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Items: 11

1.

Prioritization of novel ADPKD drug candidates from disease-stage specific gene expression profiles.

Malas TB, Leonhard WN, Bange H, Granchi Z, Hettne KM, Van Westen GJP, Price LS, 't Hoen PAC, Peters DJM.

EBioMedicine. 2019 Dec 23:102585. doi: 10.1016/j.ebiom.2019.11.046. [Epub ahead of print]

2.

Drug prioritization using the semantic properties of a knowledge graph.

Malas TB, Vlietstra WJ, Kudrin R, Starikov S, Charrout M, Roos M, Peters DJM, Kors JA, Vos R, 't Hoen PAC, van Mulligen EM, Hettne KM.

Sci Rep. 2019 Apr 18;9(1):6281. doi: 10.1038/s41598-019-42806-6.

3.

Integrated transcriptomic and proteomic analysis of pathogenic mycobacteria and their esx-1 mutants reveal secretion-dependent regulation of ESX-1 substrates and WhiB6 as a transcriptional regulator.

Abdallah AM, Weerdenburg EM, Guan Q, Ummels R, Borggreve S, Adroub SA, Malas TB, Naeem R, Zhang H, Otto TD, Bitter W, Pain A.

PLoS One. 2019 Jan 23;14(1):e0211003. doi: 10.1371/journal.pone.0211003. eCollection 2019.

4.

Comparative transcriptomics of shear stress treated Pkd1-/- cells and pre-cystic kidneys reveals pathways involved in early polycystic kidney disease.

Kunnen SJ, Malas TB, Formica C, Leonhard WN, 't Hoen PAC, Peters DJM.

Biomed Pharmacother. 2018 Dec;108:1123-1134. doi: 10.1016/j.biopha.2018.07.178. Epub 2018 Oct 1.

5.

Comprehensive transcriptome analysis of fluid shear stress altered gene expression in renal epithelial cells.

Kunnen SJ, Malas TB, Semeins CM, Bakker AD, Peters DJM.

J Cell Physiol. 2018 Apr;233(4):3615-3628. doi: 10.1002/jcp.26222. Epub 2017 Nov 20.

6.

Meta-analysis of polycystic kidney disease expression profiles defines strong involvement of injury repair processes.

Malas TB, Formica C, Leonhard WN, Rao P, Granchi Z, Roos M, Peters DJ, 't Hoen PA.

Am J Physiol Renal Physiol. 2017 Apr 1;312(4):F806-F817. doi: 10.1152/ajprenal.00653.2016. Epub 2017 Feb 1. Erratum in: Am J Physiol Renal Physiol. 2018 Jan 1;314(1):F140.

7.

Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations.

Abdallah AM, Hill-Cawthorne GA, Otto TD, Coll F, Guerra-Assunção JA, Gao G, Naeem R, Ansari H, Malas TB, Adroub SA, Verboom T, Ummels R, Zhang H, Panigrahi AK, McNerney R, Brosch R, Clark TG, Behr MA, Bitter W, Pain A.

Sci Rep. 2015 Oct 21;5:15443. doi: 10.1038/srep15443.

8.

Rhizosphere microbiome metagenomics of gray mangroves (Avicennia marina) in the Red Sea.

Alzubaidy H, Essack M, Malas TB, Bokhari A, Motwalli O, Kamanu FK, Jamhor SA, Mokhtar NA, Antunes A, Simões MF, Alam I, Bougouffa S, Lafi FF, Bajic VB, Archer JA.

Gene. 2016 Feb 1;576(2 Pt 1):626-36. doi: 10.1016/j.gene.2015.10.032. Epub 2015 Nov 10.

9.

Comprehensive evaluation of Toxoplasma gondii VEG and Neospora caninum LIV genomes with tachyzoite stage transcriptome and proteome defines novel transcript features.

Ramaprasad A, Mourier T, Naeem R, Malas TB, Moussa E, Panigrahi A, Vermont SJ, Otto TD, Wastling J, Pain A.

PLoS One. 2015 Apr 13;10(4):e0124473. doi: 10.1371/journal.pone.0124473. eCollection 2015.

10.

Genomic analysis of the causative agents of coccidiosis in domestic chickens.

Reid AJ, Blake DP, Ansari HR, Billington K, Browne HP, Bryant J, Dunn M, Hung SS, Kawahara F, Miranda-Saavedra D, Malas TB, Mourier T, Naghra H, Nair M, Otto TD, Rawlings ND, Rivailler P, Sanchez-Flores A, Sanders M, Subramaniam C, Tay YL, Woo Y, Wu X, Barrell B, Dear PH, Doerig C, Gruber A, Ivens AC, Parkinson J, Rajandream MA, Shirley MW, Wan KL, Berriman M, Tomley FM, Pain A.

Genome Res. 2014 Oct;24(10):1676-85. doi: 10.1101/gr.168955.113. Epub 2014 Jul 11.

11.

The evolutionary dynamics of variant antigen genes in Babesia reveal a history of genomic innovation underlying host-parasite interaction.

Jackson AP, Otto TD, Darby A, Ramaprasad A, Xia D, Echaide IE, Farber M, Gahlot S, Gamble J, Gupta D, Gupta Y, Jackson L, Malandrin L, Malas TB, Moussa E, Nair M, Reid AJ, Sanders M, Sharma J, Tracey A, Quail MA, Weir W, Wastling JM, Hall N, Willadsen P, Lingelbach K, Shiels B, Tait A, Berriman M, Allred DR, Pain A.

Nucleic Acids Res. 2014 Jun;42(11):7113-31. doi: 10.1093/nar/gku322. Epub 2014 May 5.

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