Article Snippet: Paragraph title: Chromatin Immunoprecipitation (ChIP) ... Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp).

    Article Title: Nucleosome positioning in the regulatory region of SV40 chromatin correlates with the activation and repression of early and late transcription during infection
    Article Snippet: The sample (200 μl) in an Eppendorf tube was placed in a cup containing cold flowing water for cooling. .. Following sonication the sample was purified using Zymo Research ChIP DNA Clean and Concentrator columns according to their protocol and eluted in 51 μl H2 O. Micrococcal nuclease digested chromatin was obtained by treating 200 μl of SV40 chromatin with micrococcal nuclease (New England Biolabs, M0247S) at 4 °C. .. Following digestion, the DNA was purified as described for sonicated DNA.

    Article Title: Ectopic T Cell Receptor-? Locus Control Region Activity in B Cells Is Suppressed by Direct Linkage to Two Flanking Genes at Once
    Article Snippet: Paragraph title: Chromatin Immunoprecipitation (ChIP) ... The cells were washed twice with 1× PBS and the cell pellets were re-suspended in 1 ml 1× micrococcal nuclease (MNase) buffer (NEB) containing 2.5 µl protease inhibitor cocktail (Sigma) and 1 µl 100 mM PMSF.

    Article Title: Transient Downregulation of Nanog and Oct4 Induced by DETA/NO Exposure in Mouse Embryonic Stem Cells Leads to Mesodermal/Endodermal Lineage Differentiation
    Article Snippet: Paragraph title: 2.5. Chromatin Immunoprecipitation Assay ... Pellets were then resuspended in washing buffer supplemented with 3 mM CaCl2 , protease inhibitors, 0.5 mM DTT, and 5–10 μ L of 1 : 200 micrococcal nuclease (New England BioLabs) and incubated for 20 min at 37°C with orbital shaking.

    Plasmid Preparation:

    Article Title: The ATP-dependent chromatin remodeling enzymes CHD6, CHD7, and CHD8 exhibit distinct nucleosome binding and remodeling activities
    Article Snippet: 200 ng of chromatinized pGIE-0 plasmid in MNase buffer (20 mm Tris (pH 8.0), 50 mm NaCl, 5 mm MgCl2 , 5% v/v glycerol, 1 mm DTT, 0.1% v/v Tween 20, and 1 mm ATP) was mixed with purified CHD enzyme in MNase buffer on ice, and then the reaction (10 μl) was shifted to 30 °C. .. After 30 min, 1.5 mm final CaCl2 and 1 gel unit of MNase (New England Biolabs, M0247S) were supplemented, and the reaction proceeded at 37 °C for 10 min.

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: Relevant plasmid pairs were co-transformed into E. coli BL21 carrying pLysS. .. Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested.

    Software:

    Article Title: The ATP-dependent chromatin remodeling enzymes CHD6, CHD7, and CHD8 exhibit distinct nucleosome binding and remodeling activities
    Article Snippet: After 30 min, 1.5 mm final CaCl2 and 1 gel unit of MNase (New England Biolabs, M0247S) were supplemented, and the reaction proceeded at 37 °C for 10 min. .. DNA was immediately mixed with loading dye and subjected to 0.5× TBE 4% (29:1) native PAGE at 100 V for 40 min.

    Article Title: Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
    Article Snippet: Light microscopy of live parasites was performed using a Leica DM6000 microscope equipped with Hamamatsu C4742-95 camera and Volocity Software (PerkinElmer). .. Bees from Crithidia positive hives were homogenized by TissueLyser as above and DNA extracted using the DNeasy kit for the initial PCR screens, after suspension in either PBS or 1× Micrococcal Nuclease Buffer (NEB).

    Negative Control:

    Article Title: DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution
    Article Snippet: Plates were carefully removed from adaptors, and 90 μl cell-lysate supernatant was removed slowly and carefully using a long flexible gel-loading tip in order to avoid aspirating the nucleus. .. Next, 40 μl of 1.25× micrococcal nuclease (MNase) master mix (62.5 mM Tris-HCl pH 7.9, 6.25 mM CaCl, 0.03125 U/μl MNase enzyme, New England Biolabs) was added to each well containing a nucleus (as well as to no-cell negative-control wells containing only lysis buffer). .. Reactions were mixed 20–30 times using a pipettor and incubated at room temperature for 5 min.

    Binding Assay:

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested. .. Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested.

    Article Title: Determinants of nucleosome positioning and their influence on plant gene expression
    Article Snippet: For isolating nucleosome gDNA, the nuclei were purified from one aliquot with nuclei extraction buffer (10 mM Hepes [pH 7.6], 5 mM potassium chloride, 5 mM magnesium chloride, 1 M sucrose, 14 mM β-mercaptoethanol, 0.6% Triton X-100, 0.4 mM phenylmethanesulfonyl fluoride, 1× ethylenediaminetetraacetic acid-free protease inhibitor [Roche]), digested with 0.4 units/μL micrococcal nuclease (MNase) (NEB) for 9 min, and purified with phenol/chloroform. .. To generate the naked gDNA sample, the gDNA was isolated without the nucleus isolation step as described previously , purified with phenol/chloroform to strip off proteins, and digested with 0.25 units/μL MNase (NEB) for 1.75 or 3 min.

    Article Title: Neutrophil accumulation and NET release contribute to thrombosis in HIT
    Article Snippet: To account for this effect when studying whether KKO binding to PF4-NET complexes increased resistance to DNase, we compared NET digestion by analyzing videos in which channels with and without KKO were included in the same visual field and exposed to UV light for the same amount of time. .. Similar studies were done using 100 U/ml bacterial-derived micrococcal nuclease (New England Biolabs).

    FACS:

    Article Title: DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution
    Article Snippet: Paragraph title: FACS sorting and genomic DNA fragmentation ... Next, 40 μl of 1.25× micrococcal nuclease (MNase) master mix (62.5 mM Tris-HCl pH 7.9, 6.25 mM CaCl, 0.03125 U/μl MNase enzyme, New England Biolabs) was added to each well containing a nucleus (as well as to no-cell negative-control wells containing only lysis buffer).

    Homogenization:

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Worms were lysed by sonication in Homogenization Buffer (100 mM NaCl, 25 mM HEPES, 250 μM EDTA, 2 mM DTT, 0.1% NP-40, 25 units/ml RNasin and Protease Inhibitors). .. Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min).

    Article Title: Planarian MBD2/3 is required for adult stem cell pluripotency independently of DNA methylation
    Article Snippet: Worms were disrupted by homogenisation and DNA purified by two rounds of phenol-chloroform extraction and ethanol precipitation. .. Each 20 ml reaction contained S. mediterranea DNA, 5 units of Antarctic Phosphatase (NEB) and 2 mU Snake venom Phosphodiesterase (Phosphodiesterase I from Crotalus adamentus venom; Sigma) in a buffer that was 0.5×Micrococcal Nuclease Buffer (NEB) and 0.5×Antarctic Phosphatase Buffer (NEB).

    Ethanol Precipitation:

    Article Title: Planarian MBD2/3 is required for adult stem cell pluripotency independently of DNA methylation
    Article Snippet: Worms were disrupted by homogenisation and DNA purified by two rounds of phenol-chloroform extraction and ethanol precipitation. .. Each 20 ml reaction contained S. mediterranea DNA, 5 units of Antarctic Phosphatase (NEB) and 2 mU Snake venom Phosphodiesterase (Phosphodiesterase I from Crotalus adamentus venom; Sigma) in a buffer that was 0.5×Micrococcal Nuclease Buffer (NEB) and 0.5×Antarctic Phosphatase Buffer (NEB).

    FLAG-tag:

    Article Title: Characterization of a protein–protein interaction within the SigO–RsoA two-subunit σ factor: the σ70 region 2.3-like segment of RsoA mediates interaction with SigO
    Article Snippet: To directly detect interactions between SigO and RsoA, we fused the 5′ half (codons 1–105) of sigO to the T18 cyaA gene fragment in pUT18C and imparted a FLAG epitope 3′ to sigO . .. Cell pellets were subjected to two freeze–thaw cycles and the pellets were re-suspended in 200 µl of 10 mM Tris/HCl (pH 8.0), supplemented with 1× micrococcal nuclease buffer and 10 000 U micrococcal nuclease (NEB) and incubated at room temperature for 30 min until cells were lysed and genomic DNA was digested.

    Clear Native PAGE:

    Article Title: The ATP-dependent chromatin remodeling enzymes CHD6, CHD7, and CHD8 exhibit distinct nucleosome binding and remodeling activities
    Article Snippet: After 30 min, 1.5 mm final CaCl2 and 1 gel unit of MNase (New England Biolabs, M0247S) were supplemented, and the reaction proceeded at 37 °C for 10 min. .. After 30 min, 1.5 mm final CaCl2 and 1 gel unit of MNase (New England Biolabs, M0247S) were supplemented, and the reaction proceeded at 37 °C for 10 min.

    Liquid Chromatography with Mass Spectroscopy:

    Article Title: Planarian MBD2/3 is required for adult stem cell pluripotency independently of DNA methylation
    Article Snippet: Up to 5 mg of purified DNA was digested to nucleosides for subsequent LC–MS analysis. .. Each 20 ml reaction contained S. mediterranea DNA, 5 units of Antarctic Phosphatase (NEB) and 2 mU Snake venom Phosphodiesterase (Phosphodiesterase I from Crotalus adamentus venom; Sigma) in a buffer that was 0.5×Micrococcal Nuclease Buffer (NEB) and 0.5×Antarctic Phosphatase Buffer (NEB).

    Lysis:

    Article Title: ASSAY DEVELOPMENT AND HIGH THROUGHPUT SCREENING FOR INHIBITORS OF KAPOSI'S SARCOMA-ASSOCIATED HERPESVIRUS N-TERMINAL LANA BINDING TO NUCLEOSOMES
    Article Snippet: Flow-through containing RBC nuclei was centrifuged 5 min at 3500xg and pelleted nuclei were washed once with 10 volumes RBC lysis buffer followed by two additional washes (or until the supernatant and pellet were no longer red) with washing buffer (RBC lysis buffer without NP-40). .. Nuclei were then resuspended in micronuclease (MNase) buffer (15mM HEPES pH 7.5, 65mM NaCl, 65mM KCl, 2mM MgCl2 , 5mM CaCl2 and Complete EDTA-Free protease inhibitors cocktail tablet [Roche]) and incubated 2h at 37°C with 800 kunitz units MNase (NEB #M0247S)/10mL MNase buffer, to generate short chromatin of 1-6 nucleosomes long.

    Article Title: N6-methyladenine is an epigenetic marker of mammalian early life stress
    Article Snippet: Samples were washed 2x with PBS and cOmplete protease inhibitor (CPI) tablets (Roche, Basel, Switzerland; catalog #04693116001) then resuspended in 400 μL RIPA lysis buffer + CPI tablets. .. Chromatin shearing was obtained using 1000 gel units of Micrococcal Nuclease (MNase) (New England Biolabs; catalog #M0247S); samples were incubated with Proteinase K to ensure efficient shearing of DNA (between 300 bp–900 bp).

    Article Title: TRF2 is recruited to the pre-initiation complex as a testis-specific subunit of TFIIA/ALF to promote haploid cell gene expression
    Article Snippet: Nuclei were washed once with 1X PBS and spin and resuspended in 2 volumes of MNase lysis buffer (50 mM Tris pH8, 0.5% Na deoxycholate). .. The lysate was sonicated for 30 sec as described above, CaCl2 and MgCl2 were added to 5 mM final concentration each and digestion was performed with MNase (10 gel units/uL final) (M0247S, New England BioLabs) for 10 min of incubation.

    Article Title: Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor
    Article Snippet: SBP-tagged eIF4A was purified as described in “RIP-Seq”, without DMSO or RocA treatment. .. The beads tethering SBP-eIF4A were treated with 1x Micrococcal Nuclease Buffer (NEB), 0.5x lysis buffer, 0.5% Triton X-100, and 200 U/μl Micrococcal Nuclease (NEB) in 30 μl at 25 °C for 30 min, washed 5 times with lysis buffer containing 1% Triton X-100, 1M NaCl, and 5 mM EGTA pH 7.4, and rinsed twice with lysis buffer containing 0.1% Triton X-100. .. The beads were incubated in lysis buffer containing 0.1% Triton X-100, 2 mM AMP-PNP, 0.33 U/μl SUPERase In RNase Inhibitor (Invitrogen), 1 μM N30 RNA [(N)30 CTGTAGGCACCATCAAT , bold characters represent DNA sequence for reverse transcription primer hybridization] in 30 μl at 37 °C for 30 min, and washed 5 times with lysis buffer containing 0.1% Triton X-100, 2 mM AMP-PNP, and 0.1% DMSO.

    Article Title: DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution
    Article Snippet: Plates were carefully removed from adaptors, and 90 μl cell-lysate supernatant was removed slowly and carefully using a long flexible gel-loading tip in order to avoid aspirating the nucleus. .. Next, 40 μl of 1.25× micrococcal nuclease (MNase) master mix (62.5 mM Tris-HCl pH 7.9, 6.25 mM CaCl, 0.03125 U/μl MNase enzyme, New England Biolabs) was added to each well containing a nucleus (as well as to no-cell negative-control wells containing only lysis buffer). .. Reactions were mixed 20–30 times using a pipettor and incubated at room temperature for 5 min.

    Article Title: Transient Downregulation of Nanog and Oct4 Induced by DETA/NO Exposure in Mouse Embryonic Stem Cells Leads to Mesodermal/Endodermal Lineage Differentiation
    Article Snippet: Cells were then resuspended in lysis buffer containing 10 mM Tris HCl (pH 8.0), 10 mM NaCl, 3 mM MgCl2 , 0.5 mM DTT, and protease inhibitors for 10 min on ice. .. Pellets were then resuspended in washing buffer supplemented with 3 mM CaCl2 , protease inhibitors, 0.5 mM DTT, and 5–10 μ L of 1 : 200 micrococcal nuclease (New England BioLabs) and incubated for 20 min at 37°C with orbital shaking.

    Article Title: Androgen Receptor Serine 81 Phosphorylation Mediates Chromatin Binding and Transcriptional Activation
    Article Snippet: Cellular fractionation analysis using the NE-PER kit was carried out as described by the manufacturer (catalog no. 78835, Pierce), and using the Triton lysis buffer (TLB) ( ). .. The insoluble fraction (pellet left from cytoplasmic and nuclear protein extraction) was suspended in 40 μl of micrococcal nuclease digestion buffer (M0247, New England Biolabs), kept at room temperature, and treated with 600 units of micrococcal nuclease for 2 min.

    Cross-linking Immunoprecipitation:

    Article Title: CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins
    Article Snippet: Paragraph title: Crosslinking Immunoprecipitation and deep sequencing (CLIP-seq) in C. elegans ... Beads were incubated with 500 μl of Micrococcal Nuclease Reaction Buffer (50 mM Tris-Cl pH 7.9, 5 mM CaCl2 ) containing 1 ng of Micrococcal Nuclease (NEB) for a total of 10 min at 4°C with intermittent shaking on a Thermomixer (Eppendorf) (1200 rpm for 1 min and then 1200 rpm for 15 sec every 3 min).

    Similar Products

  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
  • 77
    New England Biolabs cacl2 competent escherichia coli dh5α f
    Cacl2 Competent Escherichia Coli Dh5α F, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 77/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/cacl2 competent escherichia coli dh5α f/product/New England Biolabs
    Average 77 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    cacl2 competent escherichia coli dh5α f - by Bioz Stars, 2019-12
    77/100 stars
      Buy from Supplier

    99
    New England Biolabs o glycosidase
    O Glycosidase, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 24 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/o glycosidase/product/New England Biolabs
    Average 99 stars, based on 24 article reviews
    Price from $9.99 to $1999.99
    o glycosidase - by Bioz Stars, 2019-12
    99/100 stars
      Buy from Supplier

    99
    New England Biolabs factor xa protease
    Factor Xa Protease, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 41 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/factor xa protease/product/New England Biolabs
    Average 99 stars, based on 41 article reviews
    Price from $9.99 to $1999.99
    factor xa protease - by Bioz Stars, 2019-12
    99/100 stars
      Buy from Supplier

    94
    New England Biolabs proteinase k mix
    Proteinase K Mix, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/proteinase k mix/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    proteinase k mix - by Bioz Stars, 2019-12
    94/100 stars
      Buy from Supplier

    Image Search Results