Oligonucleotide arrays
Whole genome DNA copy number changes identified by high density oligonucleotide arrays
... We have developed an algorithm for genome-wide copy number estimation using high-density DNA oligonucleotide arrays in conjunction with target DNA preparations using WGSA. A comparison of experimental ...
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Typing of Enteroviruses by Use of Microwell Oligonucleotide Arrays
... We have developed a straightforward assay for the rapid typing of enteroviruses using oligonucleotide arrays in microtiter wells. The viral nucleic acids are concomitantly amplified and labeled during ...
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Characterization of the expression ratio noise structure in high density oligonucleotide arrays
... of arrays directly ...cDNA arrays [15, 16], where the intensity dependence can be ...density oligonucleotide arrays suffer less from ‘bent’ noise structures; nevertheless, local normalization ...
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Genetic Diversity in Yeast Assessed With Whole-Genome Oligonucleotide Arrays
... The availability of a complete genome sequence allows the detailed study of intraspecies variability. Here we use high-density oligonucleotide arrays to discover 11,115 single-feature polymorphisms (SFPs) ...
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Model based analysis of oligonucleotide arrays: model validation, design issues and standard error application
... In Figure 1a,b the target gene is present in most samples of all array sets. For a probe set whose target gene is mostly absent throughout samples (Figure 1c), many probes are identified as probe-outliers because of ...
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Empirical characterization of the expression ratio noise structure in high density oligonucleotide arrays
... A particular feature of GeneChip arrays is that each tran- script is probed by many short snippets of sequence, instead of a single longer probe as in cDNA arrays [1-3]. Therefore, translating the measured ...
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Distribution of Shiga toxin genes subtypes in B phylotypes of Escherichia coli isolated from calves suffering from diarrhea in Tehran suburb using DNA oligonucleotide arrays
... analysis system (Perkin-Elmer, Mississauga, Cana- da) using with Scan Array Gx software (Perkin-El- mer, Foster City, USA). Fluorescent spot intensities were quantified with Quant Array Version 3.0 (Pack- ard Bioscience, ...
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Optimising the analysis of transcript data using high density oligonucleotide arrays and genomic DNA based probe selection
... the arrays in an experiment to determine gene expression ...the arrays used in an experiment and a robust estimate of the background signal is modelled and the data adjusted ...
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Using genomic DNA based probe selection to improve the sensitivity of high density oligonucleotide arrays when applied to heterologous species
... control arrays (Fig- ure ...control arrays were minimally affected using probe mask files generated at gDNA hybrid- isation intensity thresholds below 500 (Figure ...
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Identification of candidate downstream genes for the homeodomain transcription factor Labial in Drosophila through oligonucleotide array transcript imaging
... through oligonucleotide arrays, we have identified 96 genes (only ...the oligonucleotide array) whose expression levels change significantly following lab ...
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Expression and localization of gastrin messenger RNA and peptide in spermatogenic cells
... Similarly, in situ hybridization experiments revealed no labeling over sections from monkey testis using the human gastrin-specific oligonucleotide, whereas an oligonucleotide specific f[r] ...
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PCR-based detection of a rare linear DNA in cell culture
... supplied with TdT by Promega. The reaction was initiated by adding TdT to the final concentration of 0.2 U/µl. The mixture was incubated at 37°C for 30 min. TdT generated a poly(dG) tail of 50-100 nt (data not shown). ...
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a1/EBP: a leucine zipper protein that binds CCAAT/enhancer elements in the avian leukosis virus long terminal repeat enhancer.
... This purified fusion protein also specifically binds to the 32P-labeled al oligonucleotide, as its binding is competed for by the al oligonucleotide but not by the b oligonucleotide in g[r] ...
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11-Arrays.pdf
... Compares each element of array with search key Work well with small arrays OR unsorted arrays Inefficient for large arrays. Binary search is another searching technique[r] ...
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Synthetic Molecular Machines for Active Self Assembly: Prototype Algorithms, Designs, and Experimental Study
... origami arrays were classified by the following criteria: orientation (is the origami “face-up” or “face-down”?), number of spiders (0,1, multiple), location of spiders (START, TRACK, STOP, CONTROL), image quality ...
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Identification of two homologs of the Kaposi's sarcoma-associated herpesvirus (human herpesvirus 8) in retroperitoneal fibromatosis of different macaque species.
... In order to assay for a new herpesvirus in RF tumors ob- tained from a different species of macaque, Macaca mulatta, we developed a second degenerate PCR assay (KSHV/RFHV family degenerate assay; Fig. 1C) to identify ...
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A novel T-cell protein which recognizes a palindromic sequence in the negative regulatory element of the human immunodeficiency virus long terminal repeat.
... An oligonucleotide related to the site B region, but with multiple sequence changes, has been reported to bind the cellular transcription factor AP1 4, but an oligonucleotide containing [r] ...
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Sesqui arrays, a generalisation of triple arrays
... Even if the conditions are not all satisfied, interesting arrays can be ob- tained. Consider the unique (7, 4, 2) biplane. For any block B, the three Hussain chains on B are the three possible 4-cycles on this ...
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Detection with synthetic oligonucleotide probes of nucleotide sequence variations in the genes encoding enterotoxins of Escherichia coli
... Oligonucleotide probes representing three regions of the genes encoding LT of human origin LTIh, the LT1 oligonucleotide probe from the coding region of the A subunit and the LT2 and LT3[r] ...
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Establishment and application of a CRISPR–Cas12a assisted genome-editing system in Zymomonas mobilis
... c.f.u and editing efficiency of ldh after editing by 59 nt template oligonucleotide targeting the lagging strand and leading strand, respectively (a), or by oligonucleotide template w[r] ...
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