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The Ark specifications


Unique identifier OMICS_14418
Name The Ark
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A data file with attachment metadata, the assignment of each file to a study subject, file path and comment text.
Input format LIMS, CSV, EXCEL
Output format CSV
Operating system Unix/Linux, Mac OS
Programming languages Java
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes




No version available


  • person_outline Adrian Bickerstaffe

Publication for The Ark

The Ark citations


Learning style preferences of dental students at a single institution in Riyadh, Saudi Arabia, evaluated using the VARK questionnaire

PMCID: 5865561
PMID: 29593441
DOI: 10.2147/AMEP.S157686

[…] jority of the respondents’ preferences being either aural (A) or kinesthetic (K). Among the trimodal learning styles, VAK was the most preferred, which is in contrast to the Al-Saud study which found the ARK modality to be the most preferred.In terms of gender preferences, female dental students showed a significantly higher preference for bimodal learning styles compared to their male counterpart […]


Variation in the Early Host Pathogen Interaction of Bovine Macrophages with Divergent Mycobacterium bovis Strains in the UK

Infect Immun
PMCID: 5820943
PMID: 29263113
DOI: 10.1128/IAI.00385-17

[…] RNA was isolated at 2, 6, 24, and 48 hpi. The medium was removed and the bMDM were lysed with 2.5 ml TRIzol reagent (Invitrogen) for 20 min to ensure mycobacterial inactivation. RNA was extracted at the ARK-Genomics Facility by following the manufacturer's instructions. The mRNA was purified and fractionated to generate fragments with a median size of 180 to 210 nucleotides. These fragments were […]


Metabolism of the Pacific oyster, Crassostrea gigas, is influenced by salinity and modulates survival to the Ostreid herpesvirus OsHV 1

PMCID: 5861354
PMID: 29463513
DOI: 10.1242/bio.028134

[…] Although activity of SOD in oysters remained unaffected by salinity, activity of CAT decreased with decreasing salinity. In contrast, activities of SOD and CAT in gills and digestive gland of the ark shell Scapharca broughtonii and in whole-tissues of clams Ruditapes spp. increase in response to low salinity (; ). Discrepancies among studies may reflect differences in duration of acclimati […]


A Global Analysis of Kinase Function in Candida albicans Hyphal Morphogenesis Reveals a Role for the Endocytosis Regulator Akl1

PMCID: 5809406
PMID: 29473018
DOI: 10.3389/fcimb.2018.00017

[…] Based on sequence homology, C. albicans Akl1 is related to the Ark/Prk family of kinases (Smythe and Ayscough, ), and is more distantly related to the Polo-like kinases (Cdc5). The S. cerevisiae genome contains two Ark/Prk homologs and a single Akl1 homolog, […]


Disfluent presentations lead to the creation of more false memories

PLoS One
PMCID: 5784972
PMID: 29370255
DOI: 10.1371/journal.pone.0191735

[…] antic distortions by appearing to encourage more word/detail-specific processing in readers (i.e., recognizing the term ‘Moses’ appears in the misleading statement How many animals did Moses bring on the Ark?; []). Importantly, this performance benefit is not realized in situations where there does not appear to be a large automatic component (i.e., list learning of unrelated items; []), further s […]


Intrasession Repeatability and Interocular Symmetry of Foveal Avascular Zone and Retinal Vessel Density in OCT Angiography

PMCID: 5777177
PMID: 29367891
DOI: 10.1167/tvst.7.1.6

[…] efore study procedures were carried out. Study assessments included axial length measurement using the IOL Master 500 (IOL Master; Carl Zeiss Meditec, Inc., Dublin, CA, USA) and auto-refraction using the Ark1 Auto Ref/Keratometer (Ark1, Auto Ref/Keratometer; Nidek, Gamagori, Japan). Retinal imaging was performed without pupil dilatation. Subjects with macular pathology on structural OCT were exclu […]


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The Ark institution(s)
Centre for Epidemiology and Biostatistics, The University of Melbourne, Carlton, Australia; Curtin UWA Centre for Genetic Origins of Health and Disease, Faculty of Health Sciences, Curtin University, Bentley, Australia; Faculty of Medicine, Dentistry and Health Sciences, The University of Western Australia, Perth, Australia; Genetics and Epidemiology, Lions Eye Institute, Nedlands, Australia; Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, Australia
The Ark funding source(s)
This work was supported by the Australian Twin Registry, a national resource in part supported by a Centre of Research Excellence Grant [1079102] from the National Health and Medical Research Council. The project was also supported by the eResearch Tools Program from National eResearch Collaboration Tools and Resources (NeCTAR), and the Cancer Council of Western Australia’s Capacity Building and Collaboration Grant.

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