You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
Copy file name to clipboardExpand all lines: emergent.md
+31-6Lines changed: 31 additions & 6 deletions
Original file line number
Diff line number
Diff line change
@@ -12,6 +12,7 @@ title: Emergent Sessions and more
12
12
Neuroimaging has contributed considerably to our understanding of brain development and its relationship to cognition and behavior. However, despite advancements in neuroimaging, replicability in research remains a key issue and there is no gold standard that can be used to evaluate neuroanatomical correlates of cognition, behavior and their interplay. Researchers from NIMH, McGill, Georgia Tech, Western Ontario, Beijing Normal, the Radboud UMC/Donders, Forschungszentrum Juelich, and University of Oslo have each independently created simulated datasets of the interplay between brain development and behavior. Each group has worked independently and unaware of the approaches and assumptions made by the other groups. Each group was provided the same number of variables and were instructed to create three datasets with each embedding how they envision the interplay between brain development, behavior, and cognition emerges throughout development. We are releasing these simulated datasets to challenge/invite the research community to determine the underlying patterns and assumptions used to generate the simulated datasets. Each dataset contains 10,000 participants over 7 longitudinal waves and ranging from age 7 to 20. During this panel discussion, we will talk about brain development and the challenges and opportunities that modeling offers us, as well as answer any questions the research community might have about the simulated datasets. The code and descriptions of the models that were used to create the datasets will be released at the time of the OHBM meeting in 2025 in Brisbane.
13
13
14
14
##### Participating groups:
15
+
<p>Neda Sadeghi, Isabelle van der Velpen, Dustin Moraczewski, Philip Shaw, Audrey Thurm, Adam Thomas, Tonya White (National Institute of Mental Health, NIH) </p>
15
16
<p>Zi-Xuan Zhou, Xi-Nian Zuo (Beijing Normal University) </p>
16
17
<p>Anna Plachti, Øystein Sørensen, Sarah Genon (Forschungszentrum Juelich and University of Oslo)</p>
17
18
<p>Vince D. Calhoun, Masoud Seraji, Ishaan Batta, Rogers Ferreira Da Silva, Najme Soleimani, Bradley T Baker, Kyle Joseph Cahill (Tri-institutional Center for Translational Research in Neuroimaging and Data Science (TReNDS), Georgia State, Georgia Tech, Emory)</p>
@@ -33,7 +34,7 @@ Green computing is an increasingly important aspect of socially responsible scie
33
34
34
35
Speaker Nick Souter will join the session virtually, and Niall Duncan and Nikhil Bhagwat will provide live presenation and demonstration in person in the OSR. Polona Kalc, incoming SEA-SIG chair, will also be present in person to introduce the session.
35
36
36
-
Goals:
37
+
**Goals:**
37
38
38
39
- Learn the source of carbon emissions arise in neuroimaging computing and data storage
39
40
- Learn how to measure and reduce carbon emissions in their own neuroimaging data processing
@@ -53,26 +54,48 @@ The spirit of OS is to reduce obstacles to knowledge, data and tools in an attem
53
54
54
55
---
55
56
56
-
### Emergent Session 4: TBD
57
+
### Emergent Session 4: What can generalist repositories do for you? A community feedback gathering session from the NIH Generalist Repository Ecosystem Initiative program
58
+
59
+
#### Ana Van Gulick, Figshare, NIH Generalist Repository Ecosystem Initiative program
57
60
#### 15:45 (GMT+9) June 26 (Wednesday)
58
61
<!-- [Join on Crowdcast](https://www.crowdcast.io/e/osr-2023-emergent-4)
59
62
60
63
<p></p>
61
-
62
64
<p></p> -->
65
+
The neuroimaging community has been a leader in open science and data sharing for many years and neuroimaging researchers are frequent users of both discipline-specific and generalist data repositories as part of their open science workflows. On behalf of the NIH Generalist Repository Ecosystem Initiative (GREI), we propose this emergent session to learn from the neuroimaging community about how they use generalist repositories (GRs) for sharing data and other research materials and to gather feedback on how GREI could prioritize its work to enhance GR functionality and resources to better serve the needs of this research community.
66
+
67
+
In February 2022, the US National Institutes of Health (NIH) Office of Data Science Strategy (ODSS) launched the [Generalist Repository Ecosystem Initiative](https://datascience.nih.gov/data-ecosystem/exploring-a-generalist-repository-for-nih-funded-data) (GREI), which brings together seven generalist repositories ([Dataverse](https://dataverse.org/), [Dryad](https://datadryad.org/stash), [Figshare](https://figshare.com/), [Mendeley Data](https://data.mendeley.com/), [Open Science Framework](https://osf.io/), [Vivli](https://vivli.org/), and [Zenodo](https://zenodo.org/)) to work collaboratively to enhance support for data sharing and discovery in GRs. GREI recognizes that GRs play a key role in the data sharing landscape for the FAIR sharing of data in trusted repositories, offering broad flexibility to publish any file type and any research output alongside discipline- and method-specific data repositories when they are available, especially for researchers seeking to comply with global data sharing mandates and to practice open science. Together the GREI repositories are working to enhance common metadata, persistent identifiers, and standard metrics to support cross repository search to lower the barriers for data sharing and reuse.
68
+
69
+
In this emergent session we propose presenting a short overview of GREI goals and activities to enhance GR support for data sharing and discovery. We will then facilitate an interactive audience poll activity and audience discussion to learn about neuroimaging use cases for GRs including for sharing non-data materials and to uncover gaps in GR functionality and needs for resources or other support.
70
+
71
+
GREI would like to learn from OSR participants about their data sharing and repository experiences and hear from researchers what GRs could do to better support them through functionality or resources. Conducting community engagement with disciplinary research communities is a key objective for GREI that the program will use to inform our future work and we recognize that while many data repository resources are available in the neuroimaging community, the volume and diversity of research outputs to share necessitates the use of GRs for some outputs. Neuroscience is a top research category for all of the GREI repositories, often in part because these repositories are used to publish materials beyond data including software and code, images and media files, workflows, posters and presentations, and other supplementary files. GRs are also often used in conjunction with disciplinary repositories and data standards. We believe that as users of GRs and keen practitioners of open science with a wide variety of data types and research outputs to share, the neuroimaging community is an especially valuable group for GREI to engage with to inform our work.
72
+
73
+
**Goals:**
74
+
75
+
- Briefly present the objectives and outputs of the NIH Generalist Repository Ecosystem Initiative
76
+
- Conduct an interactive audience poll exercise to learn how neuroimaging researchers use GRs alongside discipline-specific data repositories to share data and other research materials
77
+
- Facilitate an audience discussion to gather feedback about how generalist repositories could enhance their functionality and resources to better serve the needs of the neuroimaging community
78
+
63
79
64
80
---
65
81
66
-
### Emergent Session 5: TBD
82
+
### Emergent Session 5: Enabling federated analysis using NVIDIA FLARE powered COINSTAC architecture and showcase new algorithms
83
+
84
+
#### Sandeep Panta, Translational Research in Neuroimaging and Data Science (TReNDS) Center, Georgia State University
67
85
#### 13:00 (GMT+9) June 27 (Thursday)
68
86
<!-- [Join on Crowdcast](https://www.crowdcast.io/e/osr-2023-emergent-5)
69
87
70
88
<p></p> -->
71
89
90
+
COINSTAC (Collaborative Informatics and Neuroimaging Suite Toolkit for Anonymous Computation) promotes collaborative research by removing large barriers to traditional data-centric approaches. It allows groups of users to run common analyses on their own machines over their own datasets with ease. The results of these analyses are synchronized to the cloud and undergo aggregate analysis processes using all contributor data. Federated (decentralized) pipelines enable distributed, iterative, and feature-rich analyses, opening up new possibilities for collaborative computation. It also offers data anonymity through differentially private algorithms, so members do not need to fear protected health information (PHI) traceback.
72
91
73
-
---
92
+
The goal of this discussion is to briefly introduce COINSTAC and its new features/algorithms to perform statistical analysis on various datasets. New features include:
93
+
Doing statistical analysis using Singularity containers
94
+
Command line pre-processing tools
95
+
New algorithms including but not limited to Decentralized Source Based Morphometry
96
+
New COINSTAC federated analysis architecture powered by NVIDIA FLARE
74
97
75
-
**If you are interested in holding a session, please create an issue through our github repo [template](https://github.com/ohbm/osr2024/issues/1){:target="_blank"}, and it will be reviewed based on their timeliness and interest to the open science audience by the OSR team. We will notify everyone of their assigned sessions as soon as possible.**
98
+
We would like to hear feedback about our software such as how to improve the experience for researchers. We welcome anyone who wants to contribute to this open source and open data project with their datasets, algorithms, and code. We would also like to work with other organizations to pursue grants together, including small business grants. Collaborating with other organizations is the best way for us to answer interesting neuroscience-related questions that would not have been possible without COINSTAC and COINSTAC Vaults.
76
99
77
100
---
78
101
@@ -82,6 +105,8 @@ This year, we introduce a new format at the OSR: the Open Mics session. In this
82
105
83
106
If you are interested in participating, either virtual or in-person, please fill out <ahref="https://forms.office.com/r/LajtFajja2">this form</a>. The presentation will be planned on a first-come-first-serve basis. The host will call your name when you are the next to present and control the presentation time. For more information, please click <ahref="https://ohbm.github.io/osr2024/openmic/">here</a>.
<div><a href="https://ohbm.github.io/osr2024/emergent/" target="_blank">Emergent Session 4:</a> What can generalist repositories do for you? A community feedback gathering session from the NIH Generalist Repository Ecosystem Initiative program</div>
158
158
<!-- <div><a href="https://www.crowdcast.io/e/panel-4-data-governance" target="_blank">Join on Crowdcast</a></div> -->
159
159
</td>
160
160
</tr>
@@ -187,7 +187,7 @@ Meanwhile, please find the information in the following sections:
Copy file name to clipboardExpand all lines: submit.md
+21-11Lines changed: 21 additions & 11 deletions
Original file line number
Diff line number
Diff line change
@@ -22,9 +22,17 @@ This year, you can **self-nominate** as a speakers for one of our **panel discus
22
22
You can find more info on volunteering opportunities [here](https://ohbm.github.io/osr2024/opportunities/){:target="_blank"} or by contacting us through e-mail: [email protected]
23
23
</p>
24
24
25
-
## Panel Discussion Self-Nominations
25
+
## Open Mics
26
26
27
-
<palign="justify">
27
+
This year, we introduce a new format at the OSR: the Open Mics session. In this session, participants from all levels are welcomed to have a 5-minute time slot, **from 10:30-11:00 am and from 12:45-13:15 pm on June 25th (Tue.)**, during which they can express or share what their thoughts on Open Science with the community. It is a good place to promote your software, your research, your ideas, or even your opinions related to Open Science. There will be no Q&A time after each presentation, but we encourage everyone interested to approach the speaker and initiate a conversation. We hope this format allow people to share thoughts and ideas that are less polished but could be worthwhile for the community to know, to think about, or even to contribute.
28
+
29
+
If you are interested in participating, either virtual or in-person, please fill out <ahref="https://forms.office.com/r/LajtFajja2">this form</a>. The presentation will be planned on a first-come-first-serve basis. The host will call your name when you are the next to present and control the presentation time. For more information, please click <ahref="https://ohbm.github.io/osr2024/openmic/">here</a>.
30
+
31
+
## Panel Discussion Self-Nominations
32
+
33
+
The submission for panel self-nomination is closed for 2024!
34
+
35
+
<!-- <p align="justify">
28
36
**Panel Sessions** are moderated discussions amongst selected speakers and OSR attendees about various relevant topics, spanning across all aspects of open science practices.
29
37
</p>
30
38
<p align="justify">
@@ -33,17 +41,19 @@ You can self-nominate as a speaker for the following **hybrid panel discussions*
33
41
**9:00 GMT+9 June 25, 2024** (Tuesday): Topic 2: Getting started in Open Science <br>
34
42
**13:30 GMT+9 June 25, 2024** (Tuesday): Topic 3: Many A Little Makes A Mickle - Crowdsourcing for brain mapping <br><br>
35
43
**11:15 GMT+9 June 26, 2024** (Wednesday): Topic 4: Changing face of Open Science <br>
36
-
**9:00 GMT+9 June 27, 2024** (Thursday): Topic 5: Open Science in Asia/Korea <br>
44
+
**9:00 GMT+9 June 27, 2024** (Thursday): Topic 5: Open Science in Asia/Korea <br>-->
37
45
38
46
<!-- **We will release the form for self-nomination as a panelist soon!** -->
39
-
**You can self-nominate as a panelist until May 15th (11:59pm anywhere on Earth) through this [form](https://forms.office.com/r/pBYUbr5bEg){:target="_blank"}.**<br> <br>
40
-
After this date, the nominations will be reviewed by the OSR team based on the experience in the topic and a diversity of speakers, and we will notify the self-nominees in early June. <br>
47
+
<!--**You can self-nominate as a panelist until May 15th (11:59pm anywhere on Earth) through this [form](https://forms.office.com/r/pBYUbr5bEg){:target="_blank"}.**<br> <br>
48
+
After this date, the nominations will be reviewed by the OSR team based on the experience in the topic and a diversity of speakers, and we will notify the self-nominees in early June. <br> -->
41
49
</p>
42
-
{::options parse_block_html="false" /}
50
+
<!--{::options parse_block_html="false" /}-->
43
51
44
52
## Emergent Session Submissions
45
53
46
-
{::options parse_block_html="false" /}
54
+
The submission for emergent session is closed for 2024!
55
+
56
+
<!-- {::options parse_block_html="false" /}
47
57
{::options parse_block_html="true" /}
48
58
<p align="justify">
49
59
**Emergent sessions** are live discussions among a small group of panel members, mediated by a host and open to audience of the OSR. The discussions may cover more advanced topics related to open-science or EDI (Equality, Diversity and Inclusion) issues.
@@ -56,11 +66,11 @@ This year we offer **5 slots** for application. For now, we open submissions to
**You can request to hold such a session <!-- until June 25 (12pm anywhere on Earth) -->by creating an issue through our github repo [template](https://github.com/ohbm/osr2024/issues/1){:target="_blank"}.**<br> <br>
61
-
<!--After this date, t -->The sessions will be reviewed based on their timeliness and interest to the open science audience by the OSR team and we will notify everyone of their assigned sessions in early June. <br>
69
+
<br> -->
70
+
<!--**You can request to hold such a session by creating an issue through our github repo [template](https://github.com/ohbm/osr2024/issues/1){:target="_blank"}.**<br> <br> -->
71
+
<!-- The sessions will be reviewed based on their timeliness and interest to the open science audience by the OSR team and we will notify everyone of their assigned sessions in early June. <br> -->
0 commit comments