[PDF] Top 20 Linear-time protein 3-D structure searching with insertions and deletions
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Linear-time protein 3-D structure searching with insertions and deletions
... to 3-D space is still ...average-case time com- plexity of our algorithm is O(N) for a database of size N, but its coefficient, ...tically) linear-time, or near ... See full document
8
Genome Wide Spectra of Transcription Insertions and Deletions Reveal That Slippage Depends on RNA:DNA Hybrid Complementarity
... of insertions and deletions of ...of insertions or deletions in protein- coding transcripts by the sequencing coverage of the corresponding regions and averaging across FIG 5 Model of ... See full document
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The Hypervariable Domain of the Murine Leukemia Virus Surface Protein Tolerates Large Insertions and Deletions, Enabling Development of a Retroviral Particle Display System
... of insertions and ...infectious. Insertions of this 7-amino-acid sequence at the N terminus, center, and the C terminus of the hypervariable domain had little effect on envelope protein (Env) ... See full document
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The role of small in-frame insertions/deletions in inherited eye disorders and how structural modelling can help estimate their pathogenicity
... clinician. Protein structure was therefore used as an endophenotype (defined by Karchin [11] as ‘ measurable component unseen by the unaided eye along the pathway between disease and distal genotype ’ ... See full document
8
Exploring insertions and deletions (indels) of MSRB3 gene and their association with growth traits in four Chinese indigenous cattle breeds
... explore insertions and deletions (indels) in MSRB3 gene and investigate their association with growth traits in four indigenous cat- tle breeds (Luxi cattle, Qinchuan cattle, Nanyang cattle, and Jiaxian Red ... See full document
11
Phenotypic and genetic analysis of Lymantria dispar nucleopolyhedrovirus few polyhedra mutants: mutations in the 25K FP gene may be caused by DNA replication errors.
... DNA insertions or deletions that correlated with the appearance of the FP phenotype were ...small insertions or deletions within the 25K FP ...the deletions occurred within the same ... See full document
10
DCJ-Indel sorting revisited
... (i.e., insertions and deletions of chromosomes and chromosomal intervals) into the calculation of genomic distance functions, with the exception of Braga et ...a linear time algorithm for the ... See full document
9
Transgene-Free Genome Editing in Caenorhabditis elegans Using CRISPR-Cas
... small insertions or dele- tions, ranging from a single nucleotide to ,20 (Friedland et ...large deletions, while the CRISPR-Cas nuclease activity provided by transgene expression may been effective at other ... See full document
6
Unique Pattern of Convergent Envelope Evolution in Simian Immunodeficiency Virus-Infected Rapid Progressor Macaques: Association with CD4-Independent Usage of CCR5
... SIV occurs in vivo as a genetically diverse quasispecies that replicates at a high rate and thus causes considerable turnover of virus and infected cells (30). This phenomenon allows for emergence and accumulation of ... See full document
14
Host range mutants of v-src: alterations in kinase activity and substrate interactions.
... In the case of mutants SPX1, SHX13, and XD6, which contain linker insertions or small deletions within the SH2 domain, the kinase activitics of the mutant proteins, with enolase as the s[r] ... See full document
10
X-linked Alport syndrome: pathogenic variant features and further auditory genotype-phenotype correlations in males
... network structure cannot be constructed, resulting in basement membrane injury and hearing loss [8, ...as deletions, insertions, splicing variants, direct or indirect nonsense mutations, and missense ... See full document
11
Variation of the Mycobacterium tuberculosis PE PGRS33 Gene among Clinical Isolates
... three insertions, nine deletions, one insertion-and-deletion event, six synony- mous SNPs, and six nonsynonymous ...of deletions, insertions, and SNPs within the PE_PGRS33 gene that were found ... See full document
7
Landscape of somatic mutations in 560 breast cancer whole-genome sequences.
... small insertions/deletions, rearrangements and copy number changes9–13, yielding substantial insights into the mutated cancer genes and mutational processes operative in human ...target ... See full document
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High Frequency and Diversity of Rearrangements in Polyomavirus BK Noncoding Regulatory Regions Cloned from Urine and Plasma of Israeli Renal Transplant Patients and Evidence for a New Genetic Subtype
... large insertions and deletions, were detected in 0 to 100% of the clones from individual samples (mean, 50% and 67% in plasma and urine, ...same time and/or in subsequent samples from the same ... See full document
10
Chemogenomic Screen for Imipenem Resistance in Gram-Negative Bacteria
... pneumoniae, 1,379 SNVs were detected (Fig. 1A), with an average of 22 mutations (range, 5 to 39) per genome (Table S3). In P. aeruginosa, 654 SNVs were identified (Fig. 1A), with an average of 10 mutations (range, 2 to ... See full document
17
Diversification of the Ig Variable Region Gene Repertoire of Synovial B Lymphocytes by Nucleotide Insertion and Deletion
... DNA insertions and deletions identified (see Fig- ures 1 and 2) were located in H regions of the V H gene as defined by Chothia ...the 3 most relevant studies (34, 35, and this report), 37 of 43 ... See full document
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CRISPR/Cas9 mediated genome editing induces exon skipping by alternative splicing or exon deletion
... CRISPR/Cas9 genome editing has transformed the study of gene function in many organisms [1 – 5]. Guide RNAs direct the Cas9 nuclease to create double-strand DNA breaks at complementary target sites in the genome. Repair ... See full document
8
The promoter, transcriptional unit, and coding sequence of herpes simplex virus 1 family 35 proteins are contained within and in frame with the UL26 open reading frame.
... In studies.reported here, a series of plasmid constructs containing deletions or insertions of an a4 promoter or of a sequence encoding a cytomegalovirus epitope reacting with a mouse mo[r] ... See full document
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Extensive Mutagenesis of the Hepatitis B Virus Core Gene and Mapping of Mutations That Allow Capsid Formation
... core protein primary amino acid sequence according to the effect of insertions and deletions on stable antigen expression and capsid formation (Table ...the protein fold (5) provided the ... See full document
8
Is Sentence Compression an NLG task?
... Marcu, 2002). This formulation of the task pro- vided the basis for the noisy-channel en decision- tree based algorithms presented in (Knight and Marcu, 2002), and for virtually all follow-up work on data-driven sentence ... See full document
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