HTS Public Consultation - Revision history

WikiSysop at 13:47, 18 November 2018

2018-11-18T13:47:37Z

← Older revision		Revision as of 15:47, 18 November 2018
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	Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.		Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.

	The template with the proposed HTS terms can be found in our [https://library.ggbn.org/share/s/dbHuLYuGQOiv5v8avKhhPw Document Library] for your review~~. We would appreciate if you could send the filled out excel sheet back by '''15th December 2017''' to [mailto:support@ggbn.org support@ggbn.org]~~.		The template with the proposed HTS terms can be found in our [https://library.ggbn.org/share/s/dbHuLYuGQOiv5v8avKhhPw Document Library] for your review.

WikiSysop at 13:31, 23 October 2017

2017-10-23T13:31:59Z

← Older revision		Revision as of 15:31, 23 October 2017
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	Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.		Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.

	The template with the proposed HTS terms can be found in our [https://library.ggbn.org/share/s/dbHuLYuGQOiv5v8avKhhPw Document Library] for your review. We would appreciate if you could send the filled out excel sheet back ~~before~~ '''~~22. September~~ 2017''' to [mailto:support@ggbn.org support@ggbn.org]~~. We are planning to present the results at TDWG 2017~~.		The template with the proposed HTS terms can be found in our [https://library.ggbn.org/share/s/dbHuLYuGQOiv5v8avKhhPw Document Library] for your review. We would appreciate if you could send the filled out excel sheet back by '''15th December 2017''' to [mailto:support@ggbn.org support@ggbn.org].

WikiSysop at 14:11, 23 August 2017

2017-08-23T14:11:09Z

← Older revision		Revision as of 16:11, 23 August 2017
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	Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.		Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.

	The template with the proposed HTS terms can be found in our [https://library.ggbn.org/share/s/dbHuLYuGQOiv5v8avKhhPw Document Library] for your review. ~~Please contact~~ support@ggbn.org ~~if you have any questions related~~ to ~~this~~.		The template with the proposed HTS terms can be found in our [https://library.ggbn.org/share/s/dbHuLYuGQOiv5v8avKhhPw Document Library] for your review. We would appreciate if you could send the filled out excel sheet back before '''22. September 2017''' to [mailto:support@ggbn.org support@ggbn.org]. We are planning to present the results at TDWG 2017.

WikiSysop at 10:45, 23 August 2017

2017-08-23T10:45:33Z

← Older revision		Revision as of 12:45, 23 August 2017
Line 10:		Line 10:
	Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.		Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.

	~~A list of~~ the proposed HTS terms ~~will soon~~ be ~~published here~~ for your review. ~~In the meanwhile please~~ contact support@ggbn.org if you have any questions related to this.		The template with the proposed HTS terms can be found in our [https://library.ggbn.org/share/s/dbHuLYuGQOiv5v8avKhhPw Document Library] for your review. Please contact support@ggbn.org if you have any questions related to this.

WikiSysop at 12:36, 17 August 2017

2017-08-17T12:36:23Z

← Older revision		Revision as of 14:36, 17 August 2017
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	Last year GGBN has published the GGBN Data Standard, which covers terms related to DNA and tissue samples (https://terms.tdwg.org/wiki/GGBN_Data_Standard). Many of you were part of the public revision process.		Last year the Global Genome Biodiversity Network (GGBN, http://www.ggbn.org) has published the GGBN Data Standard, which covers terms related to DNA and tissue samples (https://terms.tdwg.org/wiki/GGBN_Data_Standard, [https://library.ggbn.org/share/s/E3qbuKsJSwaI67IWItXCKw Droege et al. 2016]). Many of you were part of the public revision process.

	In addition to genomic DNA the development and use of high-throughput next generation sequencing (HTS) have outstripped current plans of SYNTHESYS and GGBN to join natural history (NH) collection data with DNA and tissue collection data. HTS libraries can be considered a preparation of the genetic material of an organism(s), the actual physical molecular representation of a collection/specimen. These libraries come with specific adaptors that limit their transferability to other sequencing systems. They are prepared at great expense, but usually are only used for a single project, whilst a great deal of additional useful information may be available within these libraries. To increase the potential of the HTS libraries to be used for multiple projects they would need to be discoverable and metadata information made available. HTS library searches require the metadata to be queried on specific standardized keywords (by e.g. organism, HTS method etc.).		In addition to genomic DNA the development and use of high-throughput next generation sequencing (HTS) have outstripped current plans of SYNTHESYS (http://www.synthesys.info) and GGBN to join natural history (NH) collection data with DNA and tissue collection data. HTS libraries can be considered a preparation of the genetic material of an organism(s), the actual physical molecular representation of a collection/specimen. These libraries come with specific adaptors that limit their transferability to other sequencing systems. They are prepared at great expense, but usually are only used for a single project, whilst a great deal of additional useful information may be available within these libraries. To increase the potential of the HTS libraries to be used for multiple projects they would need to be discoverable and metadata information made available. HTS library searches require the metadata to be queried on specific standardized keywords (by e.g. organism, HTS method etc.).

	HTS library parameters already in the GGBN Data Standard have been reviewed and augmented in order to incorporate library metadata of existing as well as future techniques. This is being realized by preparation of use-cases incorporating a range of different HTS techniques (e.g. whole genome shotgun sequencing, RADseq sequencing, single molecule MinIon sequencing).		HTS library parameters already in the GGBN Data Standard have been reviewed and augmented in order to incorporate library metadata of existing as well as future techniques. This is being realized by preparation of use-cases incorporating a range of different HTS techniques (e.g. whole genome shotgun sequencing, RADseq sequencing, single molecule MinIon sequencing).

WikiSysop: Created page with "Last year GGBN has published the GGBN Data Standard, which covers terms related to DNA and tissue samples (https://terms.tdwg.org/wiki/GGBN_Data_Standard). Many of you were pa..."

2017-06-25T20:09:28Z

Created page with "Last year GGBN has published the GGBN Data Standard, which covers terms related to DNA and tissue samples (https://terms.tdwg.org/wiki/GGBN_Data_Standard). Many of you were pa..."

New page

Last year GGBN has published the GGBN Data Standard, which covers terms related to DNA and tissue samples (https://terms.tdwg.org/wiki/GGBN_Data_Standard). Many of you were part of the public revision process.

In addition to genomic DNA the development and use of high-throughput next generation sequencing (HTS) have outstripped current plans of SYNTHESYS and GGBN to join natural history (NH) collection data with DNA and tissue collection data. HTS libraries can be considered a preparation of the genetic material of an organism(s), the actual physical molecular representation of a collection/specimen. These libraries come with specific adaptors that limit their transferability to other sequencing systems. They are prepared at great expense, but usually are only used for a single project, whilst a great deal of additional useful information may be available within these libraries. To increase the potential of the HTS libraries to be used for multiple projects they would need to be discoverable and metadata information made available. HTS library searches require the metadata to be queried on specific standardized keywords (by e.g. organism, HTS method etc.).

HTS library parameters already in the GGBN Data Standard have been reviewed and augmented in order to incorporate library metadata of existing as well as future techniques. This is being realized by preparation of use-cases incorporating a range of different HTS techniques (e.g. whole genome shotgun sequencing, RADseq sequencing, single molecule MinIon sequencing).

The result is a set of terms dedicated to library preparation including the pipeline parameters.

Use cases are available in the GGBN Sandbox and will kept stable for at least three years. (http://wiki.ggbn.org/ggbn/Use_Cases_HTS_library_samples)
Now we are kindly seeking your help with reviewing the terms and also ask for your general feedback on this initiative. GGBN does not want to reinvent the wheel, but work together with other organisations and initiatives, such as MIxS, GBIF, BOLD, INSDC.

A list of the proposed HTS terms will soon be published here for your review. In the meanwhile please contact support@ggbn.org if you have any questions related to this.