Estimation of polyacrylamide gel pore size from Ferguson plots of linear DNA fragments. II. Comparison of gels with different crosslinker concentrations, added agarose and added linear polyacrylamide

1991 ◽  
Vol 12 (9) ◽  
pp. 612-619 ◽  
Author(s):  
Diana L. Holmes ◽  
Nancy C. Stellwagen
Keyword(s):  
Pore Size ◽  
Polyacrylamide Gel ◽  
Dna Fragments ◽  
Linear Dna ◽  
Linear Polyacrylamide

scholarly journals Exonuclease combinations reduce noises in 3D genomics technologies

2020 ◽  
Vol 48 (8) ◽  
pp. e44-e44
Author(s):  
Siyuan Kong ◽  
Qing Li ◽  
Gaolin Zhang ◽  
Qiujia Li ◽  
Qitong Huang ◽  
...  
Keyword(s):  
Noise Source ◽  
Chromosome Conformation Capture ◽  
Dna Fragments ◽  
Chromosome Conformation ◽  
High Noise ◽  
Dna Preparation ◽  
Linear Dna ◽  
Proximity Ligation ◽  
Interaction Detection ◽  
3D Genomics

Abstract Chromosome conformation-capture technologies are widely used in 3D genomics; however, experimentally, such methods have high-noise limitations and, therefore, require significant bioinformatics efforts to extract reliable distal interactions. Miscellaneous undesired linear DNAs, present during proximity-ligation, represent a main noise source, which needs to be minimized or eliminated. In this study, different exonuclease combinations were tested to remove linear DNA fragments from a circularized DNA preparation. This method efficiently removed linear DNAs, raised the proportion of annulation and increased the valid-pairs ratio from ∼40% to ∼80% for enhanced interaction detection in standard Hi-C. This strategy is applicable for development of various 3D genomics technologies, or optimization of Hi-C sequencing efficiency.

HomologousIn VitroTranscription of Linear DNA Fragments Containing the tRNAArg-tRNAAspGene Pair FromSaccharomyces cerevisiae

DNA ◽  
1984 ◽  
Vol 3 (2) ◽  
pp. 167-171 ◽  
Author(s):  
KERSTIN KJELLIN-STRABY ◽  
DAVID R. ENGELKE ◽  
JOHN ABELSON
Keyword(s):  
Dna Fragments ◽  
Linear Dna

Identification of nonhistone chromatin proteins in chromatin subunits (or mononucleosomes) devoid of histone H1

1979 ◽  
Vol 57 (6) ◽  
pp. 666-672 ◽  
Author(s):  
P. K. Chan ◽  
C. C. Liew
Keyword(s):  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Sucrose Density Gradient ◽  
Polyacrylamide Gel ◽  
Micrococcal Nuclease ◽  
Dna Fragments ◽  
Base Pairs ◽  
The Core ◽  
Liver Chromatin ◽  
Chromatin Proteins

Rat liver chromatin was digested by micrococcal nuclease. Chromatin subunits (or mononucleosomes) were isolated by sucrose density gradient and subsequently fractionated by 6% polyacrylamide gel electrophoresis into two major components. One component (MN1) of the mononucleosomes had a higher mobility, contained histones H2A, H2B, H3, H4, and shorter DNA fragments (140 base pairs) while the other (MN2) contained all five histones and longer DNA fragments (180 base pairs). Both submononucleosomes (MN1 and MN2) were found to contain nonhistone chromatin proteins (NHCP). By electrophoresis in 15% sodium dodecyl sulfate – polyacrylamide gel, 9 and 11 major fractions of NHCP were identified in the submononucleosomes MN1 and MN2, respectively. It was also observed that treatment of mononucleosomes with 0.6 M NaCl removes most of these NHCP and histone H1 except for two major NHCP which remain in the core particles.

scholarly journals Erratum: Homologous recombination in Candida albicans: role of CaRad52p in DNA repair, integration of linear DNA fragments and telomere length

2005 ◽  
Vol 56 (5) ◽  
pp. 1396-1396 ◽  
Author(s):  
Toni Ciudad ◽  
Encarnación Andaluz ◽  
Olga Steinberg-Neifach ◽  
Neal F. Lue ◽  
Neil A. R. Gow ◽  
...  
Keyword(s):  
Dna Repair ◽  
Candida Albicans ◽  
Homologous Recombination ◽  
Telomere Length ◽  
Dna Fragments ◽  
Linear Dna
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