User profiles for T. Abeel
Thomas AbeelAssociate Professor at TU Delft - Visiting Scientist at Broad Institute of MIT and Harvard Verified email at broadinstitute.org Cited by 13132 |
[HTML][HTML] Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement
BJ Walker, T Abeel, T Shea, M Priest, A Abouelliel… - PloS one, 2014 - journals.plos.org
… For example, for the multi nucleotide substitution in the curation set, ACCGT = > CCTGA,
three SNP calls at the same location, A>C, C>T and T>A, would be counted as a true positive. …
three SNP calls at the same location, A>C, C>T and T>A, would be counted as a true positive. …
[HTML][HTML] Computational methods for strain-level microbial detection in colony and metagenome sequencing data
… Presence of a tool under one use case doesn’t necessarily exclude it from being applicable
… Copyright © 2020 Anyansi, Straub, Manson, Earl and Abeel. This is an open-access article …
… Copyright © 2020 Anyansi, Straub, Manson, Earl and Abeel. This is an open-access article …
[HTML][HTML] Deciphering drug resistance in Mycobacterium tuberculosis using whole-genome sequencing: progress, promise, and challenges
… 1095G>T) and showed that it conferred a minimum inhibitory concentration (MIC) to rifampicin
that was twofold higher than that of wild-type bacteria. Zhang et al. [57] sequenced 161 …
that was twofold higher than that of wild-type bacteria. Zhang et al. [57] sequenced 161 …
Robust biomarker identification for cancer diagnosis with ensemble feature selection methods
… More formally, we take an ensemble EFS consisting of t feature selectors, EFS={F 1 , F 2 ,…,
F t }, then we assume each F i provides a feature ranking f i =(f i 1 ,…, f i N ), where f i j …
F t }, then we assume each F i provides a feature ranking f i =(f i 1 ,…, f i N ), where f i j …
Robust feature selection using ensemble feature selection techniques
Robustness or stability of feature selection techniques is a topic of recent interest, and is an
important issue when selected feature subsets are subsequently analysed by domain …
important issue when selected feature subsets are subsequently analysed by domain …
The Mycobacterium tuberculosis regulatory network and hypoxia
We have taken the first steps towards a complete reconstruction of the Mycobacterium
tuberculosis regulatory network based on ChIP-Seq and combined this reconstruction with system-…
tuberculosis regulatory network based on ChIP-Seq and combined this reconstruction with system-…
Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance
Multidrug-resistant tuberculosis (MDR-TB), caused by drug-resistant strains of Mycobacterium
tuberculosis, is an increasingly serious problem worldwide. Here we examined a data set …
tuberculosis, is an increasingly serious problem worldwide. Here we examined a data set …
[HTML][HTML] Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis …
Background The continued advance of antibiotic resistance threatens the treatment and
control of many infectious diseases. This is exemplified by the largest global outbreak of …
control of many infectious diseases. This is exemplified by the largest global outbreak of …
ANGUSTIFOLIA3 Binds to SWI/SNF Chromatin Remodeling Complexes to Regulate Transcription during Arabidopsis Leaf Development
…, M Andriankaja, S De Bodt, T Abeel… - The Plant …, 2014 - academic.oup.com
The transcriptional coactivator ANGUSTIFOLIA3 (AN3) stimulates cell proliferation during
Arabidopsis thaliana leaf development, but the molecular mechanism is largely unknown. Here…
Arabidopsis thaliana leaf development, but the molecular mechanism is largely unknown. Here…
Generic eukaryotic core promoter prediction using structural features of DNA
… Peaks in the profile that exceed the classification threshold (T = 0.19, horizontal gray line)
are predicted as promoter regions. (X-axis) Position in the genomic sequence, (Y-axis) inverse …
are predicted as promoter regions. (X-axis) Position in the genomic sequence, (Y-axis) inverse …