National Library of Medicine (NLM) T15 Training Conference
Hosted by Stanford University, June 21-23, 2023
Call for Abstracts for the 2023 NLM T15 Training Conference
The 2023 NLM Informatics Training Conference will be hosted in-person by Stanford University in the California Bay Area on June 21-23, 2023. All trainees on full-time NLM appointments at each of the 18 NLM-funded university-based programs as of the date of the conference are expected to attend this meeting. Trainees appointed at the NLM Lister Hill Center Informatics Training Program, the NIH Clinical Center Informatics Program, or the Veterans Administration (VA) sponsored training programs are also invited to attend and make presentations as outlined below.
Research Presentation Formats:
As at previous meetings, trainee research will be presented in four different formats at this meeting. Ceilings are set for the number of speakers each training program can propose for Plenary, Focus, Poster, and Rapid Research ideas or Tech Talk sessions. Each trainee may only give one presentation at the conference. Submissions should describe research projects conducted by informatics trainees funded by NLM T15, Lister Hill and NIH CCI or VA programs.
Each program may send submissions as follows:
- One abstract for a talk at a Plenary session
- Up to two abstracts for talks at Focus sessions,
- Up to two abstracts for posters not submitted for Plenary or Focus sessions.
- Up to two nominees for Rapid Research ideas or Tech Talks covering projects not submitted for another session.
1. Plenary sessions: We expect that approximately 21 abstracts will be presented to the entire assembly, comprised of one from each training program. Each Plenary presentation will be 10 minutes, with an additional three-four minutes for questions. We plan to organize the Plenary sessions around themes that arise from keywords/leyphrases selected during the abstract submission process. Plenary sessions should describe research that is mature or recently completed, with results that can be reported.
2. Focus sessions: We expect that up to 42 abstracts will be presented in parallel Focus sessions, comprised of approximately two abstracts from each program. For Focus sessions, each presentation will be no more than ten minutes, including questions. Focus sessions will emphasize common techniques and sub-domains of interest within the training themes. Each Focus session includes 15 minutes for panel questions. Focus sessions may describe research that is at any stage of development: mature, ongoing, or just beginning.
3. Poster sessions: We expect 40 to 50 posters to be presented. There will be “protected” periods of time during the conference for trainees to staff their posters and present their research to their peers and program faculty, and the posters will be unattended but available at other times as well. Posters will be grouped thematically based on keywords/keyphrases selected during abstract submission. Posters may describe research that is at any stage of development: mature, ongoing, or just beginning. Trainees proposed as Plenary session presenters should not be first authors on submitted posters.
4. Rapid research ideas or tech talk sessions: We expect to have one or two Rapid research ideas or tech talk sessions involving up to 42 speakers, depending on the number of submissions. Rapid Research ideas are for trainees in the early stages of their research to explain their ideas, plans, and preliminary results.Tech Talks are for trainees to briefly explain and demonstrate an informatics tool. Each speaker will have up to four minutes for their presentation and one minute for questions. Rapid Research ideas or Tech Talks will be grouped thematically. An abbreviated abstract (150-250 words) is still required for these sessions.
The deadline for all abstract submissions is 12:00 p.m. PT on Monday March 6th, 2023.
- Submit via Google form survey
- Program Coordinators should complete the survey once for every presenter from their institution.
Instructions and a sample for preparing these abstracts are below. We ask that you ensure that all submissions conform to these instructions before sending them to us. As part of the abstract, please provide the e-mail address and full name of the presenter for each presentation or poster as well as which category (Plenary, Focus, Poster, Rapid Research ideas or Tech Talks) it is being submitted for (see the abstract template below).
NLM Informatics Training Conference – 2023
Instructions for submitting Plenary/Focus Session/Poster/Rapid research ideas or tech talk Abstracts
DEADLINE: 12:00 p.m. PT on Monday March 6th, 2023
Program coordinators will submit all trainee abstracts through this Google form survey. Please make sure that all site quotas and instructions are met prior to submitting any abstracts.
As explained in the Google form survey, each submission will require the following information:
1. Title. (Up to 75 characters)
2. Author list. *Important Note: The first author will be the presenter at the meeting. The first author must be a trainee currently supported by the NLM, NIH Clinical Center, or VA. Up to four additional authors may be listed. Each trainee will only present one time at the conference. In special cases, trainees who were formerly, but are not currently, supported by the NLM may present at the meeting. In such cases, contact firstname.lastname@example.org for clearance before submitting.
3. Abstract. (Up to 300 words). Abstracts and the presentations should use language that respects the autonomy, dignity, and experiences of marginalized communities, to foster an inclusive culture at the conference. When AMIA inclusive language guidelines are finalized, we will share them with all presenters.
4. Keywords/Keyphrases. Enter up to three keywords or keyphrases in each of the following three areas the submission: (These keywords/keyphrases will be used by the planning committee to group the presentations and posters thematically. Suggestions of keywords/keyphrases can be found at the end of this document and on the Google form survey.)
- Data Types
5. Statement of significance. (Up to150 words)
6. Research stage. (Idea/Early Stage, In Process, Complete)
7. Submission type. Select the submission type for the abstract: Plenary, Focus, Poster, or Rapid research idea or tech talk.
8. Presenter’s full name and email address.
Power Point Presentations for Plenary or Focus Sessions
Presenters will need to submit their final slide deck prior to the meeting. More details to follow closer to the conference.
Additional Poster Instructions
During the Poster Session, each presenter will stand near their poster, present their research, and talk with attendees. More details to follow closer to the conference.
Additional Rapid Research Idea or Tech Talk Instructions
Each speaker will have no more than four minutes to speak, using up to 4 PPT slides. One minute will be provided for Q&A after each presentation. More details to follow closer to the conference.
Title: Computational Modeling of Genome-Wide Targeting of Somatic Hypermutation
Authors: Jamie L Duke, Man Liu, David G Schatz, Steven H Kleinstein, Yale University
Abstract: Activation Induced Cytidine Deaminase (AID) is required for somatic hypermutation (SHM) of the B cell receptor during normal immune responses. Mistargeting of AID can lead to mutation of non-immunoglobulin genes and has been proposed as a contributing factor of tumorigenesis. Through large-scale sequencing, we have shown AID targets a large fraction of expressed genes in normal B cells and results further suggests the B cell genome is protected by two distinct processes: targeting of AID to particular genes and gene-specific targeting of high-fidelity repair to AID-induced lesions1. From these experiments, we compiled a dataset of 26 Mb of sequence from 180 genes in wild-type and various knockout mouse models. Each gene exhibits a unique mutation pattern and genomic context offering and unprecedented opportunity to address several questions concerning AID targeting and mechanism of action.
Our analysis includes a comparison of targeting mechanisms for SHM in non-immunoglobulin genes versus immunoglobulin genes, and an examination of the potential functional consequences of aberrant SHM. Additionally, models have been developed to quantitatively distinguish between genes which are strongly and weakly targeted by AID and SHM with current results suggesting the mechanism of AID targeting is at least partially shared between immunoglobulin and non-immunoglobulin genes.
Statement of Significance: The significance of this work is that our computational modeling gives important insight into underlying biological processes.
Research Stage: Completed
Proposed for: Plenary
Keywords: Genomics, Sequencing, Bioinformatics/computational biology
Presenter’s Full Name and Email: Jamie Duke, email@example.com
Title: (Up to 75 characters)
Authors: *Important Note: The first author listed will be the Presenter at the meeting. The Presenter must be a trainee currently supported by the NLM, NIH Clinical Center or VA. Up to four additional authors may be listed.
Abstract: (Up to 250 words)
Statement of Significance: (Up to 150 words)
- Idea/Early stages
- In Process
Proposed for (Choose only one):
- Rapid research idea
- Tech talk
Keywords/Keyphrases: These will be used by the planning committee to group the presentations and posters thematically. Enter up to three in each of the following three areas the submission:
a. Data types
Suggestions of keywords and keyphrases can be found below and on the Google form survey.
Presenter’s Full Name and Email: First name, last name, and email address
Keywords/Keyphrases: Please add up to three per category (data types, methodologies, applications/domains). Here are some suggested keywords and keyphrases. Feel free to put others that are relevant to your research.
Data Types - suggested keywords/keyphrases:
- Histopathological imaging (including single cell or molecular level)
- Radiological imaging (i.e. MRI, CT, ultrasound, PET)
- Clinical trials
- Patient-generated health data (i.e. wearables, patient-reported outcomes, diaries)
- Insurance health records
- Patient registry data
- Survey or interviews
- Social media data
- Biomedical literature
Methodologies - suggested keywords/keyphrases:
- Bioinformatics models (i.e. sequencing analysis)
- Computational biology (i.e. pathway analysis)
- Image analysis
- Deep learning
- Machine learning
- Reinforcement learning
- Transfer learning
- Causal Inference
- Knowledge representation
- Time series analysis
- Graphical Analysis
- Classification Analysis
- Regression Analysis
- Survival Analysis
- Cluster Analysis
- Multimodal Data Integration
- Stochastic modeling
Application Areas/Domains - suggested keywords/keyphrases:
- Regulatory Networks
- Protein Structure
- Inter/Intra-Cellular Networks
- Signaling Pathways
- Prognostic/Predictive Biomarkers (including Omics, Imaging, EHR)
- Drug Repurposing
- Clinical Decision Making
- Hospital Resource Management
- Mobile Health
- Public Health
- Population Health
- Implementation Science
- Health equity, Fairness, Biases