 High resolution epitope mapping of anti-Hu and anti-Yo autoimmunity by programmable phage display Oxford Academic, 2020
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 Detection of Pneumonia Pathogens from PlasmaCell-Free DNA American Journal of Respiratory Critical Care, 2020
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 Pan-viral serology implicates enteroviruses in acute flaccid myelitis Nature Medicine, 2020
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 Plasmodium falciparum Resistance to a Lead Benzoxaborole Due to Blocked Compound Activation and Altered Ubiquitination or Sumoylation American Society of Microbiology, 2020
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 Exploratory analysis of the potential for advanced diagnostic testing to reduce healthcare expenditures of patients hospitalized with meningitis or encephalitis PLoS One, 2020
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 Unbiased Metagenomic Sequencing for Pediatric Meningitis in Bangladesh Reveals Neuroinvasive Chikungunya Virus Outbreak and Other Unrealized Pathogens American Society of Microbiology, 2019
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 Exploratory proteomic analysis implicates thealternative complement cascade in primary CNSvasculitis Neurology, 2019
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|  Here we introduce HMMSplicer, an accurate and efficient algorithm for discovering canonical and non-canonical splice junctions in short read datasets. HMMSplicer identifies more splice junctions than currently available algorithms when tested on publicly available A. thaliana, P. falciparum, and H. sapiens datasets without a reduction in specificity. HMMSplicer was found to perform especially well in compact genomes and on genes with low expression levels, alternative splice isoforms, or non-canonical splice junctions. Because HHMSplicer does not rely on pre-built gene models, the products of inexact splicing are also detected. In addition, HMMSplicer provides a score for every predicted junction allowing the user to set a threshold to tune false positive rates depending on the needs of the experiment. HMMSplicer is implemented in Python. Code and documentation are freely available at the link below. Download HMMSplicer! (Updated Nov 25th 2010 - Version: 0.9.5) |
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