User profiles for A. Elghraoui
 | Afif ElghraouiSDSU, UCSD Verified email at ghraoui.name Cited by 183 |
Novel katG mutations causing isoniazid resistance in clinical M. tuberculosis isolates
…, TC Victor, AM Amallraja, A Elghraoui… - Emerging microbes & …, 2015 - Taylor & Francis
We report the discovery and confirmation of 23 novel mutations with previously
undocumented role in isoniazid (INH) drug resistance, in catalase-peroxidase (katG) gene of …
undocumented role in isoniazid (INH) drug resistance, in catalase-peroxidase (katG) gene of …
[HTML][HTML] SMRT genome assembly corrects reference errors, resolving the genetic basis of virulence in Mycobacterium tuberculosis
Background The genetic basis of virulence in Mycobacterium tuberculosis has been investigated
through genome comparisons of virulent (H37Rv) and attenuated (H37Ra) sister strains…
through genome comparisons of virulent (H37Rv) and attenuated (H37Ra) sister strains…
Structure-aware Mycobacterium tuberculosis functional annotation uncloaks resistance, metabolic, and virulence genes
Accurate and timely functional genome annotation is essential for translating basic pathogen
research into clinically impactful advances. Here, through literature curation and structure-…
research into clinically impactful advances. Here, through literature curation and structure-…
[HTML][HTML] Novel and reported compensatory mutations in rpoABC genes found in drug resistant tuberculosis outbreaks
…, SM Ramirez-Busby, BM Gorman, A Elghraoui… - Frontiers in …, 2024 - frontiersin.org
Background Rifampicin (RIF) is a key first-line drug used to treat tuberculosis, a primarily
pulmonary disease caused by Mycobacterium tuberculosis. RIF resistance is caused by …
pulmonary disease caused by Mycobacterium tuberculosis. RIF resistance is caused by …
PBHoover and CigarRoller: a method for confident haploid variant calling on Pacific Biosciences data and its application to heterogeneous population analysis
S Ramirez-Busby, A Elghraoui, YB Kim, K Kim… - bioRxiv, 2018 - biorxiv.org
Motivation Single Molecule Real-Time (SMRT) sequencing has important and underutilized
advantages that amplification-based platforms lack. Lack of systematic error (eg GC-bias), …
advantages that amplification-based platforms lack. Lack of systematic error (eg GC-bias), …
Evaluating impacts of syntenic block detection strategies on rearrangement phylogeny using Mycobacterium tuberculosis isolates
Motivation The phylogenetic signal of structural variation informs a more comprehensive
understanding of evolution. As (near-)complete genome assembly becomes more …
understanding of evolution. As (near-)complete genome assembly becomes more …
Hybran: Hybrid reference transfer and ab initio prokaryotic genome annotation
A Elghraoui, D Gunasekaran, SM Radecke, E Bishop… - bioRxiv, 2022 - biorxiv.org
De novo assembly has become commonplace for microbial organisms, increasing the demand
for reliable genome annotation. Ab initio annotation is not an ideal approach for closely …
for reliable genome annotation. Ab initio annotation is not an ideal approach for closely …
[PDF][PDF] Resolving the hypotheticome: annotating m. tuberculosis gene function through bibliomic reconciliation and structural modeling
…, AM Zlotnicki, A Elghraoui… - Preprint at https://doi …, 2018 - researchgate.net
Each decade, billions are invested in Tuberculosis (TB) research to further characterize M.
tuberculosis pathogenesis. Despite this investment, nearly half of the 4,031 M. tuberculosis …
tuberculosis pathogenesis. Despite this investment, nearly half of the 4,031 M. tuberculosis …
Novel and Reported Compensatory Mutations in rpoABC Associate Specifically with Predominant Mycobacterium tuberculosis Rifampicin Resistance Marker rpoB …
…, SM Ramirez-Busby, BM Gorman, A Elghraoui… - bioRxiv, 2022 - biorxiv.org
Background Rifampicin (RIF) is a key first-line drug used to treat tuberculosis, a pulmonary
disease caused by Mycobacterium tuberculosis. However antibiotic resistance to RIF is …
disease caused by Mycobacterium tuberculosis. However antibiotic resistance to RIF is …
MVP: Detection of motif-making and-breaking mutations
A Elghraoui, F Valafar - arXiv preprint arXiv:2210.09842, 2022 - arxiv.org
Background: DNA, RNA, and protein sequence motifs can be recognition sites for biological
functions such as regulation, DNA base modification, and molecular binding in general. The …
functions such as regulation, DNA base modification, and molecular binding in general. The …