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'''Title''': 2025 GW Bioinformatics Symposium  
'''Title''': 2025 GW Bioinformatics Symposium  


'''When''': April 29th 2025, 9am to 5pm
'''When''': April 29th 2025, 9am to 6pm


'''Venue''': Talks: SEH B1220. Refreshments, lunch, and posters: Green wall area (SEH B1167)
'''Venue''': Talks: SEH B1220. Refreshments, lunch, and posters: Green wall area (SEH B1167)
Line 9: Line 9:
'''Join us for a full-day, all-hands GW Bioinformatics Symposium featuring posters, talks, and roundtable discussions. Open to GW students, staff, and faculty!'''
'''Join us for a full-day, all-hands GW Bioinformatics Symposium featuring posters, talks, and roundtable discussions. Open to GW students, staff, and faculty!'''


'''Event Registration:''' Space is limited. Please register by '''<u>April 12th. 2025</u>''' for the event through this [https://forms.gle/gweFvfFx4TPJ4kJi9 '''<big>form</big>'''].
'''Event Registration:''' Space is limited. Please register by '''<u>April 12th. 2025</u>''' for the event through this '''<big>[https://docs.google.com/forms/d/e/1FAIpQLSd_VfXIL_S59cVgOBxx_0b0E-wMBphWbBVuK6-JOSm9-cqiJA/viewform?usp=sharing form]</big>'''. If you encounter any issues, please email Raja Mazumder (mazumder@gwu.edu) your name and the lab you are representing and he will register you.


'''Abstract submission:''' Please submit your abstract by '''<u>April 12th. 2025</u>''' through [https://cri-datacap.org/surveys/?s=8LFM3TKDWY338KDC '''<big>REDCap</big>''']
'''Abstract submission:''' Please submit your abstract by '''<u>April 12th. 2025</u>''' through [https://cri-datacap.org/surveys/?s=8LFM3TKDWY338KDC '''<big>REDCap</big>''']
Line 32: Line 32:
Submit your printing request by April 15th.
Submit your printing request by April 15th.


== Schedule ==
== Schedule ([https://hivelab.biochemistry.gwu.edu/wiki/2025_Bioinformatics_Symposium#Talk_Titles Talk Titles]) ==


{| class="wikitable"
{| class="wikitable"
Line 84: Line 84:
Session chairs: Ali Rahnavard, Ljubica Caldovic
Session chairs: Ali Rahnavard, Ljubica Caldovic
|''Jo Lynne Rokita (Children’s)''
|''Jo Lynne Rokita (Children’s)''
Max Alekseyev (Milken)
Erika Hubbard (Crandall lab; Milken)
Erika Hubbard (Crandall lab; Milken)


Ali Rahnavard  (Milken)
Ali R. Taheriyoun  (Rahnavard Lab; Milken)
 
Stuart Nelson (Qing Zeng lab; Clinical Research and Leadership)


Hiroki Morizono (Children’s)
Hiroki Morizono (Children’s)
Line 111: Line 111:
|-
|-
|2:00 - 3:30 PM
|2:00 - 3:30 PM
|120 min
|90 min
|Talks
|Talks
Session Chairs: Howie Huang, Jimmy Saw, Chen Zeng
Session Chairs: Howie Huang, Jimmy Saw, Chen Zeng
Line 125: Line 125:
Xiangyun Qiu (Physics)
Xiangyun Qiu (Physics)


Jimmy Saw (Biology)
Shekhar Nagar (Jimmy Saw Lab, Biology)


Guillermo Orti (Biology)
Guillermo Orti (Biology)


Leon Grayfer (Biology)
''Some speakers might be moved to the morning sessions''  
 
''If needed some speakers might be moved to the morning session''  


|-
|-
|3: 30 - 4:30 PM
|3: 30 - 4:30 PM
|60 min
|60 min
|Session Chairs: Hiroki, Anelia
|Session Chair: Jonathon Keeney.
Co-chairs: Hiroki Morizono, Anelia Horvath
* Talks on IT, omics support, and related topics
* Talks on IT, omics support, and related topics
* Round table discussion
* Round table discussion
* Careers in Bioinformatics
* Careers in Bioinformatics
* Funding oppurtunities
* Funding opportunities
* Lightning Poster talks & awards
* Lightning Poster talks & awards
|Clark Gaylord (Director, Research Technology Services)
|Clark Gaylord (Director, Research Technology Services)
Line 157: Line 156:
|4:30 - 6:00 PM
|4:30 - 6:00 PM
|
|
|Networking event, poster prizes, and happy hour
|Networking event, poster prizes, and refreshments
|Keith Crandall
|Keith Crandall
|}
|}


== Presentation/Discussion Sessions ==
== Presentation/Discussion Sessions ==
There will be a Q&A session at the end of the workshop.
There will be a Q&A session and a networking event at the end of the workshop.


== Scientific Organizing Committee ==
== Scientific Organizing Committee ==


Raja Mazumder, Anelia Horvath, Hiroki Morizono, Ljubica Caldovic, Keith Crandall, Jorge Sepulveda, Howie Huang, Chen Zeng, Jimmy Saw, Clark Gaylord.
Raja Mazumder (Symposium Chair), Anelia Horvath, Hiroki Morizono, Ljubica Caldovic, Keith Crandall, Jorge Sepulveda, Howie Huang, Chen Zeng, Jimmy Saw, Clark Gaylord.


== Logistics Organizing Committee ==
== Logistics Organizing Committee ==


Raja Mazumder, Anelia Horvath, Raechelle McCants, Sunisha Harish. Student volunteers: Jane, Sofia, Allison, Chloe, Trupri and Lincoln.
Raja Mazumder, Anelia Horvath, Raechelle McCants, Jewel Das. Student volunteers: Jane, Sofia, Allison, Chloe, Trupri and Lincoln.
 
== Talk Titles ==
{| class="wikitable"
|+
!Name
!Department
!School
!Title
|-
|Jo Lynne Rokita
|Pediatrics
|CNH
|Accelerating discovery and target identification for pediatric brain tumors through open-source platforms and tools
|-
|Erika Hubbard
|Bioinformatics and Biostatistics
|SPH
|Machine Learning to Determine Endotypes of Lupus
|-
|Raja Mazumder
|Biochemistry and Molecular Medicine
|SMHS
|Integrating Biomedical Knowledgebases and Clinical Data for ML/AI-Powered Insights
|-
|Jack Villani
|GW Genomics Core
|SPH
|GW Genomics Core: An Introduction & Overview (panel discussion)
|-
| Ayah Zirikly || Computer Science || SEAS/Johns Hopkins University || Developments in NLP and AI for Mental Health: Insights from the Last Decade and Future Directions – A Focus on the CLPsych Workshop
|-
| Weiqun Peng || Physics || CCAS || Finding structures and their associated functions in genome wide of profiles of chromatin architecture
|-
| Nan Wu || Electrical and Computer Engineering || SEAS || Directed Graph Representation Learning for Circuits, Boolean Networks, and Beyond
|-
| Seth Berger || Biochemistry and Molecular Medicine / Pediatrics || SMHS || Blindspots in Clinical Genetic Testing: Integration of Multiomics to Improve Diagnostic Yields
|-
| Ali Reza Taheriyoun || Biostatistics and Bioinformatics || SPH || Dynamics of Gut Microbiome and Metabolome of Moderate and Severe Obesity Patients Under Sleeve Gastrectomy
|-
| Yi-Wen Chen || Biochemistry and Molecular Medicine / Pediatrics || SMHS || From gene to treatment: omics approaches for understanding facioscapulohumeral muscular dystrophy
|-
| Mohammad Saeed || Computer Science || SEAS || Biases in AI-Driven Healthcare: Challenges and Implications for Clinical Decision-Making
|-
| Shekhar Nagar || Biological Sciences || CCAS || Metabolic flexibility and dissemination of antibiotic resistomes from Actinobacteria in Hawaii hydrothermal steam vents
|}


== Acknowledgments ==
== Acknowledgments ==
Line 180: Line 224:


Raja Mazumder: mazumder@gwu.edu
Raja Mazumder: mazumder@gwu.edu
== Poster Presentations ==
{| class="wikitable"
!Poster Number
! Name !! Presentation Title
|-
|1
| Sunisha Harish || AI-Driven Drug Response Prediction in Cancer Using Long-Read Single-Cell RNA-Seq
|-
|2
| Dae Young Kim || mhGPT: A Lightweight Domain-Specific Language Model for Mental Health Analysis
|-
|3
| Vania Ballesteros Prieto || Uncovering the Contributions of Expressed Genetic Variants, Isoforms, and RNA Editing to Tumor Heterogeneity via Long-Read Single-Cell RNA-Seq Analysis
|-
|4
| Sarah Tiufekchiev-Grieco || Promoting Resolution of Inflammation as a Potential Therapy for DMD
|-
|5
| Karli Gilbert || Machine Learning Models Predict Treatment Outcome from Serum Proteins in Patients with Myasthenia Gravis that received Thymectomy
|-
|6
| Reny Mathew || Identification of anti-helminthic drug resistance associated Quantitative trait loci (QTLs) in the canine hookworm, Ancylostoma caninum: A pooled-sequencing approach
|-
|7
| Jo Lynne Rokita || Accelerating discovery and target identification for pediatric brain tumors through open-source platforms and tools
|-
|8
| Henry Kaminski || Moving towards a digital twin for myasthenia gravis
|-
|9
| Huai Chin Chiang || Single-Cell Transcriptomic and Phenotypic Profiling Reveals T Cell Dysfunction in BRCA1 Mutation Carriers
|-
|10
| Lori Krammer || GW-FEAST: a federated ecosystem for data analysis and machine learning
|-
|11
| Medha Kurukunda || Analyzing the Use of Artificial Intelligence to Enhance the Identification of Food Insecure Areas in Washington, D.C.
|-
|12
| Christie Rose Woodside || Bridging Genomics and Preparedness: Regulatory-Grade Genomics and Quality Control Metrics and Analysis for Emerging and Circulating Avian Influenza in 2024-2025
|-
|13
| Aiste Gulla, MD, PhD || Clinical Outcomes and Long-Term Survival of Pancreatic Cancers by Histological Sub-Type in the Epic Cosmos Database: Results from 2010-2025
|-
|14
| Jane Ulianova || Comparison of alignment performance between the T2T-CHM13 and GRCh38/hg38 reference genome assemblies for RNAseq
|-
|15
| Zhe Yu || Automated Tracking of Freezing Behavior in Paired House Mice Using DeepLabCut
|-
|16
| Zhe Yu || Behavioral Bioinformatics for Temporal Analysis of Freezing Behavior in Dyad Mice
|-
|17
| Karim Ismat || Generation of a single nuclei RNA sequencing atlas of dysferlin-deficient skeletal muscle
|-
|18
| Kai Leung (Adam) Wong || An Experience of carrying out GPU-accelerated Genomic Analysis on Pegasus
|-
|19
| Gabriel Batzli || Defining macrophage heterogeneity in murine skin wounds during inflammation 
|-
|20
| Hovhannes Arestakesyan || Recurrent Somatic scSNVs in Single-Cell RNA-Seq: Insights into Tumor Heterogeneity and RNA-Level Variants
|-
|21
| Chloe Sachs || Secretome distinguishes spectrum of NF1 associated peripheral nerve sheath tumors
|-
|22
| Nikhil Arethiya || A Time-Series Approach to Glucose-Based Participant Classification
|-
|23
| Siera Martinez || Hetero-GNN Link Prediction of RNA Editing in Single Cells
|-
|24
| Renxi Li || Thirty-day outcomes of infrainguinal bypass surgery with concurrent iliac artery stenting in patients with chronic limb-threatening ischemia
|-
|25
| Matthew Mollerus || ResLens: Detecting Antibiotic Resistance Genes with Large Language Models
|-
|26
| Parimala  Nagaraj || Cybersecurity at the Intersection of Genomics and Data Science: Securing the Future of Bioinformatics
|-
|27
| Shekhar Nagar || Metabolic flexibility and dissemination of antibiotic resistomes from Actinobacteria in Hawaii hydrothermal steam vents
|-
|28
| Cristina Fenollar Ferrer || Functional impact of PIP2 on the Serotonin Transporter (SERT)
|-
|29
| Ali Taheriyoun || Dynamics of gut microbiome and metabolome of obesity patients under sleeve gastrectomy
|-
|30
| Zohn Lab Zohn Lab || Next Generation sequencing approaches to understand developmental defects
|-
|31
| Max Alekseyev || Bioinformatics meets Quantum Informatics: from genome rearrangements to Weingarten calculus
|-
|32
| Lausanne Lee Oliver || Phylogenetic analysis of novel phages from Hawaiian fumaroles
|}

Latest revision as of 22:25, 9 April 2025


Title: 2025 GW Bioinformatics Symposium

When: April 29th 2025, 9am to 6pm

Venue: Talks: SEH B1220. Refreshments, lunch, and posters: Green wall area (SEH B1167)

Join us for a full-day, all-hands GW Bioinformatics Symposium featuring posters, talks, and roundtable discussions. Open to GW students, staff, and faculty!

Event Registration: Space is limited. Please register by April 12th. 2025 for the event through this form. If you encounter any issues, please email Raja Mazumder (mazumder@gwu.edu) your name and the lab you are representing and he will register you.

Abstract submission: Please submit your abstract by April 12th. 2025 through REDCap

Abstract/Overview

The GW Bioinformatics Symposium on April 29, 2025, a full-day event is designed to bring together faculty, staff, and student bioinformatics researchers and also researchers who use bioinformatics in their labs, from across GW to foster networking, collaboration, and knowledge exchange. The symposium will feature talks from GW labs that focus on bioinformatics and related research, poster presentations, roundtable discussions, and sessions on resources, funding and career opportunities in bioinformatics. Topics will span bioinformatics, computational methods, IT/security, and training, highlighting the breadth of bioinformatics in various GW schools and centers. This event offers a unique opportunity for attendees to engage in meaningful discussions, explore potential collaborations, and stay informed about the latest advancements in the field. The symposium is a great way to connect with the GW bioinformatics community.

Poster

Participants are invited to submit a brief poster abstract by March 31st at 11:59 PM (ET). We encourage submissions from bioinformatics labs and also other labs that do not primarily focus on bioinformatics but have research relevant to bioinformatics topics. A select few will be chosen for lightning talks. Due to the limited number of poster boards, priority will be given to ensure each lab/group has at least one designated board. If the number of submitted poster abstracts exceeds the available poster boards, additional posters may be printed as flyers with QR codes, enabling attendees to scan, view, or download them electronically.

Size: Poster sizes can be up to 42 (width) x 36 (height) inches.

Poster Abstract Submission Portal: Click here.

Poster Printing Instructions

Download the poster template from GW Research Day Resources: Poster Design & Layout.

After you create the PPT for your poster, request free poster printing from Gelman Library using this form.

Submit your printing request by April 15th.

Schedule (Talk Titles)

Time Duration Topic Presenter(s)
Morning Session

Topics: Registration, introduction, and health-related topics

8:30 - 9:00 AM 30 min Registration & coffee

Lead: Raechelle McCants, Sunisha Harish

  • Registration
  • Coffee
  • Poster Setup
  • Slide/AV setup & check
9 - 11:00 AM 120 min Talks

Session chairs: Anelia Horvath, Raja Mazumder

Anelia Horvath (Biochemistry)

Ljubica Caldovic (Children’s)

Dae Young Kim (Children’s; Muhammad Rahman lab)

Seth Berger (Children’s)

Raja Mazumder (Biochemistry)

Yi-Wen Chen (Children’s)

Marc Garbey (Neurology)

Additional presenters TBD

11 - 11:15 AM 15 min Refreshment Break.
11:15 - 12:30 PM 75 min Talks

Session chairs: Ali Rahnavard, Ljubica Caldovic

Jo Lynne Rokita (Children’s)

Max Alekseyev (Milken)

Erika Hubbard (Crandall lab; Milken)

Ali R. Taheriyoun  (Rahnavard Lab; Milken)

Hiroki Morizono (Children’s)

Additional presenters TBD

12:30 - 2 PM 90 min Lunch and poster session

Lead: Raechelle McCants, Sunisha Harish

Poster Judging Committee:

Ali Rahnavard

Hiroki Morizono

Yi-Wen Chen

Jimmy Saw

Afternoon Session

Topics: Breadth of bioinformatics in biological research; IT/security; Training

2:00 - 3:30 PM 90 min Talks

Session Chairs: Howie Huang, Jimmy Saw, Chen Zeng

Howie Huang (Engineering)

Nan Wu (ECE, Engineering)

Aya Zirikly (Computer Science, GW/JHU)

Chen Zeng (Physics)

Weiqun Peng (Physics)

Xiangyun Qiu (Physics)

Shekhar Nagar (Jimmy Saw Lab, Biology)

Guillermo Orti (Biology)

Some speakers might be moved to the morning sessions

3: 30 - 4:30 PM 60 min Session Chair: Jonathon Keeney.

Co-chairs: Hiroki Morizono, Anelia Horvath

  • Talks on IT, omics support, and related topics
  • Round table discussion
  • Careers in Bioinformatics
  • Funding opportunities
  • Lightning Poster talks & awards
 Clark Gaylord (Director, Research Technology Services)

Brian Choi (MFA)

Anelia Horvath (MGPC core/Bioinformatics support)

Jack Villani (GW Genomics Core)

Ali Rahnavard (CBI Analytics)

Adam Ciarleglio (Biostatistics and Epidemiology Consulting Service - BECS)

Additional presenters TBD

4:30 - 6:00 PM Networking event, poster prizes, and refreshments Keith Crandall

Presentation/Discussion Sessions

There will be a Q&A session and a networking event at the end of the workshop.

Scientific Organizing Committee

Raja Mazumder (Symposium Chair), Anelia Horvath, Hiroki Morizono, Ljubica Caldovic, Keith Crandall, Jorge Sepulveda, Howie Huang, Chen Zeng, Jimmy Saw, Clark Gaylord.

Logistics Organizing Committee

Raja Mazumder, Anelia Horvath, Raechelle McCants, Jewel Das. Student volunteers: Jane, Sofia, Allison, Chloe, Trupri and Lincoln.

Talk Titles

Name Department School Title
Jo Lynne Rokita Pediatrics CNH Accelerating discovery and target identification for pediatric brain tumors through open-source platforms and tools
Erika Hubbard Bioinformatics and Biostatistics SPH Machine Learning to Determine Endotypes of Lupus
Raja Mazumder Biochemistry and Molecular Medicine SMHS Integrating Biomedical Knowledgebases and Clinical Data for ML/AI-Powered Insights
Jack Villani GW Genomics Core SPH GW Genomics Core: An Introduction & Overview (panel discussion)
Ayah Zirikly Computer Science SEAS/Johns Hopkins University Developments in NLP and AI for Mental Health: Insights from the Last Decade and Future Directions – A Focus on the CLPsych Workshop
Weiqun Peng Physics CCAS Finding structures and their associated functions in genome wide of profiles of chromatin architecture
Nan Wu Electrical and Computer Engineering SEAS Directed Graph Representation Learning for Circuits, Boolean Networks, and Beyond
Seth Berger Biochemistry and Molecular Medicine / Pediatrics SMHS Blindspots in Clinical Genetic Testing: Integration of Multiomics to Improve Diagnostic Yields
Ali Reza Taheriyoun Biostatistics and Bioinformatics SPH Dynamics of Gut Microbiome and Metabolome of Moderate and Severe Obesity Patients Under Sleeve Gastrectomy
Yi-Wen Chen Biochemistry and Molecular Medicine / Pediatrics SMHS From gene to treatment: omics approaches for understanding facioscapulohumeral muscular dystrophy
Mohammad Saeed Computer Science SEAS Biases in AI-Driven Healthcare: Challenges and Implications for Clinical Decision-Making
Shekhar Nagar Biological Sciences CCAS Metabolic flexibility and dissemination of antibiotic resistomes from Actinobacteria in Hawaii hydrothermal steam vents

Acknowledgments

Sponsors: Dept. of Biochemistry and Molecular Medicine (coffee, refreshments, lunch, poster prizes), IBS (poster boards), Milken Institute School of Public Health (happy hour, poster prizes).

Contact

For questions about registration, abstract submission or general inquiries, please contact:

Raja Mazumder: mazumder@gwu.edu

Poster Presentations

Poster Number Name Presentation Title
1 Sunisha Harish AI-Driven Drug Response Prediction in Cancer Using Long-Read Single-Cell RNA-Seq
2 Dae Young Kim mhGPT: A Lightweight Domain-Specific Language Model for Mental Health Analysis
3 Vania Ballesteros Prieto Uncovering the Contributions of Expressed Genetic Variants, Isoforms, and RNA Editing to Tumor Heterogeneity via Long-Read Single-Cell RNA-Seq Analysis
4 Sarah Tiufekchiev-Grieco Promoting Resolution of Inflammation as a Potential Therapy for DMD
5 Karli Gilbert Machine Learning Models Predict Treatment Outcome from Serum Proteins in Patients with Myasthenia Gravis that received Thymectomy
6 Reny Mathew Identification of anti-helminthic drug resistance associated Quantitative trait loci (QTLs) in the canine hookworm, Ancylostoma caninum: A pooled-sequencing approach
7 Jo Lynne Rokita Accelerating discovery and target identification for pediatric brain tumors through open-source platforms and tools
8 Henry Kaminski Moving towards a digital twin for myasthenia gravis
9 Huai Chin Chiang Single-Cell Transcriptomic and Phenotypic Profiling Reveals T Cell Dysfunction in BRCA1 Mutation Carriers
10 Lori Krammer GW-FEAST: a federated ecosystem for data analysis and machine learning
11 Medha Kurukunda Analyzing the Use of Artificial Intelligence to Enhance the Identification of Food Insecure Areas in Washington, D.C.
12 Christie Rose Woodside Bridging Genomics and Preparedness: Regulatory-Grade Genomics and Quality Control Metrics and Analysis for Emerging and Circulating Avian Influenza in 2024-2025
13 Aiste Gulla, MD, PhD Clinical Outcomes and Long-Term Survival of Pancreatic Cancers by Histological Sub-Type in the Epic Cosmos Database: Results from 2010-2025
14 Jane Ulianova Comparison of alignment performance between the T2T-CHM13 and GRCh38/hg38 reference genome assemblies for RNAseq
15 Zhe Yu Automated Tracking of Freezing Behavior in Paired House Mice Using DeepLabCut
16 Zhe Yu Behavioral Bioinformatics for Temporal Analysis of Freezing Behavior in Dyad Mice
17 Karim Ismat Generation of a single nuclei RNA sequencing atlas of dysferlin-deficient skeletal muscle
18 Kai Leung (Adam) Wong An Experience of carrying out GPU-accelerated Genomic Analysis on Pegasus
19 Gabriel Batzli Defining macrophage heterogeneity in murine skin wounds during inflammation
20 Hovhannes Arestakesyan Recurrent Somatic scSNVs in Single-Cell RNA-Seq: Insights into Tumor Heterogeneity and RNA-Level Variants
21 Chloe Sachs Secretome distinguishes spectrum of NF1 associated peripheral nerve sheath tumors
22 Nikhil Arethiya A Time-Series Approach to Glucose-Based Participant Classification
23 Siera Martinez Hetero-GNN Link Prediction of RNA Editing in Single Cells
24 Renxi Li Thirty-day outcomes of infrainguinal bypass surgery with concurrent iliac artery stenting in patients with chronic limb-threatening ischemia
25 Matthew Mollerus ResLens: Detecting Antibiotic Resistance Genes with Large Language Models
26 Parimala Nagaraj Cybersecurity at the Intersection of Genomics and Data Science: Securing the Future of Bioinformatics
27 Shekhar Nagar Metabolic flexibility and dissemination of antibiotic resistomes from Actinobacteria in Hawaii hydrothermal steam vents
28 Cristina Fenollar Ferrer Functional impact of PIP2 on the Serotonin Transporter (SERT)
29 Ali Taheriyoun Dynamics of gut microbiome and metabolome of obesity patients under sleeve gastrectomy
30 Zohn Lab Zohn Lab Next Generation sequencing approaches to understand developmental defects
31 Max Alekseyev Bioinformatics meets Quantum Informatics: from genome rearrangements to Weingarten calculus
32 Lausanne Lee Oliver Phylogenetic analysis of novel phages from Hawaiian fumaroles
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