"Light-generated oligonucleotide arrays for rapid DNA sequence analysis". PNAS. 91 (11): 5022-5026. doi:10.1073/pnas.91.11.5022 ... Oligonucleotide arrays are produced by printing short oligonucleotide sequences designed to represent a single gene or family ... In oligonucleotide microarrays, the probes are short sequences designed to match parts of the sequence of known or predicted ... Although oligonucleotide probes are often used in "spotted" microarrays, the term "oligonucleotide array" most often refers to ...
"Light-generated oligonucleotide arrays for rapid DNA sequence analysis," Proc. Natl. Acad. Sci. 91, pp. 5022-5026, 1994 F. J. ... launched Evidence, the first protein Biochip Array Technology analyzer in 2003. In protein Biochip Array Technology, the ... "Fluorescence detection in automated DNA sequence analysis," Nature 321, pp. 61-67, 1986 P. Fortina, D. Graves, C. Stoeckert, Jr ... These arrays must be made using a serial process (i.e. requiring multiple, sequential steps) to ensure that each sensor is ...
"Light-generated oligonucleotide arrays for rapid DNA sequence analysis". Proc. Natl. Acad. Sci. U.S.A. 91 (11): 5022-5026. ... one oligonucleotide sequence occupies a square 25×25 μm) and the requirement of high fidelity of oligonucleotide synthesis ... They are most commonly used as antisense oligonucleotides, small interfering RNA, primers for DNA sequencing and amplification ... Willems, A.; Deforce, D. L.; Van Bocxlaer, J. (2008). Analysis of oligonucleotides using capillary zone electrophoresis and ...
It can be applied to large datasets generated using either oligonucleotide arrays (MeDIP-chip) or next-generation sequencing ( ... Load the array data. Load the genome sequence. Run Batman: Calibrate the Batman model: Before any data can be analysed, it is ... Register the array design: The array design (i.e. complete list of probes, with their genomic locations) should be provided as ... running Batman on a set of 100 Agilent Human DNA Methylation Arrays (about 250,000 probes per array) took less than an hour to ...
Assessing DNA Sequence Variations in Human ESTs in a Phylogenetic Context Using High-Density Oligonucleotide Arrays - Jian-Bing ... Large-scale SNP analysis reveals clustered and continuous patterns of human genetic variation - Mark D. Shriver,et al. ... Understanding Human DNA Sequence Variation - K. K. KIDD,et al.. * ...
Protein/Peptide Chemistry: amino acid analysis, N- and C-terminal sequencing, peptide synthesis, peptide/protein arrays. ... Mass Spectrometry: qualitative, quantitative, and structural analysis of proteins, carbohydrates, oligonucleotides, and lipids ... The next year protein sequencing and amino acid samples were sent to survey 103 core facilities. By 1989 the ABRF was formally ... ABRF Next Generation Sequencing Group (ABRF-NGS) Antibody Technology Research Group (ARG) Biomedical 'Omics Research Group ( ...
Techniques include DNA microarray technology or sequenced-based techniques such as serial analysis of gene expression (SAGE). ... makes use primarily of DNA microarrays in which an arrayed series of microscopic spots of pre-defined DNA oligonucleotides ... Survival analyses are often shown as Kaplan-Meier survival plots, an example of which is shown to the right. In addition to ... DNA microarrays evolved from Southern blotting which allows for detection of a specific DNA sequence in a sample of DNA. Due to ...
... (RDA) is a technique used in biological research to find sequence differences in two ... This technology has been further enhanced through the development of representation oligonucleotide microarray analysis (ROMA ... which uses array technology to perform such analyses. This method may also be adapted to detect DNA methylation differences, as ... Genomes or cDNA sequences from two samples (i.e. cancer sample and a normal sample) are PCR amplified and differences analyzed ...
Genome-Wide Oligonucleotide-Based Array Comparative Genome Hybridization Analysis of Non-Isolated Congenital Diaphragmatic ... Sequencing and in vitro Amplification of DNA; Nucleic Acids Research 17, 8543-8551. Wojciech Rychlik, William J. Spencer, and ... oligonucleotide-based array hybridization studies, degenerate primer studies, microsatellite analysis, DNA microarray detection ... OLIGO Primer Analysis Software was the first publicly available software for DNA primer design. The first papers describing ...
The FlexArrayer is also applicable for array based re-sequencing. The FlexArrayer provides microarray and oligopool synthesis ... Analysis of custom genomic regions of interest (e.g. specific genes, multiple variants and/or complete pathways). Analysis of ... Thus, the maximum length of any oligonucleotide produced on this platform is 60mer in length. The microarray is now ready to be ... Two European Labs Turn to Next-Gen Sequencing for BRCA1/2 Testing, INsequence, October 26, 2010. SM Carr et al., DNA "Re- ...
... heteroduplex analysis (HDA) by multi-capillary electrophoresis or also dedicated oligonucleotides array based on comparative ... When this happens, it is difficult for the repair mechanism to "know" how to replace the correct DNA sequence, and there are ... "High-resolution oligonucleotide array-CGH applied to the detection and characterization of large rearrangements in the ... "Mutational analysis of BRCA1 and BRCA2 and clinicopathologic analysis of ovarian cancer in 82 ovarian cancer families: two ...
However, northern blot analysis of this 477bp sequence yielded no results. A subsequent tiling array analysis sequencing Hfq- ... "Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays". Nucleic Acids Res. 30 (17): 3732-8 ... "Inverse regulation in the metabolic genes pckA and metE revealed by proteomic analysis of the Salmonella RcsCDB regulon". J ... "A computational approach to identify genes for functional RNAs in genomic sequences". Nucleic Acids Res. 29 (19): 3928-38. doi: ...
2003). "End-sequence profiling: Sequence-based analysis of aberrant genomes". Proceedings of the National Academy of Sciences ... 2003). "Representational oligonucleotide microarray analysis: A high-resolution method to detect genome copy number variation ... 2004). "1-Mb resolution array-based comparative genomic hybridization using a BAC clone set optimized for cancer gene analysis ... This analysis validated the approach of whole cancer genome sequencing in identifying somatic mutations and the importance of ...
Arrays can also be made with molecules other than DNA. Allele-specific oligonucleotide (ASO) is a technique that allows ... The membrane is then exposed to a labeled DNA probe that has a complement base sequence to the sequence on the DNA of interest ... PMC 3467903 . Tarca, Adi L.; Romero, Roberto; Draghici, Sorin (31 December 2016). "Analysis of microarray experiments of gene ... custom arrays, and arrays with larger spots on porous membranes (macroarrays). There can be anywhere from 100 spots to more ...
... next-generation sequencing) lead to variations in DNA sequencing that allowed for high-throughput analyses of many genomic ... Unlike microarrays, RNA sequencing is not constrained by factors such as oligonucleotide generation, and the number of probes ... Micro RNA arrays have been used in exRNA studies to generate miRNA profiles of bodily fluids. The advent of massively parallel ... Among these DNA sequencing-derived methods is RNA sequencing. The main advantage of RNA sequencing over other methods for exRNA ...
... are covalently attached to the oligonucleotide primer for the enzymatic DNA sequence analysis. During the analysis, fragments ... Array analysis has become a standard technique for molecular biologists who wish to monitor gene expression. DNA ink-jet ... A series of analysis cycles is performed to identify a sequence, one cycle for each amino acid, and the cycle times were ... 30 March 2006). "Analysis of the DNA sequence and duplication history of human chromosome 15". Nature. 440 (7084): 671-675. doi ...
The algorithm, called SOAPdenovo, can assemble a genome in two days and has been used to sequence an array of plant and animal ... SOAPdenovo is part of "Short Oligonucleotide Analysis Package" (SOAP), a suite of tools developed by BGI for de novo assembly ... "BGI Offers Next-Gen Sequencing Service, Kicks Off 100-Genome Sequencing Project , In Sequence , Sequencing , GenomeWeb". ... "BGI to Sequence Tiger, Lion, and Leopard Species This Year , In Sequence , Sequencing , GenomeWeb". Archived from the original ...
When assembled into a two-dimensional array, see oligonucleotide array or microarray. Operon - a genetic unit for coordinating ... MIAMI defines it as "the nucleotide sequence present in a particular location on the array". A Reporter may be single-stranded ... In gene expression analysis, expression level refers to the amount of mRNA detected in a sample. FGED - Functional GEnomics ... It is an array of series of thousands of microscopic spots of DNA oligonucleotides, called features, each containing picomoles ...
2004). "Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and ... 2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci ... Structural analysis of the protein suggests that Annexin VII is a membrane binding protein with diverse properties including ...
... which is affected by length and sequence of the oligonucleotide probe. Therefore, for every experiment, only one possible ... Thus, the measurement by flow cytometry represents a replicate analysis of each array element. Effective gathering of ... For example, the commercially available microsphere arrays from Luminex xMAPTM technology uses 10X10 element array. This array ... The direct DNA hybridization approach is the simplest suspension array assay whereby 15 to 20 bp DNA oligonucleotides attached ...
"Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays". Nucleic Acids Res. 30 (17): 3732-8 ... Esr41 sequence is not present in nonpathogenic E. coli K12, but the sRNA can induce cell motility in K12 as well, suggesting ... Deep sequencing of RNA expressed during chemical stress and high cell density fermentation discovered 253 novel intergenic ... A computational screen based on promoter sequences recognised by the sigma factor sigma 70 and on Rho-independent terminators ...
"Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays". Nature Biotechnology. 18 (6): ... Both spotted oligonucleotide arrays and Affymetrix high-density arrays were the method of choice for transcriptional profiling ... Sequence reads are not perfect, so the accuracy of each base in the sequence needs to be estimated for downstream analyses. Raw ... Fluorescence intensities directly indicate the abundance of each sequence, since the sequence of each probe on the array is ...
... expressed cDNA sequence tag (EST) sequencing, serial analysis of gene expression (SAGE) tag sequencing, massively parallel ... of the functional elements of the human genome that uses next-generation DNA-sequencing technologies and genomic tiling arrays ... New physical detection technologies are employed, such as oligonucleotide microarrays to identify chromosomal gains and losses ... A variant of this sequence alignment is used in the sequencing process itself. Before sequences can be analyzed they have to be ...
An array containing immobilized allele-specific oligonucleotide (ASO) probes. Fragmented nucleic acid sequences of target, ... and Oligonucleotide Microarrays: A Platform Comparison based on Statistical Power Analysis". DNA Research. 14 (1): 1-11. doi: ... For example, SNP arrays can be used to study loss of heterozygosity (LOH). LOH occurs when one allele of a gene is mutated in a ... A SNP array can also be used to generate a virtual karyotype using software to determine the copy number of each SNP on the ...
SAGE DNA microarray Tiling array RNA-Seq AlloMap molecular expression testing Bookmarking Expressed sequence tag Expression ... Analysis of expression is not limited to quantification; localisation can also be determined. mRNA can be detected with a ... fluorescently labeled oligonucleotide probes are more expensive than non-specific intercalating fluorescent dyes. For ... Next-generation sequencing (NGS) such as RNA-Seq is another approach, producing vast quantities of sequence data that can be ...
RNA probes can be designed for any gene or any sequence within a gene for visualization of mRNA,[3][4][5] lncRNA[6][7][8] and ... In the eventual analysis, these fragments were put into order by digesting a copy of each fragment into still smaller fragments ... Then an oligonucleotide complementary to the suspected pathogen's genetic code is synthesized and chemically tagged with a ... on microhole-array chips". 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society. ...