Hamza Khan
BC Cancer Agency
17 Papers
8 Citations
Hamza Khan is an academic researcher from BC Cancer Agency. The author has contributed to research in topics: Genome & Astigmatism. The author has an hindex of 8, co-authored 15 publications. Previous affiliations of Hamza Khan include Indian Institute of Science & University of Calgary.
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Papers
ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter.
Shaun D. Jackman,Benjamin P. Vandervalk,Hamid Mohamadi,Justin Chu,Sarah Yeo,S. Austin Hammond,Golnaz Jahesh,Hamza Khan,Lauren Coombe,René L. Warren,Inanc Birol +10 more
TL;DR: ABySS 2.0 is benchmarked using a Genome in a Bottle data set of 250-bp Illumina paired-end and 6-kbp mate-pair libraries from a single individual and implements algorithms that employ a Bloom filter, a probabilistic data structure, to represent a de Bruijn graph and reduce memory requirements.
A Gut Microbial Mimic that Hijacks Diabetogenic Autoreactivity to Suppress Colitis
Roopa Hebbandi Nanjundappa,Francesca Ronchi,Jinguo Wang,Xavier Clemente-Casares,Jun Yamanouchi,Channakeshava Sokke Umeshappa,Yang Yang,Jesús Blanco,Helena Bassolas-Molina,Azucena Salas,Hamza Khan,Robyn Maree Slattery,Madeleine Wyss,Catherine Mooser,Andrew J. Macpherson,Laura K. Sycuro,Pau Serra,Derek M. McKay,Kathy D. McCoy,Pere Santamaria +19 more
TL;DR: The data suggest that gut microbial antigen-specific cytotoxic T cells may have therapeutic value in inflammatory bowel disease and unearth molecular mimicry as a novel mechanism by which the gut microbiota can regulate normal immune homeostasis.
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ntCard: a streaming algorithm for cardinality estimation in genomics data.
TL;DR: NtCard, a streaming algorithm for estimating the frequencies of k‐mers in genomics datasets, uses the ntHash algorithm to efficiently compute hash values for streamed sequences and samples the calculated hash values to build a reduced representation multiplicity table describing the sample distribution.
Diversity-generating retroelements: natural variation, classification and evolution inferred from a large-scale genomic survey.
Li Wu,Mari Gingery,Michael Abebe,Diego Arambula,Elizabeth Czornyj,Sumit Handa,Hamza Khan,Minghsun Liu,Mechthild Pohlschroder,Kharissa L Shaw,Amy Du,Huatao Guo,Huatao Guo,Partho Ghosh,Jeff F. Miller,Steven Zimmerly +15 more
TL;DR: A detailed comparative bioinformatic analysis is presented that depicts the landscape of D GR sequences in nature as represented by data in GenBank and identifies lineages of DGRs that appear to have specialized properties.
ChopStitch: exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data.
TL;DR: ChopStitch is a new method for finding putative exons de novo and constructing splice graphs using an assembled transcriptome and whole genome shotgun sequencing (WGSS) data.