title: Website on honey’s therapeutic properties

authors: Molan, Peter C.

subjects: manuka honey

abstract: A website has been produced which makes available, in language accessible to the public, the knowledge about the therapeutic properties of honey. The website has come from three decades of research on honey at the University of Waikato, and from researching the literature published by other researchers around the world. The URL for the website is http://waikato.academia.edu/PeterMolan/Papers

text: Website on honey’s therapeutic properties A website has been produced which makes available, in language accessible to the public, the knowledge about the therapeutic properties of honey. The website has come from three decades of research on honey at the University of Waikato, and from researching the literature published by other researchers around the world. The URL for the website is http://waikato.academia.edu/PeterMolan/Papers

year: 2013

title: Investigating bioinformatic pipelines for De novo variant identification in New Zealand dairy cattle

authors: Erika, Duerre

subjects: Bioinformatic pipelines

abstract: New Zealand is the biggest single entity for milk and milk product export in the world and being the country’s main industry, keeping track of bovine mutations allows influence of the national herd’s health and the ability to breed cattle better suited to the current farming and climate needs. With advances in next-generation sequencing of whole genomes, research understanding and tracking germline de novo mutations (DNMs) is attainable. However, current techniques being used to identify and study candidate DNMs are unvetted and experimental. Some of these techniques include bioinformatic software packages such as DenovoCNN, DenovoGear, PedFilter, and RUFUS.
This thesis aimed to investigate and test two of these identification pipelines, DenovoGear and PedFilter using next-generation sequencing data from bovine trios. Output data was generated by writing scripts and extracting data from six trios into Excel workbooks or manual IGV validation of selected candidate DNMs. Of the total 714,393 candidates identified across PedFilter and DenovoGear, only 161 of them were identified by both programs. After Integrative Genomic Viewer validation, 50% of these candidates were deemed to be true positives while only 12% were deemed false positives. Data analysis shows neither technique is 100% accurate and they both should be used with secondary filtering and confirmation of the identified DNM candidates. It was also apparent that the different techniques would be better suited to different study situations. For example, (1) For smaller studies (e.g., 3–15 trios), with limited data available to them, using DenovoGear with a secondary software program for filtering would be best (2) If sufficient samples are available to provide a simulated population data set, PedFilter has higher accuracy than DenovoGear on its own (3) For fast analysis without requiring heavy filtering of the output data use a combination of both PedFilter and DenovoGear. 
Lastly, it is clear that further developments and more testing is required in this area of research before a set standard of practice or guidelines can be recommended and implemented. It is suggested to testing DenovoCNN and Rufus or branching out to other packages to trial like SynthDNM, DNMFilter_INDELs or HAPDeNovo.

text: Investigating bioinformatic pipelines for De novo variant identification in New Zealand dairy cattle New Zealand is the biggest single entity for milk and milk product export in the world and being the country’s main industry, keeping track of bovine mutations allows influence of the national herd’s health and the ability to breed cattle better suited to the current farming and climate needs. With advances in next-generation sequencing of whole genomes, research understanding and tracking germline de novo mutations (DNMs) is attainable. However, current techniques being used to identify and study candidate DNMs are unvetted and experimental. Some of these techniques include bioinformatic software packages such as DenovoCNN, DenovoGear, PedFilter, and RUFUS.
This thesis aimed to investigate and test two of these identification pipelines, DenovoGear and PedFilter using next-generation sequencing data from bovine trios. Output data was generated by writing scripts and extracting data from six trios into Excel workbooks or manual IGV validation of selected candidate DNMs. Of the total 714,393 candidates identified across PedFilter and DenovoGear, only 161 of them were identified by both programs. After Integrative Genomic Viewer validation, 50% of these candidates were deemed to be true positives while only 12% were deemed false positives. Data analysis shows neither technique is 100% accurate and they both should be used with secondary filtering and confirmation of the identified DNM candidates. It was also apparent that the different techniques would be better suited to different study situations. For example, (1) For smaller studies (e.g., 3–15 trios), with limited data available to them, using DenovoGear with a secondary software program for filtering would be best (2) If sufficient samples are available to provide a simulated population data set, PedFilter has higher accuracy than DenovoGear on its own (3) For fast analysis without requiring heavy filtering of the output data use a combination of both PedFilter and DenovoGear. 
Lastly, it is clear that further developments and more testing is required in this area of research before a set standard of practice or guidelines can be recommended and implemented. It is suggested to testing DenovoCNN and Rufus or branching out to other packages to trial like SynthDNM, DNMFilter_INDELs or HAPDeNovo.

year: 2023

title: The waters of the Maori: Maori law and state law

authors: Durie, Edward Taihākurei

abstract: This paper is for filing in the Waitangi Tribunal in relation to a claim that existing laws do not adequately accommodate the Māori proprietary interest in natural, water resources. The claim was initiated by the New Zealand Māori Council in association with ten tribal groups. It was later accompanied by 166 other Māori groups, whom the Tribunal joined as interested parties.

text: The waters of the Maori: Maori law and state law This paper is for filing in the Waitangi Tribunal in relation to a claim that existing laws do not adequately accommodate the Māori proprietary interest in natural, water resources. The claim was initiated by the New Zealand Māori Council in association with ten tribal groups. It was later accompanied by 166 other Māori groups, whom the Tribunal joined as interested parties.

year: 2017