Hi everybody,
Gentle reminder for our monthly webinar, THIS Wednesday, October 1st. We
will have Paige Kulzer from the Loraine Lab at the University of North
Carolina at Charlotte talking about the Integrated Genome Browser
(IGB) for sustainable
genomic data accessibility and visualization.
More details below. We hope you will join us.
Regards,
Marcela
---
Wednesday, October 1st, 12PM CT| 1P ET | 12P CT | 11A MT | 10A PT |
Find your local time here
<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AgBioData+October…>
Join Zoom Meeting
https://us06web.zoom.us/j/82038356125?pwd=YVFMRElMdEpHZmtObXFvZlA4QVFXQT09M…
ID: 820 3835 6125
Passcode: 160683
---
*Speaker*: Page Kulzer, University of North Carolina at Charlotte
*Title: *Toward Sustainable Genomic Data Accessibility and Visualization
with the Integrated Genome Browser
*Abstract: *Integrated Genome Browser (IGB, pronounced “ig-bee”) is a fast,
feature-rich, open-source desktop genome browser thousands of researchers
have used to explore and analyze genomic data. To make it as easy as
possible for researchers to load their data in IGB, we provide built-in
genome assemblies and annotations for model and non-model organisms. We
obtained many of these from sources familiar to AgBioData members,
including TAIR, Sol Genomics Network, and MaizeGDB. Other database and
genome browser developers do similar work to disseminate genomic data to
researchers, and some offer robust programmatic access to their data via
APIs (application programmer interfaces). By accessing these computational
resources, IGB can show new assemblies without our team needing to
replicate assembly data files to our own servers. In this webinar, we’ll
discuss IGB’s latest integrations with genome data providers and AgBioData
members. We’re also excited to highlight the ongoing work of doctoral
student Karthik Raveendran in our lab who is developing innovative methods
for visualizing single-cell RNA-Seq data in the Integrated Genome Browser
and how this new capability helps biologists understand, evaluate, and
analyze these data better. Altogether, these integrations address one of
the most important problems in data visualization in bioinformatics:
Developing sustainable ways to make the vast wealth of genome-centric
experimental data available to the community.
One tap mobile
+15642172000,,82038356125#,,,,*160683# US
+16469313860,,82038356125#,,,,*160683# US
Join instructions
https://us06web.zoom.us/meetings/82038356125/invitations?signature=AOYF69Mt…
--
Marcela Karey Tello-Ruiz, PhD
AgBioData Program Manager
Phoenix Bioinformatics
Hi everybody,
On Wednesday, October 1st, we will have Paige Kulzer from the Loraine Lab
at the University of North Carolina at Charlotte talking about the
Integrated Genome Browser (IGB) for sustainable genomic data accessibility
and visualization.
Below you can find more details. We hope you will join us.
Kind regards,
Marcela
---
Wednesday, October 1st, 12PM CT| 1P ET | 12P CT | 11A MT | 10A PT |
Find your local time here
<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AgBioData+October…>
Join Zoom Meeting
https://us06web.zoom.us/j/82038356125?pwd=YVFMRElMdEpHZmtObXFvZlA4QVFXQT09M…
ID: 820 3835 6125
Passcode: 160683
---
*Speaker*: Page Kulzer, University of North Carolina at Charlotte
*Title: *Toward Sustainable Genomic Data Accessibility and Visualization
with the Integrated Genome Browser
*Abstract: *Integrated Genome Browser (IGB, pronounced “ig-bee”) is a fast,
feature-rich, open-source desktop genome browser thousands of researchers
have used to explore and analyze genomic data. To make it as easy as
possible for researchers to load their data in IGB, we provide built-in
genome assemblies and annotations for model and non-model organisms. We
obtained many of these from sources familiar to AgBioData members,
including TAIR, Sol Genomics Network, and MaizeGDB. Other database and
genome browser developers do similar work to disseminate genomic data to
researchers, and some offer robust programmatic access to their data via
APIs (application programmer interfaces). By accessing these computational
resources, IGB can show new assemblies without our team needing to
replicate assembly data files to our own servers. In this webinar, we’ll
discuss IGB’s latest integrations with genome data providers and AgBioData
members. We’re also excited to highlight the ongoing work of doctoral
student Karthik Raveendran in our lab who is developing innovative methods
for visualizing single-cell RNA-Seq data in the Integrated Genome Browser
and how this new capability helps biologists understand, evaluate, and
analyze these data better. Altogether, these integrations address one of
the most important problems in data visualization in bioinformatics:
Developing sustainable ways to make the vast wealth of genome-centric
experimental data available to the community.
One tap mobile
+15642172000,,82038356125#,,,,*160683# US
+16469313860,,82038356125#,,,,*160683# US
Join instructions
https://us06web.zoom.us/meetings/82038356125/invitations?signature=AOYF69Mt…
--
Marcela Karey Tello-Ruiz, PhD
AgBioData Program Manager
Phoenix Bioinformatics
Please join us for our next monthly webinar on Sept 3, 12PM CDT. Dr. Sonia
Balyan of the Indian Biological Data Centre will be presenting a talk
entitled “Indian Crop Phenome Database: Advancing Crop Research Through
Open Phenomic Data”
| 1P ET | 12P CT | 11A MT | 10A PT |
Find your local time here
Join Zoom Meeting
https://us06web.zoom.us/j/82038356125?pwd=YVFMRElMdEpHZmtObXFvZlA4QVFXQT09
Meeting ID: 820 3835 6125
Passcode: 160683
Abstract
The Indian Crop Phenome Database (ICPD), developed at the Indian Biological
Data Centre (IBDC), isa pioneering national initiative designed to address
the challenges of managing large-scale phenotypic and associated datasets
in agriculture. India generates vast volumes of phenotypic data from
diverse crop species through field trials, breeding programs, and research
projects; however, the absence of standardized formats and dedicated
repositories has often left this wealth of information underutilized.
ICPD addresses these gaps by fully embracing the FAIR principles — ensuring
data are Findable, Accessible, Interoperable, and Re-usable. As the
designated data hub for major mission-mode programs on Characterization of
Genetic Resources supported by the Department of Biotechnology (DBT),
India, ICPD offers a robust framework for digitization, curation, and
sharing of crop phenotyping data, fostering seamless knowledge exchange
across the scientific community. Each dataset receives a unique IBDC
accession, ensuring traceability, proper citation, and long-term
preservation.
Supporting over 30 crop species, ICPD adopts international ontology
standards for traits, tissues, developmental stages, and methodologies,
while also allowing the creation of new ontology terms with temporary
accessions that undergo expert curation. This generic framework enables the
submission of any crop phenome data, providing both flexibility and
standardization.
By serving as a centralized, standards-driven, and FAIR-compliant
repository, ICPD is poised to transform phenomics research in India —
accelerating the development of climate-resilient, high-yield, and
pest-resistant cultivars, and strengthening the scientific foundation for
global food and nutritional security.