[PDF] Top 20 Transposable element detection from whole genome sequence data
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Transposable element detection from whole genome sequence data
... Transposable element insertions are a subset of struc- tural variants that can be identified from WGS ...TE detection, specialised software is often used by those interested in studying the ... See full document
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Twenty years of transposable element analysis in the Arabidopsis thaliana genome
... Repression of transposition involves a variety of mech- anisms, including covalent modifications of histones, DNA methylation, incorporation of histone variants, and other factors, such as chromatin-remodelling enzymes ... See full document
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Transposable element derived DNaseI-hypersensitive sites in the human genome
... These data were retrieved from the table named ...UCSC Genome Browser known genes and these data were retrieved from the table named ...mRNA data from the NCBI Reference ... See full document
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Population and Whole Genome Sequence Based Characterization of Invasive Group A Streptococci Recovered in the United States during 2015
... pipeline data, we have several additional parameters to evaluate in association with disease manifesta- tions, virulence, and as vaccine ...years. From the results shown here, it appears that emm type ... See full document
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Transposable element abundance correlates with mode of transmission in microsporidian parasites
... inferred from 37 highly conserved proteins ...to genome incompleteness, and that microsporidia may have mechanisms to eliminate TEs other than RNAi, Argonaute was apparently lost in ...protein ... See full document
8
The CACTA transposon Bot1 played a major role in Brassica genome divergence and gene proliferation
... plant genome and its evolution. Our analysis of the Bot1 element in BACs and contigs showed its presence in homologous sites in triplicated regions of ...an element was present in the ancestral ... See full document
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Evidence for Recent Invasion of the Medaka Fish Genome by the Tol2 Transposable Element
... Distribution of Tol2: Tol2 was first found in the me- daka fish O. latipes (Koga et al. 1996). Its copies are highly homogeneous even at the nucleotide sequence level (Koga and Hori 1999). One possible explanation ... See full document
9
Detection of long repeat expansions from PCR free whole genome sequence data
... STRs from PCR- free, WGS data implemented in a software package named ...repeats from just a few units in length up to large, pathogen- ic expansions that may be significantly longer than the read ... See full document
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Detection and whole genome sequence analysis of an enterovirus 68 cluster
... redundant sequence infor- mation was not submitted. Human EV68 sequence was assembled using a reference strain, Fermon (GenBank accession number: ...obtained from the BLASTN ... See full document
7
Detection of long repeat expansions from PCR-free whole-genome sequence data
... The library preparation used for these sequencing experiments had a mean fragment size of ~350-450 bp but the C9orf72 repeat expansion can be more than 10 kb in length (Gijselinck et al. 2016). This means that in ... See full document
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The Impact of Whole Genome Sequence Data on Drug Discovery—A Malaria Case Study
... Presently the function of falcipain-1 remains un- known and the current analysis may serve as a lead in the search for its endogenous targets. The sites responsible for substrate specificity in falcipain-1 and falcipain-2 ... See full document
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Analysis of gene expressions in both melanoma and melanocyte cell lines by chip-seq technology
... using genome-wide Chip-Seq ...the whole genome sequencing data to align reads and find the differential gene expressions, gene-protein expression patterns, gene alterations and gene ... See full document
8
Timely approaches to identify probiotic species of the genus Lactobacillus
... sequencing, detection of pro- biotic lactobacilli from PCR amplicons is possible to the species level within 7 h using Single-strand conform- ation polymorphisms ... See full document
13
African evolutionary history inferred from whole genome sequence data of 44 indigenous African populations
... herders from the Near East) and is consistent with the presence at moderate frequency of the −13,910T variant associated with lactose tolerance in European populations [15, ... See full document
14
Genome sequencing of the extinct Eurasian wild aurochs, Bos primigenius, illuminates the phylogeography and evolution of cattle
... SNP data set to generate a maximum likelihood (ML) phylogenetic tree ...BovineSNP50 data set was filtered using a linkage disequi- librium threshold (r 2 ≤ ...breed from 59 modern breeds excluding ... See full document
15
Genetic Testing for TMEM154 Mutations Associated with Lentivirus Susceptibility in Sheep
... TMEM154 polymorphisms were scored in all 75 animals at 12 sites: R4A(delta53), A13V, L14H, T25I, E31Q, D33N, E35K, T44M, N70I, I74F, E82Y(delta82), and I102T. Haplotype phase for these 12 sites was unambiguous in 68% of ... See full document
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Whole genome sequence analysis of Mycobacterium suricattae
... Dippenaar, A, Parsons, S D C, Sampson, S L, van der Merwe, R G, Drewe, J A, Abdallah, A M, Siame, K K, van Pittius, N C G, van Helden, P D, Pain, A and Warren, R M (2015) Whole genome sequence ... See full document
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The Ac and Uq transposable element systems in maize: interactions among components.
... T h e distinctiveness of Uq as a new transposable element system was based on standard genetic tests for transposable element systems (FRIEDEMANN and PETERSON 198[r] ... See full document
9
Griffin_unc_0153D_14931.pdf
... with genome-wide significance; Satake et ...with genome-wide significance at SCARB2 and SREBF1/RAI1 and confirmed associations at LRRK2, GBA, SNCA¸MAPT, GAK, and the HLA ...GWAS from finding an ... See full document
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Insights into Three Whole-Genome Duplications Gleaned from the Paramecium caudatum Genome Sequence
... caudatum genome was aligned with each of the three previously sequenced aurelia genomes using a modified ver- sion of the method used to align ...those from each P. aurelia genome identified best ... See full document
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