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Bs poly prep columns

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The BS Poly-prep columns are a type of chromatography column used for the purification and separation of biomolecules. They feature a polyethylene frit and are designed for small-scale purification tasks.

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Lab products found in correlation

Oligonucleotide, by Integrated DNA Technologies (7 mentions) Sep pak c18 cartridge, by Waters Corporation (6 mentions) Uracil dna glycosylase, by New England Biolabs (4 mentions) γ 32p atp 6000 ci mmol, by PerkinElmer (3 mentions) γ 32p atp, by PerkinElmer (3 mentions) Personal molecular imager, by Bio-Rad (3 mentions) Acrylamide bis acrylamide 19 1 40 solution electrophoresis, by Thermo Fisher Scientific (2 mentions) 29 dna polymerase, by New England Biolabs (2 mentions) Nabh3cn, by Merck Group (2 mentions) Endonuclease 3, by New England Biolabs (1 mentions) Spermine, by Merck Group (1 mentions) 1 4 diaminobutane, by Merck Group (1 mentions) 1 6 diaminohexane, by Merck Group (1 mentions) 1 5 diaminopentane, by Merck Group (1 mentions) Tris 2 aminoethyl amine, by Merck Group (1 mentions) T7 dna polymerase, by New England Biolabs (1 mentions) Acrylamide bis acrylamide 19 1, by Thermo Fisher Scientific (1 mentions) Glutathione (gsh), by Merck Group (1 mentions) Alkaline phosphatase, by New England Biolabs (1 mentions) Erythro 9 2 hydroxy 3 nonyl adenine ehna hydrochloride, by Bio-Techne (1 mentions)

7 protocols using bs poly prep columns

1

Radioisotope-Labeled DNA Repair Assay

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Reagents were purchased from the following suppliers and were of the highest purity available. Oligonucleotides were purchased from Integrated DNA Technologies (IDT, Coralville, IA) or, in the case of DHT-containing Oligonucleotides, from Midland Certified Reagent Co. (Midland, TX). Uracil DNA glycosylase (UDG), and T4 DNA polynucleotide kinase (T4 PNK), formamidopyrimidine DNA glycosylase (Fpg) and Endonuclease III (Nth) were from New England Biolabs (Ipswich, MA). [γ-32P]-ATP (6000 Ci/mmol) was purchased from PerkinElmer. C-18 Sep-Pak cartridges were purchased from Waters (Milford, MA), and BS Poly-prep columns were obtained from BioRad (Hercules, CA). Acrylamide/bis-acrylamide 19:1 (40% Solution/Electrophoresis) was purchased from Fisher Scientific (Waltham, MA), and other reagents were purchased from Sigma-Aldrich (St. Louis, MO). Quantification of radioactivity in polyacrylamide gels was carried out using a Personal Molecular Imager (BIORAD) with Quantity One software (v.4.6.5).
Nejad M.I., Housh K., Rodriguez A.A., Haldar T., Kathe S., Wallace S.S., Eichman B.F, & Gates K.S. (2019). Unhooking of an interstrand cross-link at DNA fork structures by the DNA glycosylase NEIL3. DNA repair, 86, 102752.
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2

Oligonucleotide synthesis and biophysical analyses

Cited 2 times
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Oligonucleotides were purchased from Integrated DNA Technologies (Coralville, IA, USA), [γ-32P]-ATP (6000 Ci/mmol) was purchased from Perkin-Elmer, uracil DNA glycosylase (UDG) and ϕ29 DNA polymerase were from New England Biolabs (Ipswich, MA, USA), C-18 Sep-Pak cartridges were purchased from Waters (Milford, MA, USA), and BS Poly-prep columns were obtained from BioRad (Hercules, CA, USA). Acrylamide/bis-acrylamide 19:1 (40% solution, electrophoresis grade) was purchased from Fisher Scientific (Waltham, MA, USA), spermine and all other chemical reagents were purchased from Sigma-Aldrich (St. Louis, MO, USA). A mixture of the four 2’-deoxynucleoside triphosphates (dNTPs) was purchased from Promega (Madison, WI, USA). Iron–EDTA–H2O2 footprinting (51 (link)–53 (link)), QTOF-MS (53 (link)–55 (link)), LC–MS/MS (53 (link),55 (link)) and phi-29 (ϕ29) DNA polymerase primer extension reactions (56 (link)) were conducted as described in published procedures, with minor modifications. Detailed experimental protocols for these experiments are provided in the Supplementary Data.
Yang Z., Price N.E., Johnson K.M., Wang Y, & Gates K.S. (2017). Interstrand cross-links arising from strand breaks at true abasic sites in duplex DNA. Nucleic Acids Research, 45(11), 6275-6283.
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3

Oligonucleotide Synthesis and Radioactivity Quantification

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Oligonucleotides were purchased from Integrated DNA Technologies (IDT, Coralville, IA, USA), [γ-32P]-ATP (6000 Ci/mmol) was purchased from Perkin-Elmer, C-18 Sep-Pak cartridges were purchased from Waters (Milford, MA, USA), and BS Poly-prep columns were obtained from BioRad (Hercules, CA, USA), acrylamide/bis-acrylamide 19:1 (40% solution, electrophoresis grade) was purchased from Fisher Scientific (Waltham, MA, USA). Uracil DNA glycosylase (UDG) and streptavidin were purchased from New England Biolabs (Ipswich, MA, USA). The compounds 1,4-diaminobutane, 1,5-diaminopentane, 1,6-diaminohexane, tris(2-aminoethyl)amine, NaBH3CN, buffers, and other chemical reagents were purchased from Sigma-Aldrich (St. Louis, MO, USA). Quantification of radioactivity in polyacrylamide gels was carried out using a Personal Molecular Imager (BioRad) with Quantity One software (v.4.6.5). DMBAA (dimethylbutylammonium acetate) solutions used in the ESI-MS experiments was prepared as follows: a stock solution of N,N-dimethylbutyl amine (7.125 M) was diluted to 100 mM with water and adjusted to pH 7.1 with glacial acetic acid.
Housh K, & Gates K.S. (2021). Synthesis of DNA duplexes containing site-specific interstrand cross-links via sequential reductive amination reactions involving diamine linkers and abasic sites on complementary oligodeoxynucleotides. Chemical research in toxicology, 34(11), 2384-2391.
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4

Oligonucleotide Synthesis and Labeling

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Oligonucleotides were purchased from Integrated DNA Technologies (Coralville, IA). Uracil DNA glycosylase (UDG), ϕ29 DNA polymerase, and T7 DNA polymerase were from New England Biolabs (Ipswich, MA). A mixture of the four 2′-deoxynucleotide triphosphates (dNTP) was purchased from Promega (Madison, WI). [γ-32P]-ATP (6000 Ci/mmol) was purchased from Perkin-Elmer. C-18 Sep-Pak cartridges were purchased from Waters (Milford, MA), and BS Poly-prep columns were obtained from BioRad (Hercules, CA). Acrylamide/bis-acrylamide 19:1 (40% Solution/Electrophoresis) was purchased from Fisher Scientific (Waltham, MA), and all other reagents were purchased from Sigma-Aldrich (St. Louis, MO).
Yang Z., Price N.E., Johnson K.M, & Gates K.S. (2015). Characterization of interstrand DNA-DNA cross-links derived from abasic sites using bacteriophage ϕ29 DNA polymerase. Biochemistry, 54(27), 4259-4266.
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5

Oligonucleotide Synthesis and Enzymatic Assays

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Oligonucleotides were purchased from Integrated
DNA Technologies (IDT, Coralville, IA), Eurofins Genomics (Louisville,
KY), and Sigma-Aldrich (St. Louis, MO). Some Oligonucleotides purchased
from IDT contained a 1,1′-diethyl-2,2′-dicarbocyanine
(Cy5) fluorophore on the 5′-end and were HPLC purified before
use. Uracil DNA glycosylase (UDG), human apurinic/apyrimidinic endonuclease
(APE1), and endonuclease IV (Endo IV) were purchased from New England
Biolabs (Ipswich, MA). [γ-32P]-ATP (6000 Ci/mmol) was purchased from PerkinElmer, C-18 Sep-Pak cartridges were
purchased from Waters (Milford, MA), BS Poly prep columns were obtained
from BioRad (Hercules, CA), and acrylamide/bis-acrylamide 19:1 (40%
solution, electrophoresis grade) was purchased from Fisher Scientific
(Waltham, MA). Glutathione, NaBH3CN, and buffers were purchased
from Sigma-Aldrich (St. Louis, MO,). Quantification of radioactivity
or fluorescence in polyacrylamide gels was carried out using a Personal
Molecular Imager (BioRad) with Quantity One software (v.4.6.5). The
pH of buffers was adjusted to the reported values at 24 °C. DMBAA
(dimethylbutylammonium acetate) solutions used in the ESI-MS experiments
was prepared as follows: a stock solution of N,N-dimethylbutylamine (7.125 M) was diluted to 100 mM with
water and adjusted to pH 7.1 with glacial acetic acid.
Amin S.B., Islam T., Price N.E., Wallace A., Guo X., Gomina A., Heidari M., Johnson K.M., Lewis C.D., Yang Z, & Gates K.S. (2022). Effects of Local Sequence, Reaction Conditions, and Various Additives on the Formation and Stability of Interstrand Cross-Links Derived from the Reaction of an Abasic Site with an Adenine Residue in Duplex DNA. ACS Omega, 7(41), 36888-36901.
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6

Enzymatic DNA Damage Detection

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Reagents were purchased from the following suppliers and were of the highest purity available: oligonucleotides were from Integrated DNA Technologies (IDT, Coralville, IA), uracil DNA glycosylase (UDG), endonuclease III (Nth, Endo III) and Fpg were from New England Biolabs (Ipswich, MA), BS Poly-prep columns were obtained from BioRad (Hercules, CA, USA) and other reagents, salts, and buffers were purchased from Sigma-Aldrich (St. Louis, MO). DMBAA (dimethylbutylammonium acetate) solutions used in the ESI-MS experiments was prepared as follows: a stock of N,N-dimethylbutyl amine (7.125 M) was diluted to 100 mM with water and adjusted to pH 7.1 with glacial acetic acid.
Haldar T., Jha J.S., Yang Z., Nel C., Housh K., Cassidy O.J, & Gates K.S. (2022). Unexpected Complexity in the Products Arising from NaOH-, Heat-, Amine-, and Glycosylase-Induced Strand Cleavage at an Abasic Site in DNA. Chemical research in toxicology, 35(2), 218-232.
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7

Synthesis and Characterization of Radiolabeled Oligonucleotides

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Oligonucleotides were purchased from Integrated DNA Technologies. All enzymes were purchased from New England Biolabs (Ipswich, MA, USA). [γ-32P]-ATP (6000 Ci/mmol) was purchased from Perkin Elmer. C-18 sep-pak cartridges were from Waters. BS Polyprep columns were purchased from BioRad. Erythro-9-(2-hydroxy-3-nonyl)adenine (EHNA) hydrochloride was from Tocris Bioscience (Ellisville, MO, USA). Nuclease P1 and phosphodiesterases 1 and 2 were from Sigma-Aldrich (St. Louis, MO, USA). Alkaline phosphatase and proteinase K were from New England Biolabs (Ipswich, MA, USA). Quantification of radioactivity in polyacrylamide gels was carried out using a Personal Molecular Imager (BioRad) with Quantity One software (v.4.6.5). All other reagents were purchased from Sigma-Aldrich. DMBAA (dimethylbutylammonium acetate) solutions used in the ESI-MS experiments was prepared as follows: a stock of N,N-dimethylbutyl amine (7.125 M) was diluted to 100 mM with water and adjusted to pH 7.1 with glacial acetic acid.
Varela J.G., Pierce L.E., Guo X., Price N.E., Johnson K.M., Yang Z., Wang Y, & Gates K.S. (2021). Interstrand cross-link formation involving reaction of a mispaired cytosine residue with an abasic site in duplex DNA. Chemical research in toxicology, 34(4), 1124-1132.
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