[go: up one dir, main page]
More Web Proxy on the site http://driver.im/

MacManes, 2015 - Google Patents

Optimizing error correction of RNAseq reads

MacManes, 2015

View PDF
Document ID
8041262266936199761
Author
MacManes M
Publication year
Publication venue
bioRxiv

External Links

Snippet

Motivation: The correction of sequencing errors contained in Illumina reads derived from genomic DNA is a common pre-processing step in many de novo genome assembly pipelines, and has been shown to improved the quality of resultant assemblies. In contrast …
Continue reading at www.biorxiv.org (PDF) (other versions)

Classifications

    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/10—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology
    • G06F19/22—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology for sequence comparison involving nucleotides or amino acids, e.g. homology search, motif or SNP [Single-Nucleotide Polymorphism] discovery or sequence alignment
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES OR MICRO-ORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or micro-organisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or micro-organisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Hybridisation probes
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/10—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology
    • G06F19/24—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology for machine learning, data mining or biostatistics, e.g. pattern finding, knowledge discovery, rule extraction, correlation, clustering or classification
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F9/00—Arrangements for programme control, e.g. control unit
    • G06F9/06—Arrangements for programme control, e.g. control unit using stored programme, i.e. using internal store of processing equipment to receive and retain programme

Similar Documents

Publication Publication Date Title
Weinstein et al. FIGARO: An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters
Ezkurdia et al. Multiple evidence strands suggest that there may be as few as 19 000 human protein-coding genes
Mielczarek et al. Review of alignment and SNP calling algorithms for next-generation sequencing data
Hough et al. Genetic degeneration of old and young Y chromosomes in the flowering plant Rumex hastatulus
Song et al. AnchorWave: Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism, and whole-genome duplication
Aach et al. CasFinder: Flexible algorithm for identifying specific Cas9 targets in genomes
Mysara et al. From reads to operational taxonomic units: an ensemble processing pipeline for MiSeq amplicon sequencing data
Kannan et al. Shannon: an information-optimal de novo RNA-Seq assembler
Melsted et al. Fusion detection and quantification by pseudoalignment
Tsuji et al. Evaluation of preprocessing, mapping and postprocessing algorithms for analyzing whole genome bisulfite sequencing data
Gu et al. Conserved patterns of sex chromosome dosage compensation in the Lepidoptera (WZ/ZZ): insights from a moth neo-Z chromosome
KR20200058457A (en) Method for detecting fusion using compressed molecular tagged nucleic acid sequence data
Jin et al. An effort to use human-based exome capture methods to analyze chimpanzee and macaque exomes
Kucuk et al. Kollector: transcript-informed, targeted de novo assembly of gene loci
Zhu et al. VERSE: a versatile and efficient RNA-Seq read counting tool
Kuo et al. Illuminating the dark side of the human transcriptome with TAMA Iso-Seq analysis
Barrero et al. Shoot transcriptome of the giant reed, Arundo donax
Zhao et al. Profiling long noncoding RNA of multi-tissue transcriptome enhances porcine noncoding genome annotation
Srivastava et al. Homolog-specific PCR primer design for profiling splice variants
Marco et al. Detection of microRNAs in color space
MacManes Optimizing error correction of RNAseq reads
Roux et al. The extent of mRNA editing is limited in chicken liver and adipose, but impacted by tissular context, genotype, age, and feeding as exemplified with a conserved edited site in COG3
Watson Mind the gaps–ignoring errors in long read assemblies critically affects protein prediction
Casado‐Vela et al. Protein chimerism: Novel source of protein diversity in humans adds complexity to bottom‐up proteomics
Casadei et al. Genome-scale analysis of human mRNA 5′ coding sequences based on expressed sequence tag (EST) database