Hi everybody,
I just want to inform you that AgBioData will take a short break from the
monthly webinar in July. So,* there won't be a webinar next Wed.*
We will return in August with ThankGod Ebenezer from the African Biogenome
Project.
I wish you a wonderful day.
Best regards,
Annarita
Dear AgBioData member,
Tell us where future research and development funds should be directed!
In this survey, you will tell us which areas of agricultural genomes-to-phenomes (G2P) research you think are most critical for future investment, which are easiest to accomplish and in what areas might cross-kingdom collaborations be most successful. Summarized responses will be shared with USDA NIFA and on the AG2PI Community Survey<https://www.ag2pi.org/community-surveys/> webpage. The below URL is anonymous and does not collect identifying information. We ask that you finish the survey in one session, which should take 10-15 minutes.
Follow this link to the Survey:
https://iastate.qualtrics.com/jfe/form/SV_6rlzERMQZcxsLmm
This survey will close July 1, 2022. Please note: If you have joined an AG2PI mailing list then you will receive a direct email from this project asking you to fill out the survey. You should only fill out the survey once.
As a thank you for participating in the survey, we'd like to offer you the opportunity to enter into a random drawing for one of two (2) $50 gift cards and one of eight (8) AG2PI 20 oz aluminum water bottles. A link to a Google Form can be found at the end of the survey for you to enter the drawing. This opportunity is only open to individuals currently living in the U.S. and who are 18 years or older.
As a reminder, the focus of the AG2PI project is to build cross-kingdom research communities to address the challenges of genome to phenome (G2P) research and find opportunities to work together to identify shared critical research gaps. AG2PI is not, itself, a research producing project. Importantly, this survey is an opportunity for the community to share with the USDA a vision that may be used to guide future requests for proposals in this space as Congress continues to appropriate money for the general AG2PI program authorized in the 2018 Farm Bill.
We appreciate your input on how the AG2PI project can be used to better your own agricultural endeavors and inform USDA of your needs.
Kind regards,
Nicole Scott
------------------------
Nicole Scott, PhD
Program Specialist
Agricultural Genome to Phenome Initiative
Iowa State University
1111 WOI Rd
Ames, IA 50011
office: 1077 Roy J. Carver Co-Lab
phone: 515-294-3945
ag2pi.org<https://www.ag2pi.org/>
*** If you no longer wish to receive messages from AG2PI, then please visit https://www.ag2pi.org/join-ag2pi/unsubscribe/ to unsubscribe *** Please note, you cannot unsubscribe if you are receiving this message through a third party ***
Dear AgBioData community members,
We wanted to share some upcoming events with you:
AG2PI Field Day #19
The next AG2PI Field Day is on Wednesday, June 15 from 10:30 AM to 12:00 PM (Central Time, UTC-5). In this field day, we'll hear from Lingzhao Fang, University of Edinburgh, and Justin Walley, Iowa State University, about what is being done with quantitative multi-omics to unravel genomes-to-phenomes in crops and livestock.
This discussion will hit themes that are relevant to both animal and plant sciences, so we hope you join us for an engaging conversation!
We invite you to register for this Zoom event at https://tinyurl.com/AG2PI-FD19, where you will also find additional information. Upon registration, you will receive a confirmation email with information about joining the meeting. If you are unable to attend the live session, then you will be able to find a recording at ag2pi.org/<https://www.ag2pi.org/>, at a later date. Please note: you do not need to register to view the recording; it is readily available on the AG2PI website soon after the close of the event (generally within 24 hours).
Feel free to share this message and attached flyer with colleagues at your institution.
Upcoming workshops
Community workshop: AI in Agriculture - Ethics and Responsibility Workshop 2022 (google.com)<https://docs.google.com/document/u/3/d/e/2PACX-1vQo6JwPGwEPittHg4vPI3aZ2Zyo…> - this workshop is not affiliated with AG2PI
AG2PI Training Workshop:
* June 23, 10am-12pm (CDT): Crop Modeling as a Tool for Understanding the Genotype X Environment Interaction (presenter: Gerrit Hoogenboom)
* July 12, 1-3 pm (CDT): Bison-Fly: a UAV pipeline applied to plant breeding programs (presenter: Filipe Matias) mark your calendars, registration not yet open
* July 26, 12-2pm (CDT): Omics-enabled genetic prediction (presenters: Jinliang Yang & Hao Cheng) mark your calendars, registration not yet open
Kind regards,
Nicole
------------------------
Nicole Scott, PhD
Program Specialist
Agricultural Genome to Phenome Initiative
Iowa State University
1111 WOI Rd
Ames, IA 50011
office: 1077 Roy J. Carver Co-Lab
phone: 515-294-3945
ag2pi.org<https://www.ag2pi.org/>
*** If you no longer wish to receive messages from AG2PI, then please visit https://www.ag2pi.org/join-ag2pi/unsubscribe/ to unsubscribe *** Please note, you cannot unsubscribe if you are receiving this message through a third party ***
Hi everybody,
This a gentle reminder of our webinar *tomorrow*, *June 1st*, at 12 PM CT.
We will have *Camille Rustenholz *from the University of Strasbourg
(France) talking about the INTEGRAPE <https://integrape.eu/>project and how
they defined data integration standards to maximize the power of omics in
grapevine.
Below you can find more details about the webinar and the zoom link to
attend the webinar.
We hope you will join us.
Best,
Annarita
:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:
Presenters: Dr. Camille Rustenholz, University of Strasbourg (France).
INTEGRAPE <https://integrape.eu/>
Host: Annarita Marrano
Abstract:
*COST ACTION INTEGRAPE: Data integration to maximise the power of omics in
grapevine improvement and beyond.*
The European network INTEGRAPE seeks the establishment of an open,
international, and representative network, insuring that omics and
phenotyping data generated in the grapevine research community are being
produced in a secure and standardized format, following the F.A.I.R.
principles of findability, accessibility, interoperability, and
reusability. Amongst the most significant deliverables of INTEGRAPE:
- the elaboration of Guideline ‘cookbooks’ and Dictionary of unified
grape-sample ontologies;
- the release of the PN40024 fourth genome assembly and its annotation;
- the creation of the Gene Reference Catalogue;
- the enlisting of Online repositories and tools for omics data
exploration and visualization, which to date are not yet interoperable
among them.
To tackle this last challenge, we applied for a COST Innovative Grant with
the GRAPEDIA project (Grapevine Encyclopedia of genes and omics), which
goal is to provide the community with a single open-access database,
allowing data exploration and visualization of all grapevine resources,
with tools for comparative analysis and customized services. In the
GRAPEDIA database, we aim at centralizing, interconnecting, and showcasing
these dispersed resources, and integrating them with those genomic efforts
generated by the worldwide community. The target group is the entire
scientific community working on the grapevine or using grapevine as their
model plant for an “orphan” plant species, and also the private sector
working on R&D in vitiviniculture.
*| 1P ET | 12P CT | 11A MT | 10A PT |*
Find your local time here
<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AgBioData+Monthly…>
Topic: AgBioData Monthly Webinar
Time: This is a recurring meeting Meet anytime
Join Zoom Meeting
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Hi everybody,
Next Wed, *June 1st*, we will have *Camille Rustenholz *from the University
of Strasbourg (France) talking about the INTEGRAPE project and how they
defined data integration standards to maximize the power of omics in
grapevine.
Below you can find more details about the webinar and the zoom link to
attend the webinar.
We hope you will join us.
Best,
Annarita
:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:
Presenters: Dr. Camille Rustenholz, University of Strasbourg (France).
INTEGRAPE <https://integrape.eu/>
Host: Annarita Marrano
Abstract:
*COST ACTION INTEGRAPE: Data integration to maximise the power of omics in
grapevine improvement and beyond.*
The European network INTEGRAPE seeks the establishment of an open,
international, and representative network, insuring that omics and
phenotyping data generated in the grapevine research community are being
produced in a secure and standardized format, following the F.A.I.R.
principles of findability, accessibility, interoperability, and
reusability. Amongst the most significant deliverables of INTEGRAPE:
- the elaboration of Guideline ‘cookbooks’ and Dictionary of unified
grape-sample ontologies;
- the release of the PN40024 fourth genome assembly and its annotation;
- the creation of the Gene Reference Catalogue;
- the enlisting of Online repositories and tools for omics data
exploration and visualization, which to date are not yet interoperable
among them.
To tackle this last challenge, we applied for a COST Innovative Grant with
the GRAPEDIA project (Grapevine Encyclopedia of genes and omics), which
goal is to provide the community with a single open-access database,
allowing data exploration and visualization of all grapevine resources,
with tools for comparative analysis and customized services. In the
GRAPEDIA database, we aim at centralizing, interconnecting, and showcasing
these dispersed resources, and integrating them with those genomic efforts
generated by the worldwide community. The target group is the entire
scientific community working on the grapevine or using grapevine as their
model plant for an “orphan” plant species, and also the private sector
working on R&D in vitiviniculture.
*| 1P ET | 12P CT | 11A MT | 10A PT |*
Find your local time here
<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AgBioData+Monthly…>
Topic: AgBioData Monthly Webinar
Time: This is a recurring meeting Meet anytime
Join Zoom Meeting
https://us06web.zoom.us/j/82038356125?pwd=YVFMRElMdEpHZmtObXFvZlA4QVFXQT09
Meeting ID: 820 3835 6125
Passcode: 160683
One tap mobile
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Meeting ID: 820 3835 6125
Passcode: 160683
Find your local number: https://us06web.zoom.us/u/kF3akiFg7
Thought this group would be interested is this 2 hour event - Daureen Nesdill
Reserve your spot to join the discussion<https://www.chorusaccess.org/events/making-fairs-interoperability-and-reusa…>
Join CHORUS at a forum on
Making FAIR'S Interoperability and Reusability Data Goals Possible
Friday, June 17, 2022 from 11:00am - 1:00pm EST
This AGU / CHORUS Forum brings together government, funder, academic institution, and scientific society stakeholders, who will outline why I & R are proving to be challenging. This two-part session also showcases some of the partial solutions being put into practice, and participants are invited to comment on at least one new promising solution.
Register today!<https://www.chorusaccess.org/events/making-fairs-interoperability-and-reusa…>
Session 1: The problem of actually doing Interoperability and Reusability and why it's important
Speakers
* Chris Marcum, Assistant Director for Open Science and Data Policy, US Office of Science & Technology Policy
* Ingrid Dillo, Deputy Director, DANS: Dutch National Centre of Expertise and Repository for Research Data; Co-chair of Council Research Data Alliance
Additional speakers to follow
Session 2: Existing partial solutions
Speakers
* Corinna Gries, Principal Investigator, Environmental Data Initiative
* Jens Klump, Geoscience Analytics Team Leader in the Mineral Resources, Commonwealth Scientific and Industrial Research Organisation (CSIRO)
* Jane Wyngaard, Lecturer, Department of Electrical Engineering, University of Cape Town
Sara Rotjan
Assistant Marketing Director
Pronouns: she/her/hers
On behalf of CHORUS
AIP Publishing
1305 Walt Whitman Road │ Suite 110 | Melville NY 11747-4300 │ USA
t +1.516.576.2237 | m +1.917.309.1183
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Follow us: Facebook<https://www.facebook.com/AIPPublishing> │ Twitter<https://twitter.com/AIP_Publishing> │ LinkedIn<https://www.linkedin.com/company/aip-publishing>
Dear AgBioData community members,
The next AG2PI Field Day is on Wednesday, May 18 from 10:30 AM to 12:00 PM (Central Time, UTC-5). In this field day, we'll hear about the research, community building and impact of two international research centers: Centre for Tropical Livestock Genetics and Health (CTLGH) and International Maize and Wheat Improvement Centre (CIMMYT). Appolinaire Djikeng and Kellie Watson of CTLGH will focus on their partnerships and farmer-facing programs, while Sarah Hearne of CIMMYT will discuss partnership building as part of One CGIAR.
This discussion will hit themes that are relevant to both animal and plant sciences, so we hope you join us for an engaging conversation!
We invite you to register for this Zoom event at https://tinyurl.com/AG2PI-FD18, where you will also find additional information. Upon registration, you will receive a confirmation email with information about joining the meeting. If you are unable to attend the live session, then you will be able to find a recording at ag2pi.org/<https://www.ag2pi.org/>, at a later date. Please note: you do not need to register to view the recording; it is readily available on the AG2PI website soon after the close of the event (generally within 24 hours).
Feel free to share this message and attached flyer with colleagues at your institution and members of your listservs.
Kind regards,
Nicole
------------------------
Nicole Scott, PhD
Program Specialist
Agricultural Genome to Phenome Initiative
Iowa State University
1111 WOI Rd
Ames, IA 50011
office: 1077 Roy J. Carver Co-Lab
phone: 515-294-3945
ag2pi.org<https://www.ag2pi.org/>
*** If you no longer wish to receive messages from AG2PI, then please visit https://www.ag2pi.org/join-ag2pi/unsubscribe/ to unsubscribe *** Please note, you cannot unsubscribe if you are receiving this message through a third party ***
Hi everybody,
This email is a gentle reminder of *tomorrow's webinar* with Karon Yook and
Daniela Raciti from microPublication Biology
<https://www.micropublication.org/>. We will start at *12 PM CT* as usual (find
your local time here
<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AgBioData+Monthly…>)
using the zoom link that you can see below.
We also want to invite you to *vote for two new members of the AgBioData
steering committee.* The steering committee members are the driving force
of the AgBioData consortium, and your opinion can help us shape our future
direction.
As a member of AgBioData, you should have received an email from Election
Runners with the link to vote. *Please vote by May 15!*
I hope you'll be able to join us tomorrow.
Regards,
Annarita
:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:
Presenters: Dr. Karen Yook and Dr. Daniela Raciti, California Institute of
Technology, Wormbase <https://wormbase.org/#012-34-5>.
Host: Leonore Reiser
Abstract:
*Bridging the gap between data production and database curation through
microPublications*
To solve a long-standing problem in data loss and accessibility, we
developed a publishing platform, microPublication Biology, to bridge data
publishing and database curation. Our journal accepts single experiment
articles (microPublications) and embeds curation within the article
submission/publishing workflow. microPublication Biology is an online,
peer-reviewed, open-access journal published by the Caltech Library and
discoverable in PubMed. Starting with articles focused on nematode biology,
we continually expand to more organism communities, including Arabidopsis
and most recently Dictyostelium, Maize, and Cotton. Our system is set up so
that upon publication, atomized data is delivered directly to authoritative
databases for each community (e.g., WormBase, Flybase, PomBase, TAIR),
ensuring timely delivery to biological databases for deep data integration.
We will give an overview of our journal and its integrated curation
workflow and present our latest publishing metrics.
*| 1P ET | 12P CT | 11A MT | 10A PT |*
Find your local time here
<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AgBioData+Monthly…>
Topic: AgBioData Monthly Webinar
Time: This is a recurring meeting
Join Zoom Meeting
https://us06web.zoom.us/j/82038356125?pwd=YVFMRElMdEpHZmtObXFvZlA4QVFXQT09
Meeting ID: 820 3835 6125
Passcode: 160683
One tap mobile
+19292056099,,82038356125#,,,,*160683# US (New York)
+13017158592,,82038356125#,,,,*160683# US (Washington DC)
Dial by your location
+1 929 205 6099 US (New York)
+1 301 715 8592 US (Washington DC)
+1 312 626 6799 US (Chicago)
+1 669 900 6833 US (San Jose)
+1 253 215 8782 US (Tacoma)
+1 346 248 7799 US (Houston)
Meeting ID: 820 3835 6125
Passcode: 160683
Find your local number: https://us06web.zoom.us/u/kF3akiFg7
Hi everybody,
After a break in April, we are back with our monthly webinar!
Next Wed, *May 4th*, we will have *Karen Yook* and *Daniela Raciti* from
Wormbase talking about how to bridge data generation and database curation
through microPublications.
Below you can find more details about the webinar and the zoom link to
attend the webinar.
We hope you will join us.
Best,
Annarita
:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:-:
Presenters: Dr. Karen Yook and Dr. Daniela Raciti, California Institute of
Technology, Wormbase <https://wormbase.org/#012-34-5>.
Host: Leonore Reiser
Abstract:
*Bridging the gap between data production and database curation through
microPublications*
To solve a long-standing problem in data loss and accessibility, we
developed a publishing platform, microPublication Biology, to bridge data
publishing and database curation. Our journal accepts single experiment
articles (microPublications) and embeds curation within the article
submission/publishing workflow. microPublication Biology is an online,
peer-reviewed, open-access journal published by the Caltech Library and
discoverable in PubMed. Starting with articles focused on nematode biology,
we continually expand to more organism communities, including Arabidopsis
and most recently Dictyostelium, Maize, and Cotton. Our system is set up so
that upon publication, atomized data is delivered directly to authoritative
databases for each community (e.g., WormBase, Flybase, PomBase, TAIR),
ensuring timely delivery to biological databases for deep data integration.
We will give an overview of our journal and its integrated curation
workflow and present our latest publishing metrics.
*| 1P ET | 12P CT | 11A MT | 10A PT |*
Find your local time here
<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AgBioData+Monthly…>
Topic: AgBioData Monthly Webinar
Time: This is a recurring meeting
Join Zoom Meeting
https://us06web.zoom.us/j/82038356125?pwd=YVFMRElMdEpHZmtObXFvZlA4QVFXQT09
Meeting ID: 820 3835 6125
Passcode: 160683
One tap mobile
+19292056099,,82038356125#,,,,*160683# US (New York)
+13017158592,,82038356125#,,,,*160683# US (Washington DC)
Dial by your location
+1 929 205 6099 US (New York)
+1 301 715 8592 US (Washington DC)
+1 312 626 6799 US (Chicago)
+1 669 900 6833 US (San Jose)
+1 253 215 8782 US (Tacoma)
+1 346 248 7799 US (Houston)
Meeting ID: 820 3835 6125
Passcode: 160683
Find your local number: https://us06web.zoom.us/u/kF3akiFg7
Dear AgBioData members,
We are asking you to participate in a survey about standardized data
curation principles and their implementation in data repositories for
agricultural research and breeding programs. This survey was developed by
the AgBioData consortium (https://www.agbiodata.org) in collaboration with
Washington State University.
Please disregard this email if you already received this survey and
submitted your answers.
The survey is anonymous, and your answers will be used to shape AgBioData's
future goals and solutions for standardized data management in agriculture.
If you are willing to participate, please submit your answers here
<https://ncsu.qualtrics.com/jfe/form/SV_9Zv0sSXJhdz2bYO> by May 9th, 2022.
Your opinion is valuable to us and can help AgBioData define better
genomic, genetic, and breeding data curation practices.
Best regards,
Annarita Marrano
On behalf of the AgBioData Steering Committee