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2. Correction: Acetyl-CoA metabolism drives epigenome change and contributes to carcinogenesis risk in fatty liver disease

Author

Assante, Gabriella, Chandrasekaran, Sriram, Ng, Stanley, Tourna, Aikaterini, Chung, Carolina H., Isse, Kowsar A., Banks, Jasmine L., Soffientini, Ugo, Filippi, Celine, Dhawan, Anil, Liu, Mo, Rozen, Steven G., Hoare, Matthew, Campbell, Peter, Ballard, J. William O., Turner, Nigel, Morris, Margaret J., Chokshi, Shilpa, and Youngson, Neil A.

Published
2023
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5. Acetyl-CoA metabolism drives epigenome change and contributes to carcinogenesis risk in fatty liver disease

Author

Assante, Gabriella, Chandrasekaran, Sriram, Ng, Stanley, Tourna, Aikaterini, Chung, Carolina H., Isse, Kowsar A., Banks, Jasmine L., Soffientini, Ugo, Filippi, Celine, Dhawan, Anil, Liu, Mo, Rozen, Steven G., Hoare, Matthew, Campbell, Peter, Ballard, J. William O., Turner, Nigel, Morris, Margaret J., Chokshi, Shilpa, and Youngson, Neil A.

Published
2022
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6. Conservation implications for dingoes from the maternal and paternal genome: Multiple populations, dog introgression, and demography

Author

Cairns, Kylie M, Brown, Sarah K, Sacks, Benjamin N, and Ballard, J William O

Subjects
Life on Land, Australia, biogeography, conservation, demography, dingoes, hybridization, mitochondrial DNA, mtDNA, population expansion, Y chromosome, Ecology, Evolutionary Biology
Abstract

It is increasingly common for apex predators to face a multitude of complex conservation issues. In Australia, dingoes are the mainland apex predator and play an important role in ecological functioning. Currently, however, they are threatened by hybridization with modern domestic dogs in the wild. As a consequence, we explore how increasing our understanding of the evolutionary history of dingoes can inform management and conservation decisions. Previous research on whole mitochondrial genome and nuclear data from five geographical populations showed evidence of two distinct lineages of dingo. Here, we present data from a broader survey of dingoes around Australia using both mitochondrial and Y chromosome markers and investigate the timing of demographic expansions. Biogeographic data corroborate the presence of at least two geographically subdivided genetic populations, southeastern and northwestern. Demographic modeling suggests that dingoes have undergone population expansion in the last 5,000 years. It is not clear whether this stems from expansion into vacant niches after the extinction of thylacines on the mainland or indicates the arrival date of dingoes. Male dispersal is much more common than female, evidenced by more diffuse Y haplogroup distributions. There is also evidence of likely historical male biased introgression from domestic dogs into dingoes, predominately within southeastern Australia. These findings have critical practical implications for the management and conservation of dingoes in Australia; particularly a focus must be placed upon the threatened southeastern dingo population.

Published
2017

8. Ancient genomes reveal over two thousand years of dingo population structure.

Author

Souilmi, Yassine, Wasef, Sally, Williams, Matthew P., Conroy, Gabriel, Bar, Ido, Bover, Pere, Dann, Jackson, Heiniger, Holly, Llamas, Bastien, Ogbourne, Steven, Archer, Michael, Ballard, J. William O., Reed, Elizabeth, Tobler, Raymond, Koungoulos, Loukas, Walshe, Keryn, Wright, Joanne L., Balme, Jane, O'Connor, Sue, and Cooper, Alan

Subjects
DOGS, DINGO, CANIDAE, FOSSIL DNA, AUSTRALIAN history
Abstract

Dingoes are culturally and ecologically important free-living canids whose ancestors arrived in Australia over 3,000 B.P., likely transported by seafaring people. However, the early history of dingoes in Australia--including the number of founding populations and their routes of introduction--remains uncertain. This uncertainty arises partly from the complex and poorly understood relationship between modern dingoes and New Guinea singing dogs, and suspicions that post-Colonial hybridization has introduced recent domestic dog ancestry into the genomes of many wild dingo populations. In this study, we analyzed genome-wide data from nine ancient dingo specimens ranging in age from 400 to 2,746 y old, predating the introduction of domestic dogs to Australia by European colonists. We uncovered evidence that the continent-wide population structure observed in modern dingo populations had already emerged several thousand years ago. We also detected excess allele sharing between New Guinea singing dogs and ancient dingoes from coastal New South Wales (NSW) compared to ancient dingoes from southern Australia, irrespective of any post-Colonial hybrid ancestry in the genomes of modern individuals. Our results are consistent with several demographic scenarios, including a scenario where the ancestry of dingoes from the east coast of Australia results from at least two waves of migration from source populations with varying affinities to New Guinea singing dogs. We also contribute to the growing body of evidence that modern dingoes derive little genomic ancestry from post-Colonial hybridization with other domestic dog lineages, instead descending primarily from ancient canids introduced to Sahul thousands of years ago. [ABSTRACT FROM AUTHOR]

Published
2024
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14. THE INVISIBLE YEARS

Author

Bax, Martin, Ballard, J. G., Mac Beth, George, and Sandford, Ronald

Published
2019

16. Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome

Author

Edwards, Richard J., Field, Matt A., Ferguson, James M., Dudchenko, Olga, Keilwagen, Jens, Rosen, Benjamin D., Johnson, Gary S., Rice, Edward S., Hillier, La Deanna, Hammond, Jillian M., Towarnicki, Samuel G., Omer, Arina, Khan, Ruqayya, Skvortsova, Ksenia, Bogdanovic, Ozren, Zammit, Robert A., Aiden, Erez Lieberman, Warren, Wesley C., and Ballard, J. William O.

Published
2021
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19. Utilizing Chemical Genomics to Identify Cytochrome b as a Novel Drug Target for Chagas Disease

Author

Arkin, Michelle, Khare, S, Roach, SL, Barnes, SW, Hoepfner, D, Walker, JR, Chatterjee, AK, Neitz, RJ, Arkin, MR, McNamara, CW, and Ballard, J

Abstract

© 2015 Khare et al.Unbiased phenotypic screens enable identification of small molecules that inhibit pathogen growth by unanticipated mechanisms. These small molecules can be used as starting points for drug discovery programs that target such mechanisms.

Published
2015

20. GUI Database for the Equipment Store of the Department of Geomatic Engineering, KNUST

Author

Quaye-Ballard, J. A., An, R., Agyemang, A. B., Oppong-Quayson, N. Y., and Ablade, J. E. N.

Subjects
Computer Science - Databases
Abstract

The geospatial analyst is required to apply art, science, and technology to measure relative positions of natural and man-made features above or beneath the earths surface, and to present this information either graphically or numerically. The reference positions for these measurements need to be well archived and managed to effectively sustain the activities in the spatial industry. The research herein described highlights the need for an information system for the Land Surveyors Equipment Store. Such a system is a database management system with a user friendly graphical interface. This paper describes one such system that has been developed for the Equipment Store of the Department of Geomatic Engineering, Kwame Nkrumah University of Science and Technology, Ghana. The system facilitates efficient management and location of instruments, as well as easy location of beacons together with their attribute information, it provides multimedia information about instruments in an Equipment Store. Digital camera was used capture the pictorial descriptions of the beacons. Geographic Information System software was employed to visualize the spatial location of beacons and to publish the various layers for the Graphical User Interface. The aesthetics of the interface was developed with user interface design tools and coded by programming. The developed Suite, powered by a reliable and fully scalable database, provides an efficient way of booking and analyzing transactions in an Equipment Store., Comment: 6 pages, 9 figures, (IJACSA) International Journal of Advanced Computer Science and Applications, Vol. 3, No. 7, 2012

Published
2013

28. The Australasian dingo archetype:De novochromosome-length genome assembly, DNA methylome, and cranial morphology

Author

Ballard, J. William O., primary, Field, Matt A., additional, Edwards, Richard J., additional, Wilson, Laura A.B., additional, Koungoulos, Loukas G., additional, Rosen, Benjamin D., additional, Chernoff, Barry, additional, Dudchenko, Olga, additional, Omer, Arina, additional, Keilwagen, Jens, additional, Skvortsova, Ksenia, additional, Bogdanovic, Ozren, additional, Chan, Eva, additional, Zammit, Robert, additional, Hayes, Vanessa, additional, and Aiden, Erez Lieberman, additional

Published
2023
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30. The Australasian dingo archetype: de novo chromosome-length genome assembly, DNA methylome, and cranial morphology

Author

Ballard, J William O, primary, Field, Matt A, additional, Edwards, Richard J, additional, Wilson, Laura A B, additional, Koungoulos, Loukas G, additional, Rosen, Benjamin D, additional, Chernoff, Barry, additional, Dudchenko, Olga, additional, Omer, Arina, additional, Keilwagen, Jens, additional, Skvortsova, Ksenia, additional, Bogdanovic, Ozren, additional, Chan, Eva, additional, Zammit, Robert, additional, Hayes, Vanessa, additional, and Aiden, Erez Lieberman, additional

Published
2023
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32. The Ratio of Macronutrients, Not Caloric Intake, Dictates Cardiometabolic Health, Aging, and Longevity in Ad Libitum-Fed Mice

Author

Solon-Biet, Samantha M., McMahon, Aisling C., Ballard, J. William O., Ruohonen, Kari, Wu, Lindsay E., Cogger, Victoria C., Warren, Alessandra, Huang, Xin, Pichaud, Nicolas, Melvin, Richard G., Gokarn, Rahul, Khalil, Mamdouh, Turner, Nigel, Cooney, Gregory J., Sinclair, David A., Raubenheimer, David, Le Couteur, David G., and Simpson, Stephen J.

Published
2014
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35. The direct impact of disparate impact claims on banks

Author

Yelton, Ballard J.

Subjects
Mortgage discrimination -- Laws, regulations and rules, Disparate impact -- Influence, Burden of proof -- Laws, regulations and rules, Government regulation, Banking, finance and accounting industries, Law, Fair Housing Act of 1968
Abstract

I. INTRODUCTION One of the greatest challenges in the fight to eliminate discriminatory lending practices is proving that a party intended to create a racial imbalance or to discriminate against [...]

Published
2016

39. The Australian dingo is an early offshoot of modern breed dogs

Author

Field, Matt A., Yadav, Sonu, Dudchenko, Olga, Esvaran, Meera, Rosen, Benjamin D., Skvortsova, Ksenia, Edwards, Richard J., Keilwagen, Jens, Cochran, Blake J., Manandhar, Bikash, Bustamante, Sonia, Rasmussen, Jacob Agerbo, Melvin, Richard G., Chernoff, Barry, Omer, Arina, Colaric, Zane, Chan, Eva K. F., Minoche, Andre E., Smith, Timothy P. L., Gilbert, M. Thomas P., Bogdanovic, Ozren, Zammit, Robert A., Thomas, Torsten, Aiden, Erez L., Ballard, J. William O., Field, Matt A., Yadav, Sonu, Dudchenko, Olga, Esvaran, Meera, Rosen, Benjamin D., Skvortsova, Ksenia, Edwards, Richard J., Keilwagen, Jens, Cochran, Blake J., Manandhar, Bikash, Bustamante, Sonia, Rasmussen, Jacob Agerbo, Melvin, Richard G., Chernoff, Barry, Omer, Arina, Colaric, Zane, Chan, Eva K. F., Minoche, Andre E., Smith, Timothy P. L., Gilbert, M. Thomas P., Bogdanovic, Ozren, Zammit, Robert A., Thomas, Torsten, Aiden, Erez L., and Ballard, J. William O.

Abstract

Dogs are uniquely associated with human dispersal and bring transformational insight into the domestication process. Dingoes represent an intriguing case within canine evolution being geographically isolated for thousands of years. Here, we present a high-quality de novo assembly of a pure dingo (CanFam_DDS). We identified large chromosomal differences relative to the current dog reference (CanFam3.1) and confirmed no expanded pancreatic amylase gene as found in breed dogs. Phylogenetic analyses using variant pairwise matrices show that the dingo is distinct from five breed dogs with 100% bootstrap support when using Greenland wolf as the outgroup. Functionally, we observe differences in methylation patterns between the dingo and German shepherd dog genomes and differences in serum biochemistry and microbiome makeup. Our results suggest that distinct demographic and environmental conditions have shaped the dingo genome. In contrast, artificial human selection has likely shaped the genomes of domestic breed dogs after divergence from the dingo.

Published
2022

41. The Australian dingo is an early offshoot of modern breed dogs

Author

Field, Matt A., primary, Yadav, Sonu, additional, Dudchenko, Olga, additional, Esvaran, Meera, additional, Rosen, Benjamin D., additional, Skvortsova, Ksenia, additional, Edwards, Richard J., additional, Keilwagen, Jens, additional, Cochran, Blake J., additional, Manandhar, Bikash, additional, Bustamante, Sonia, additional, Rasmussen, Jacob Agerbo, additional, Melvin, Richard G., additional, Chernoff, Barry, additional, Omer, Arina, additional, Colaric, Zane, additional, Chan, Eva K. F., additional, Minoche, Andre E., additional, Smith, Timothy P. L., additional, Gilbert, M. Thomas P., additional, Bogdanovic, Ozren, additional, Zammit, Robert A., additional, Thomas, Torsten, additional, Aiden, Erez L., additional, and Ballard, J. William O., additional

Published
2022
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42. Additional file 2 of Acetyl-CoA metabolism drives epigenome change and contributes to carcinogenesis risk in fatty liver disease

Author

Assante, Gabriella, Chandrasekaran, Sriram, Ng, Stanley, Tourna, Aikaterini, Chung, Carolina H., Isse, Kowsar A., Banks, Jasmine L., Soffientini, Ugo, Filippi, Celine, Dhawan, Anil, Liu, Mo, Rozen, Steven G., Hoare, Matthew, Campbell, Peter, Ballard, J. William O., Turner, Nigel, Morris, Margaret J., Chokshi, Shilpa, and Youngson, Neil A.

Abstract

Additional file 2. Supplementary Figures S1-S4.

Published
2022
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44. Usability research laboratory for geospatial and allied applications

Author

Quaye-Ballard, J. A., Akorful-Andam, S. A., Sackey, M. N., Quaye-Ballard, N. L., and Awotwi, A.

Subjects
Think Aloud’ method, VPA Archival Management System (VAMS), Human Computer Interaction (HCI), Usability Engineering (UE), Geo-information
Abstract

The use of computers has penetrated every sector of the Ghanaian economy. Researchers in Ghana and the KNUST environs are continually developing computer applications for users for addressing societal problems, as well as, automating the manual process of doing things. Researchers and developers are moving away from the use of commercial software to customized and user-friendly applications to suit the Ghanaian economy, thereby maximizing profit. End user applications are developed daily and these applications are most often not subjected to usability testing and evaluation with real users. Usability engages individuals as testing participants of the target audience to assess the degree to which a computer application meets specific usability standards. This research, funded by Building Stronger Universities II (BSU II) Project, uses the ‘Think Aloud’ technique in developing a usability laboratory for testing end user applications before being released to the final user. End user applications such as problem-based learning applications for distance learning, computer supported collaborative learning applications, drought and flood early warning applications, land use land cover related applications, climate change related applications, etc. will benefit from this usability testing laboratory. The findings from this project contributes to the understanding and exploration of alternatives of end user applications. &nbsp

Published
2021

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