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High throughput genomic assays
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The increasing affordability of DNA sequencing has allowed it to be widely deployed in pathology laboratories. However, this has exposed many issues with the analysis and reporting of variants for clinical diagnostic use.
16p
vioraclene
31-03-2024
3
2
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High-throughput assays for measuring the three-dimensional (3D) configuration of DNA have provided unprecedented insights into the relationship between DNA 3D configuration and function. Data interpretation from assays such as ChIA-PET and Hi-C is challenging because the data is large and cannot be easily rendered using standard genome browsers.
9p
vialfrednobel
29-01-2022
19
0
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Transcriptome-wide m6 A patterns in Arabidopsis have been assayed recently. However, differential m6 A patterns between organs have not been well characterized. Results: Over two-third of the transcripts in Arabidopsis are modified by m6 A. In contrast to a recent observation of m6 A enrichment in 5′ mRNA, we find that m6 A is distributed predominantly near stop codons.
26p
viaristotle
29-01-2022
10
1
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High-throughput chromosome conformation capture assays, such as Hi-C, have shown that the genome is organized into organizational units such as topologically associating domains (TADs), which can impact gene regulatory processes. The sparsity of Hi-C matrices poses a challenge for reliable detection of these units.
31p
viarchimedes
26-01-2022
7
0
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Expression screening of environmental DNA (eDNA) libraries is a popular approach for the identification and characterization of novel microbial enzymes with promising biotechnological properties. In such “functional metagenomics” experiments, inserts, selected on the basis of activity assays, are sequenced with high throughput sequencing technologies. Assembly is followed by gene prediction, annotation and identification of candidate genes that are subsequently evaluated for biotechnological applications.
10p
vilarryellison
29-10-2021
9
1
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MicroRNA (miRNA) profiling is an important step in studying biological associations and identifying marker candidates. miRNA exists in isoforms, called isomiRs, which may exhibit distinct properties. With conventional profiling methods, limitations in assay and analysis platforms may compromise isomiR interrogation.
12p
vibeauty
23-10-2021
9
0
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Highly polymorphic human leukocyte antigen (HLA) genes are responsible for fine-tuning the adaptive immune system. High-resolution HLA typing is important for the treatment of autoimmune and infectious diseases. Additionally, it is routinely performed for identifying matched donors in transplantation medicine.
10p
vibeauty
23-10-2021
3
0
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Massively parallel reporter assays (MPRAs) enable high-throughput functional evaluation of various DNA regulatory elements and their mutant variants. The assays are based on construction of highly diverse plasmid libraries containing two variable fragments, a region of interest (a sequence under study; ROI) and a barcode (BC) used to uniquely tag each ROI, which are separated by a constant spacer sequence.
10p
visilicon2711
20-08-2021
9
1
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The state-of-the-art in nucleic acid based biodetection continues to be polymerase chain reaction (PCR), and many real-time PCR assays targeting biodefense pathogens for biosurveillance are in widespread use.
21p
vijeeni2711
24-07-2021
15
0
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The combination of time-lapse imaging of live cells with high-throughput perturbation assays is a powerful tool for genetics and cell biology. The Mitocheck project employed this technique to associate thousands of genes with transient biological phenotypes in cell division, cell death and migration.
10p
viwyoming2711
16-12-2020
8
1
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Although the sequencing landscape is rapidly evolving and sequencing costs are continuously decreasing, whole genome sequencing is still too expensive for use on a routine basis. Targeted resequencing of only the regions of interest decreases both costs and the complexity of the downstream data-analysis.
9p
viflorida2711
30-10-2020
11
2
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The application of high-throughput sequencing in a broad range of quantitative genomic assays (e.g., DNA-seq, ChIP-seq) has created a high demand for the analysis of large-scale read-count data. Typically, the genome is divided into tiling windows and windowed read-count data is generated for the entire genome from which genomic signals are detected (e.g. copy number changes in DNA-seq, enrichment peaks in ChIP-seq).
11p
viconnecticut2711
28-10-2020
10
0
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Identification of functional elements of a genome often requires dividing a sequence of measurements along a genome into segments where adjacent segments have different properties, such as different mean values. Despite dozens of algorithms developed to address this problem in genomics research, methods with improved accuracy and speed are still needed to effectively tackle both existing and emerging genomic and epigenomic segmentation problems.
15p
viconnecticut2711
28-10-2020
20
1
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The spatial organization of the genome is being evaluated as a novel indicator of toxicity in conjunction with drug-induced global DNA hypomethylation and concurrent chromatin reorganization.
21p
vienzym2711
03-04-2020
8
2
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The second chapter discusses how DNA bisulfite treatment together with high-throughput sequencing allows determining the DNA methylation on a whole genome scale at single cytosine resolution and introduces software for analysis of bisulfite sequencing data. The third chapter presents analysis of GC3-rich genes that have more methylation targets.
142p
yeutinh98
22-09-2012
53
6
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Tuyển tập báo cáo các nghiên cứu khoa học quốc tế ngành y học dành cho các bạn tham khảo đề tài: High-throughput SNP genotyping in the highly heterozygous genome of Eucalyptus: assay success, polymorphism and transferability across species
18p
panasonic02
14-12-2011
57
3
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