Results 221 to 230 of about 87,488 (261)

Genome-wide analysis of tandem repeat variation identifies SLC15A4 as a susceptibility gene for idiopathic pulmonary fibrosis

Oketch JW, Albahimah A, Barca A, Allen R, Shrine N, Walewski B, Sidekli O, Alyassi A, Romano A, Jenkins RG, Maher TM, Molyneaux PL, Stewart I, Verri T, Wain LV, Hollox EJ.   +15 more
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Tandem sequence repeats in transmembrane channel proteins

Trends in Biochemical Sciences, 1991
The flow of ions and small molecules out of and between cells is mediated by various classes of transmembrane proteins. One group of putative channel proteins, including the abundant lens protein MIP, is widely distributed from prokaryotes to vertebrates.
G J, Wistow, M M, Pisano, A B, Chepelinsky   +2 more
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Detecting fuzzy amino acid tandem repeats in protein sequences

Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine, 2011
Tandem repetitions within protein amino acid sequences often correspond to regular secondary structures and formmulti-repeat 3D assemblies of varied size and function. Developing internal repetitions is one of the evolutionary mechanisms that proteins employ to adapt their structure and function under evolutionary pressure. While there is keen interest
Pellegrini M, Renda M E, Vecchio A
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Enabling tandem repeat sequence genotype analysis across capture kits.

Journal of Clinical Oncology, 2022
e18700 Background: Previous studies on mutation calling have documented capture kit batch effects in Whole Exome Sequencing (WES) data from The Cancer Genome Atlas (TCGA) database, hindering direct comparison between samples from different capture kits. For example, in classification, a cancer type exclusively sampled by a specific capture kit in the
Shun H Yip, Michael Diamreyan, Edmund Wong, Raghuraman Ramamurthy, Sidney Tobias, Hao Cheng, Victor Solovyev, Cheuk Ying Tang   +7 more
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Tandem repeats in proteins: From sequence to structure

Journal of Structural Biology, 2012
The bioinformatics analysis of proteins containing tandem repeats requires special computer programs and databases, since the conventional approaches predominantly developed for globular domains have limited success. Here, I survey bioinformatics tools which have been developed recently for identification and proteome-wide analysis of protein repeats ...
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Short tandem repeat sequencing on the 454 platform

Forensic Science International: Genetics Supplement Series, 2011
Abstract To investigate the feasibility of next generation sequencing (NGS) technology for the multiplex detection and sequence production of short tandem repeats (STRs), thirteen STR markers (CSF1PO, D2S441, D3S1358, D5S818, D7S820, D8S1179, D10S1248, D13S317, D16S539, D21S11, D22S1045, TPOX, and vWA) were amplified using an optimized multiplex ...
Melissa Scheible, Odile Loreille, Rebecca Just, Jodi Irwin   +3 more
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Greedily assemble tandem repeats for next generation sequences

International Journal of High Performance Computing and Networking, 2019
Eukaryotic genomes contain high volumes of intronic and intergenic regions in which repetitive sequences are abundant. These repetitive sequences represent challenges in genomic assignment of short read sequences generated through next generation sequencing and are often excluded in analysis losing invaluable genomic information.
Yongqing Jiang, Jinhua Lu, Jingyu Hou, Wanlei Zhou   +3 more
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RPTRF: A rapid perfect tandem repeat finder tool for DNA sequences

Biosystems, 2023
The sequencing of eukaryotic genomes has shown that tandem repeats are abundant in their sequences. In addition to affecting some cellular processes, tandem repeats in the genome may be associated with specific diseases and have been the key to resolving criminal cases. Any tool developed for detecting tandem repeats must be accurate, fast, and useable
Reza, Behboudi, Mostafa, Nouri-Baygi, Mahmoud, Naghibzadeh   +2 more
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Locating Tandem Repeats in Weighted Biological Sequences

2012
A weighted biological sequence is a string in which a set of characters may appear at each position with respective probabilities of occurrence. We attempt to locate all the tandem repeats in a weighted sequence. By introducing the idea of equivalence classes in weighted sequences, we identify the tandem repeats of every possible length using an ...
Hui Zhang, Qing Guo, Costas S. Iliopoulos   +2 more
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