"Light-generated oligonucleotide arrays for rapid DNA sequence analysis". PNAS. 91 (11): 5022-5026. Bibcode:1994PNAS...91.5022P ... 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. 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 ... An emerging application of Oligonucleotide synthesis is the re-creation of viruses from sequence alone - either harmless, such ... They are most commonly used as antisense oligonucleotides, small interfering RNA, primers for DNA sequencing and amplification ...
"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 ...
... oligonucleotide array sequence analysis MeSH E05.393.760.640 - oligonucleotide array sequence analysis MeSH E05.393.760.700 - ... oligonucleotide array sequence analysis MeSH E05.588.570.700 - protein array analysis MeSH E05.588.570.850 - tissue array ... oligonucleotide array sequence analysis MeSH E05.196.630.570.700 - protein array analysis MeSH E05.196.630.570.850 - tissue ... oligonucleotide array sequence analysis MeSH E05.393.525.680 - protein array analysis MeSH E05.393.525.700 - random amplified ...
It can be applied to large datasets generated using either oligonucleotide arrays (MeDIP-chip) or next-generation sequencing ( ... running Batman on a set of 100 Agilent Human DNA Methylation Arrays (about 250,000 probes per array) took less than an hour to ... or sequenced by next-generation sequencing (MeDIP-seq). While this tells you what areas of the genome are methylated, it does ... Bayesian tool for methylation analysis, also known as BATMAN, is a statistical tool for analysing methylated DNA ...
... are arrayed; each spot contains a known DNA sequence. When performing microarray analyses, mRNA is collected from a control and ... The cDNA is spread onto the surface of the microarray where it hybridizes with oligonucleotides on the chip and a laser is used ... Single-cell RNA sequencing (scRNA-seq) is a recently developed technique that allows the analysis of the transcriptome of ... RNA sequencing is a next-generation sequencing technology; as such it requires only a small amount of RNA and no previous ...
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 ... ABRF Next Generation Sequencing Group (ABRF-NGS) Antibody Technology Research Group (ARG) Biomedical 'Omics Research Group ( ... 2017 Sir Shankar Balasubramanian and David Klenerman for the invention of a method of next-generation DNA sequencing which is ...
Templates are sequenced base-by-base during each read. Then, the data collection and analysis software aligns sample sequences ... This introduces some bias, as an array is restricted to a fixed number of probes. Sequencing, by contrast, is thought to have ... or ChIP sequencing. Oligonucleotide adaptors are then added to the small stretches of DNA that were bound to the protein of ... Massively parallel sequence analyses are used in conjunction with whole-genome sequence databases to analyze the interaction ...
... (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 ...
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 ...
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- ...
Genome-Wide Oligonucleotide-Based Array Comparative Genome Hybridization Analysis of Non-Isolated Congenital Diaphragmatic ... genome sequencing, detection of mutants or intraspecific variability, genetic disease studies, siRNA and gene silencing, FISH ... oligonucleotide-based array hybridization studies, degenerate primer studies, microsatellite analysis, DNA microarray detection ... restriction enzyme analysis. It was created and maintained by Wojciech Rychlik and Piotr Rychlik. OLIGO Primer Analysis ...
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- ... "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): 3928-3938. ...
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 ... Josefsen K, Nielsen H (2011). "Northern Blotting Analysis". In Nielsen H (ed.). RNA. Methods in Molecular Biology. Vol. 703. ... custom arrays, and arrays with larger spots on porous membranes (macroarrays). There can be anywhere from 100 spots to more ...
... 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 ...
June 2003). "End-sequence profiling: sequence-based analysis of aberrant genomes". Proc. Natl. Acad. Sci. U.S.A. 100 (13): 7696 ... October 2003). "Representational oligonucleotide microarray analysis: a high-resolution method to detect genome copy number ... "1-Mb resolution array-based comparative genomic hybridization using a BAC clone set optimized for cancer gene analysis". Genome ... This analysis validated the approach of whole cancer genome sequencing in identifying somatic mutations and the importance of ...
"Nucleotide sequence analysis of DNA. IX. Use of oligonucleotides of defined sequence as primers in DNA sequence analysis". ... Strong hybridization signals from a given spot on the array identifies its sequence in the DNA being sequenced. This method of ... Shotgun sequencing is a sequencing method designed for analysis of DNA sequences longer than 1000 base pairs, up to and ... Wu R, Tu CD, Padmanabhan R (1973). "Nucleotide sequence analysis of DNA. XII. The chemical synthesis and sequence analysis of a ...
... 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 ...
... 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 xMAP technology uses a 10X10 element array. This array ... The direct DNA hybridization approach is the simplest suspension array assay whereby 15 to 20 bp DNA oligonucleotides attached ...
... 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. ...
"Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays". Nucleic Acids Research. 30 (17): ... 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 ...
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 ...
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 ...
Next-generation sequencing (NGS) such as RNA-Seq is another approach, producing vast quantities of sequence data that can be ... "The first comprehensive and quantitative analysis of human platelet protein composition allows the comparative analysis of ... A single array or "chip" may contain probes to determine transcript levels for every known gene in the genome of one or more ... fluorescently labeled oligonucleotide probes are more expensive than non-specific intercalating fluorescent dyes. For ...
The analysis of molecular interaction patterns is done by using specialized software. The array of gel elements on a glass ... Customized oligonucleotide biochips are designed to interrogate test samples of known nucleotide sequences. For example, known ... Andrei Mirzabekov initiated the development of the DNA sequencing by hybridization with oligonucleotides: a novel method in ... A set of potential hybridization probes are created for each DNA sequence that form perfect duplexes with that sequence. The ...
... expressed cDNA sequence tag (EST) sequencing, serial analysis of gene expression (SAGE) tag sequencing, massively parallel ... In addition to single-nucleotide polymorphism arrays identifying point mutations that cause cancer, oligonucleotide microarrays ... association analysis, result summary and visualization. Meta-analysis of whole genome sequencing studies provides an attractive ... Sequence Read Archive Used in Network Analysis: Metabolic Pathway Databases (KEGG, BioCyc), Interaction Analysis Databases, ...
... used a synthetic oligonucleotide primer containing a T7 RNA polymerase promoter sequence. This was able to generate large ... Using a micro-electrode array in the ipRGCs of murine mice, Dr. Van Gelder found that there are three distinct cell populations ... Prior to the publication of this paper, the cloning and analysis of low-abundance mRNAs in the brain was exceedingly difficult ... Using techniques such as deep sequencing and other molecular methods, the Van Gelder lab analyzes the host microbiome and ...
DNA sequencing is used to directly analyze the genomic DNA sequence of a particular gene. In general, only the parts of the ... A large number of different methods have been developed for chromosome analysis: Chromosome analysis using a karyotype involves ... Array comparative genomic hybridization is a newer molecular technique that involves hybridization of an individual DNA sample ... 200kb bacterial artificial chromosomes to small oligonucleotides) that represent unique regions of the genome. This method is ...
... array CGH is also suitable for the analysis of DNA copy number aberrations that cause human genetic disorders. That is, array ... The latest approach is spotting the arrays with short oligonucleotides. The amount of oligos is almost infinite, and the ... makes it possible to map the changes directly onto the genomic sequence. Array CGH has proven to be a specific, sensitive, fast ... Arrays can also be constructed using cDNA. These arrays currently yield a high spatial resolution, but the number of cDNAs is ...