Studying and modelling dynamic biological processes using time-series gene expression data

Z Bar-Joseph, A Gitter, I Simon - Nature Reviews Genetics, 2012 - nature.com
Biological processes are often dynamic, thus researchers must monitor their activity at
multiple time points. The most abundant source of information regarding such dynamic …

[HTML][HTML] HRP2: transforming malaria diagnosis, but with caveats

KE Poti, DJ Sullivan, AM Dondorp, CJ Woodrow - Trends in parasitology, 2020 - cell.com
The major growth in point-of-care malaria diagnosis over the past decade has been based
on immunochromatographic malaria rapid diagnostic tests (mRDTs), which generally detect …

Uncovering the essential genes of the human malaria parasite Plasmodium falciparum by saturation mutagenesis

M Zhang, C Wang, TD Otto, J Oberstaller, X Liao… - Science, 2018 - science.org
INTRODUCTION Malaria remains a devastating global parasitic disease, with the majority of
malaria deaths caused by the highly virulent Plasmodium falciparum. The extreme AT-bias …

Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data

T Carver, SR Harris, M Berriman, J Parkhill… - …, 2012 - academic.oup.com
Motivation: High-throughput sequencing (HTS) technologies have made low-cost
sequencing of large numbers of samples commonplace. An explosion in the type, not just …

Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes: molecular insight into sex-specific processes and translational repression

E Lasonder, SR Rijpma, BCL van Schaijk… - Nucleic acids …, 2016 - academic.oup.com
Sexual differentiation of malaria parasites into gametocytes in the vertebrate host and
subsequent gamete fertilization in mosquitoes is essential for the spreading of the disease …

Lignin metabolism has a central role in the resistance of cotton to the wilt fungus Verticillium dahliae as revealed by RNA-Seq-dependent transcriptional analysis and …

L Xu, L Zhu, L Tu, L Liu, D Yuan, L **… - Journal of …, 2011 - academic.oup.com
The incompatible pathosystem between resistant cotton (Gossypium barbadense cv. 7124)
and Verticillium dahliae strain V991 was used to study the cotton transcriptome changes …

A Systematically Improved High Quality Genome and Transcriptome of the Human Blood Fluke Schistosoma mansoni

AV Protasio, IJ Tsai, A Babbage, S Nichol… - PLoS neglected …, 2012 - journals.plos.org
Schistosomiasis is one of the most prevalent parasitic diseases, affecting millions of people
in develo** countries. Amongst the human-infective species, Schistosoma mansoni is also …

Single-cell RNA-seq reveals hidden transcriptional variation in malaria parasites

AJ Reid, AM Talman, HM Bennett, AR Gomes… - elife, 2018 - elifesciences.org
Single-cell RNA-sequencing is revolutionising our understanding of seemingly
homogeneous cell populations but has not yet been widely applied to single-celled …

[HTML][HTML] Chromatin accessibility-based characterization of the gene regulatory network underlying Plasmodium falciparum blood-stage development

CG Toenhake, SAK Fraschka, MS Vijayabaskar… - Cell host & …, 2018 - cell.com
Underlying the development of malaria parasites within erythrocytes and the resulting
pathogenicity is a hardwired program that secures proper timing of gene transcription and …

Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum

MJ López-Barragán, J Lemieux, M Quiñones… - BMC genomics, 2011 - Springer
Background It has been shown that nearly a quarter of the initial predicted gene models in
the Plasmodium falciparum genome contain errors. Although there have been efforts to …