2025 Bioinformatics Symposium: Difference between revisions

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'''When''': April 29th 2025, 9am to 6pm
'''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). '''GWorld card required for entry.'''


'''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!  
 
'''NOTE: We have received nearly 130 registrations, while SEH B1220 has a seating capacity of 90. Be sure to arrive early to secure a spot. For those who cannot be accommodated in the main room, we’ve arranged an overflow space in GWCC 8040 Conference Room, where the sessions will be live-streamed.'''


'''REGISTRATION IS CLOSED. 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.
'''REGISTRATION IS CLOSED. 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.
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'''ABSTRACT SUBMISSION IS CLOSED. 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 IS CLOSED. Abstract submission:''' Please submit your abstract by '''<u>April 12th. 2025</u>''' through [https://cri-datacap.org/surveys/?s=8LFM3TKDWY338KDC '''<big>REDCap</big>''']


'''OPT-OUT LUNCH PICKUP.''' We’re excited by the overwhelming response. Over 120 participants from nearly all GW schools have signed up. Please note that seating in the main room is limited to the first 90 attendees. We encourage you to arrive early to secure a seat. For those who arrive later, we’re working to set up a spillover room with TV monitors so everyone can still follow the sessions. Lunch will be provided for all attendees who plan to stay for most of the day. If you’re attending only briefly and do not plan to pick up lunch, please let us know to help minimize food waste. You can either fill out this [https://docs.google.com/forms/d/e/1FAIpQLScWaw6JFsbtQgcdsk9XCZQMJ0mMb3Z0UR5uHZnTZ1DgBYJlDQ/viewform?usp=header form] or email mazumder@gwu.edu. We appreciate your understanding and cooperation.
'''OPT-OUT LUNCH PICKUP.''' We’re excited by the overwhelming response. Almost 130 participants from nearly all GW schools have signed up. Please note that seating in the main room is limited to the first 90 attendees. We encourage you to arrive early to secure a seat. For those who arrive later, we’re working to set up a spillover room with TV monitors so everyone can still follow the sessions. Lunch will be provided for all attendees who plan to stay for most of the day. If you’re attending only briefly and do not plan to pick up lunch, please let us know to help minimize food waste. You can either fill out this [https://docs.google.com/forms/d/e/1FAIpQLScWaw6JFsbtQgcdsk9XCZQMJ0mMb3Z0UR5uHZnTZ1DgBYJlDQ/viewform?usp=header form] or email mazumder@gwu.edu. We appreciate your understanding and cooperation.


== Abstract/Overview ==
== Abstract/Overview ==
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== Poster ==
== Poster ==
'''Poster setup: Poster numbers and poster category (AI/ML, Bioinformatics) will be distributed during registration.'''
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.  
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.
'''Size:''' Poster sizes can be up to 48 (width) x 36 (height) inches.


'''Poster Abstract Submission Portal:''' [https://cri-datacap.org/surveys/?s=8LFM3TKDWY338KDC Click here].
'''Poster Abstract Submission Portal:''' [https://cri-datacap.org/surveys/?s=8LFM3TKDWY338KDC Click here].
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|-
|-
| colspan="4" |'''Morning Session'''
| colspan="4" |'''Morning Session'''
'''Topics: Registration, introduction, and health-related topics'''
'''Topics: Registration, introduction, and health-related topics.'''
|-
|-
|8:30 - 9:00 AM
|8:30 - 9:00 AM
|30 min
|30 min
|<u>Registration & coffee</u>
|<u>Registration & coffee</u>
Lead: Raechelle McCants, Sunisha Harish
Lead: Raechelle McCants, Jewel Dias


* Registration
* Registration
Line 68: Line 72:
Anelia Horvath
Anelia Horvath


<u>Talks</u>
<u>Talks (10 mins + questions)</u>


Session chairs: Anelia Horvath, Raja Mazumder
Session chairs: Anelia Horvath, Raja Mazumder
|Anelia Horvath (Biochemistry)
|1. Anelia Horvath (Biochemistry)
Ljubica Caldovic (Children’s)
2. Ljubica Caldovic (Children’s)
 
3. Muhammad Rahman (Children’s)
 
4. Seth Berger (Children’s)


Dae Young Kim (Children’s; Muhammad Rahman lab)
5. Raja Mazumder (Biochemistry)


Seth Berger (Children’s)
6. Yi-Wen Chen (Children’s)


Raja Mazumder (Biochemistry)
7. Aintzane Santaquiteria Gil (Biology, Orti Lab)


Yi-Wen Chen (Children’s)
8. *Marc Garbey (Neurology)


Aintzane Santaquiteria Gil (Biology, Orti Lab)
<u>Two 4 mins Poster Flash Talks</u>


''*Marc Garbey (Neurology)''
9. Jane Ulianova


''Additional presenters TBD''
10. Aiste Gulla
|-
|-
|11 - 11:15 AM
|11 - 11:15 AM
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|11:15 - 12:30 PM
|11:15 - 12:30 PM
|75 min
|75 min
|Talks
|Talks (10 mins + questions)
Session chairs: Ali Rahnavard, Ljubica Caldovic
Session chairs: Ali Rahnavard, Ljubica Caldovic
|''Jo Lynne Rokita (Children’s)''
|1. Jo Lynne Rokita (Children’s)
<nowiki>*</nowiki>Max Alekseyev (Milken)
2. Max Alekseyev (Milken)
 
3. Erika Hubbard (Crandall lab, Milken)


Erika Hubbard (Crandall lab; Milken)
5. Ali R. Taheriyoun  (Rahnavard Lab, Milken)


Ali R. Taheriyoun  (Rahnavard Lab; Milken)
6. Hiroki Morizono (Children’s)


<nowiki>*</nowiki>Hiroki Morizono (Children’s)
<u>One 4 mins Poster Flash Talk</u>


''Additional presenters TBD''
7. Vania Ballesteros Prieto
|-
|-
|12:30 - 2 PM
|12:30 - 2 PM
|90 min
|90 min
|Lunch and poster session
|Lunch and poster session
Lead: Raechelle McCants, Jewel Dias
Lead: Anelia Horvath, Raechelle McCants, Jewel Dias
|'''Poster Judging Committee:'''
|'''Poster Judging Committee:'''
Anelia Horvath
Ali Rahnavard  
Ali Rahnavard  


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|2:00 - 3:30 PM
|2:00 - 3:30 PM
|90 min
|90 min
|Talks
|Talks (10 mins + questions)
Session Chairs: Howie Huang, Jimmy Saw, Chen Zeng
Session Chairs: Howie Huang, Jimmy Saw, Chen Zeng
|*Howie Huang (Engineering)
Nan Wu (ECE, Engineering)


Aya Zirikly (Computer Science, GW/JHU)
<u>3:10 PM remarks</u>
 
Evangeline J. Downie (Associate Dean for Research, CCAS)
|1. Mohammad Hammas Saeed (Howie Huang Lab, Engineering)
2. Nan Wu (ECE, Engineering)
 
3. Aya Zirikly (Computer Science, GW/JHU)
 
4. Chen Zeng (Physics)
 
5. Weiqun Peng (Physics)


<nowiki>*</nowiki>Chen Zeng (Physics)
6. Shekhar Nagar (Jimmy Saw Lab, Biology)


Weiqun Peng (Physics)
<u>Two 4 mins Poster Flash Talks</u>


Shekhar Nagar (Jimmy Saw Lab, Biology)
7. Chelcie Puetz


''Some speakers might be moved to the morning sessions''
8. Kai Leung (Adam) Wong


|-
|-
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|Session Chair: Jonathon Keeney.
|Session Chair: Jonathon Keeney.
Co-chairs: Hiroki Morizono, Anelia Horvath
Co-chairs: Hiroki Morizono, Anelia Horvath
* Talks on IT, omics support, and related topics
 
* Round table discussion
* 5 min. Introduction: IT, omics support, and related topics
* Careers in bioinformatics
 
* Funding opportunities
* Questions from audience
* Poster awards
** Round table discussion
** Careers in bioinformatics
** Funding opportunities
*Games
*Poster prizes
|Clark Gaylord (Director, Research Technology Services)
|Clark Gaylord (Director, Research Technology Services)
Brian Choi (MFA)
Brian Choi (MFA)
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Ali Rahnavard (CBI Analytics)
Ali Rahnavard (CBI Analytics)
Hiroki Morizono (Children's)
|-
|-
|4:30 - 6:00 PM
|4:30 - 6:00 PM
|
|
|Networking event, poster prizes, and refreshments
|Networking event and refreshments
|Keith Crandall
|Anelia Horvath
Jonathon Keeney
 
Raja Mazumder
 
Keith Crandall
|}
|}
<nowiki>*</nowiki>Talk titles TBD
<nowiki>*</nowiki>Talk titles TBD
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== Logistics Organizing Committee ==
== Logistics Organizing Committee ==


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


== Talk Titles ==
== Talk Titles ==
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| 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
| 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
| Weiqun Peng || Department of 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
| Nan Wu || Electrical and Computer Engineering || SEAS || Directed Graph Representation Learning for Circuits, Boolean Networks, and Beyond
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|-
|-
| Yi-Wen Chen || Biochemistry and Molecular Medicine / Pediatrics || SMHS || From gene to treatment: omics approaches for understanding facioscapulohumeral muscular dystrophy
| 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
| Shekhar Nagar || Biological Sciences || CCAS || Metabolic flexibility and dissemination of antibiotic resistomes from Actinobacteria in Hawaii hydrothermal steam vents
Line 246: Line 275:
|CCAS
|CCAS
|Using comparative genomics to link genes with convergently evolved traits.  
|Using comparative genomics to link genes with convergently evolved traits.  
|-
|Chen Zeng
|Department of Physics
|CCAS
|Modeling RNA-protein Interactions with network guided machine learning
|-
|Mohammad Hammas Saeed
|Electrical and Computer Engineering
|SEAS
|AI for Good: Leveraging Graph-Based Methods and Large Language Models to Address Real-World Challenges
|-
|Hiroki Morizono
|Center for Genetic Medicine Research
|CNH
|Biomedical data resources at Children's National
|-
|Marc Garbey/Henry Kaminski
|Neurology & Rehabilitation Medicine
|MFA
|Moving towards a digital twin for myasthenia gravis ''(tentative title)''
|}  
|}  


Line 258: Line 307:


== Poster Presentations ==
== Poster Presentations ==
'''Poster setup: Poster numbers and poster category (AI/ML, Bioinformatics) will be distributed during registration.'''
{| class="wikitable"
{| class="wikitable"
!Poster Number
! Name !! Presentation Title
! Name !! Presentation Title
|-
|-
|1
| Sunisha Harish || AI-Driven Drug Response Prediction in Cancer Using Long-Read Single-Cell RNA-Seq
| 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
| 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
| 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
| 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
| 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
| 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
| 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  
| 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
| 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
| 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.  
| 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
| 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
| 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
| 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
| 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
| 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  
| 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
| 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   
| 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
| 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
| Chloe Sachs || Secretome distinguishes spectrum of NF1 associated peripheral nerve sheath tumors
|-
|-
|22
| Nikhil Arethiya || A Time-Series Approach to Glucose-Based Participant Classification
| Nikhil Arethiya || A Time-Series Approach to Glucose-Based Participant Classification
|-
|-
|23
| Siera Martinez || Hetero-GNN Link Prediction of RNA Editing in Single Cells
| 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  
| 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
| 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
| 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
| 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)
| 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
| Ali Taheriyoun || Dynamics of gut microbiome and metabolome of obesity patients under sleeve gastrectomy
|-
|-
|30
| Irene Zohn || Next Generation sequencing approaches to understand developmental defects
| Irene Zohn || Next Generation sequencing approaches to understand developmental defects
|-
|-
|31
| Max Alekseyev || Bioinformatics meets Quantum Informatics: from genome rearrangements to Weingarten calculus
| Max Alekseyev || Bioinformatics meets Quantum Informatics: from genome rearrangements to Weingarten calculus
|-
|-
|32
| Lausanne Lee Oliver || Phylogenetic analysis of novel phages from Hawaiian fumaroles
| Lausanne Lee Oliver || Phylogenetic analysis of novel phages from Hawaiian fumaroles
|-
|-
|33
|Mahdi Baghbanzadeh
|Mahdi Baghbanzadeh
|seqLens: optimizing language models for genomic predictions
|seqLens: optimizing language models for genomic predictions
|-
|-
|34
|Dezhao Fu
|Dezhao Fu
|varLens - enhancers genetic testing using language models
|varLens - enhancers genetic testing using language models
|-
|-
|35
|Lilly Shaw
|Lilly Shaw
|Uncovering Shared and Unique Biomarkers Across 23 Cancer Types Using The Cancer Genome Atlas (TCGA)
|Uncovering Shared and Unique Biomarkers Across 23 Cancer Types Using The Cancer Genome Atlas (TCGA)
|-
|-
|36
|Daniall Masood
|Daniall Masood
|BiomarkerKB: A Comprehensive Biomarker Knowledgebase
|BiomarkerKB: A Comprehensive Biomarker Knowledgebase
|-
|-
|37
|Ljubica Caldovic
|Ljubica Caldovic
|Active Learning of Data Science and Bioinformatics
|Active Learning of Data Science and Bioinformatics
|-
|-
|38
|Urnisha Bhuiyan
|Urnisha Bhuiyan
|GlyGen: A Comprehensive Resource for Glycoscience Data Integration and Discovery
|GlyGen: A Comprehensive Resource for Glycoscience Data Integration and Discovery
|-
|-
|39
|Surajit Bhattacharya
|Surajit Bhattacharya
|Redefining Human Airway Biology in Children from The Top Down: Unique Features of the Nasal Airway Epithelium.
|Redefining Human Airway Biology in Children from The Top Down: Unique Features of the Nasal Airway Epithelium.
|-
|-
|40
|Anelia Horvath
|Anelia Horvath
|A Machine Learning Approach to Functional SNV Discovery via Isoform-Aware Single-Cell RNA-Seq
|A Machine Learning Approach to Functional SNV Discovery via Isoform-Aware Single-Cell RNA-Seq
|-
|-
|41
|Christie Rose Woodside
|Christie Rose Woodside
|Enhanced QC Metrics for Reference-Grade Genomic Data
|Enhanced QC Metrics for Reference-Grade Genomic Data
|-
|-
|42
|Yi-Wen Chen
|Yi-Wen Chen
|From gene to treatment: omics approaches for understanding facioscapulohumeral muscular dystrophy
|From gene to treatment: omics approaches for understanding facioscapulohumeral muscular dystrophy
|-
|-
|43
|Pia Sen
|Pia Sen
|Investigating the role of bacteriophage diversity in Hawaiian steam vent microbial communities
|Investigating the role of bacteriophage diversity in Hawaiian steam vent microbial communities
|-
|-
|44
|Emily Williams
|Emily Williams*
|TRIM28 regulates endogenous retroviral element expression in prostate cancer
|TRIM28 regulates endogenous retroviral element expression in prostate cancer
|-
|-
|45
|Alexander Thiersch
|Patient-centric approaches for antipsychotic medication research: an application of the Desirability of Outcome Ranking (DOOR) and Global Benefit-Risk (GBR) Score
|-
|46
|Cadina Powell
|Cadina Powell
|Be Smart And Use Smartphones for Telemedicine: Narrative Review  
|Be Smart And Use Smartphones for Telemedicine: Narrative Review  
|-
|-
|47
|Xinyang Zhang
|Xinyang Zhang
|Meta-analytic microbiome target discovery for immune checkpoint inhibitor response in advanced melanoma
|Meta-analytic microbiome target discovery for immune checkpoint inhibitor response in advanced melanoma
|-
|-
|48
|Cyrus Chun Hong Au Yeung
|Cyrus Chun Hong Au Yeung
|Leveraging Large Language Models for Scalable Glycan-Disease Relation Extraction
|Leveraging Large Language Models for Scalable Glycan-Disease Relation Extraction
|-
|-
|49
|Ashley Garrison
|Ashley Garrison
|Gut Microbiome Composition as an Indicator of Preclinical Alzheimer's Disease
|Gut Microbiome Composition as an Indicator of Preclinical Alzheimer's Disease
|-
|-
|50
|*Chelcie Puetz
|Chelcie Puetz
|Combined Neuroinflammatory and Neurovascular Molecular Screening for Early Detection of Blood-Brain Barrier Dysfunction in Patients with Traumatic Brain Injury
|Combined Neuroinflammatory and Neurovascular Molecular Screening for Early Detection of Blood-Brain Barrier Dysfunction in Patients with Traumatic Brain Injury
|-
|Ranojoy Chatterjee
|cellSight: Enhanced Single-Cell Analysis Platform with Comprehensive Cell Communication Analysis.
|-
|Ishita Chopra
|Characterizing Cell Interaction and Gene Expression
|-
|Luke Johnson
|scSNViz: a user-friendly R package for visualization and analysis of cell specific expressed SNVs
|}
|}
<nowiki>*</nowiki>Flash talks

Latest revision as of 11:49, 29 April 2025


Title: 2025 Inaugural GW Bioinformatics Symposium

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

Venue: Talks: SEH B1220. Refreshments, lunch, and posters: Green wall area (SEH B1167). GWorld card required for entry.

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

NOTE: We have received nearly 130 registrations, while SEH B1220 has a seating capacity of 90. Be sure to arrive early to secure a spot. For those who cannot be accommodated in the main room, we’ve arranged an overflow space in GWCC 8040 Conference Room, where the sessions will be live-streamed.

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

OPT-OUT LUNCH PICKUP. We’re excited by the overwhelming response. Almost 130 participants from nearly all GW schools have signed up. Please note that seating in the main room is limited to the first 90 attendees. We encourage you to arrive early to secure a seat. For those who arrive later, we’re working to set up a spillover room with TV monitors so everyone can still follow the sessions. Lunch will be provided for all attendees who plan to stay for most of the day. If you’re attending only briefly and do not plan to pick up lunch, please let us know to help minimize food waste. You can either fill out this form or email mazumder@gwu.edu. We appreciate your understanding and cooperation.

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

Poster setup: Poster numbers and poster category (AI/ML, Bioinformatics) will be distributed during registration.

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 48 (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, Jewel Dias

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

Rong Li (Chair, Dept. BMM, SMHS)

Alison Hall (Senior Assoc Dean for Res, SMHS)

Raja Mazumder

Anelia Horvath

Talks (10 mins + questions)

Session chairs: Anelia Horvath, Raja Mazumder

1. Anelia Horvath (Biochemistry)

2. Ljubica Caldovic (Children’s)

3. Muhammad Rahman (Children’s)

4. Seth Berger (Children’s)

5. Raja Mazumder (Biochemistry)

6. Yi-Wen Chen (Children’s)

7. Aintzane Santaquiteria Gil (Biology, Orti Lab)

8. *Marc Garbey (Neurology)

Two 4 mins Poster Flash Talks

9. Jane Ulianova

10. Aiste Gulla

11 - 11:15 AM 15 min Refreshment Break.
11:15 - 12:30 PM 75 min Talks (10 mins + questions)

Session chairs: Ali Rahnavard, Ljubica Caldovic

1. Jo Lynne Rokita (Children’s)

2. Max Alekseyev (Milken)

3. Erika Hubbard (Crandall lab, Milken)

5. Ali R. Taheriyoun  (Rahnavard Lab, Milken)

6. Hiroki Morizono (Children’s)

One 4 mins Poster Flash Talk

7. Vania Ballesteros Prieto

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

Lead: Anelia Horvath, Raechelle McCants, Jewel Dias

Poster Judging Committee:

Anelia Horvath

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 (10 mins + questions)

Session Chairs: Howie Huang, Jimmy Saw, Chen Zeng

3:10 PM remarks

Evangeline J. Downie (Associate Dean for Research, CCAS)

1. Mohammad Hammas Saeed (Howie Huang Lab, Engineering)

2. Nan Wu (ECE, Engineering)

3. Aya Zirikly (Computer Science, GW/JHU)

4. Chen Zeng (Physics)

5. Weiqun Peng (Physics)

6. Shekhar Nagar (Jimmy Saw Lab, Biology)

Two 4 mins Poster Flash Talks

7. Chelcie Puetz

8. Kai Leung (Adam) Wong

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

Co-chairs: Hiroki Morizono, Anelia Horvath

  • 5 min. Introduction: IT, omics support, and related topics
  • Questions from audience
    • Round table discussion
    • Careers in bioinformatics
    • Funding opportunities
  • Games
  • Poster prizes
 Clark Gaylord (Director, Research Technology Services)

Brian Choi (MFA)

Anelia Horvath (MGPC core/Bioinformatics support)

Jack Villani (GW Genomics Core)

Ali Rahnavard (CBI Analytics)

Hiroki Morizono (Children's)

4:30 - 6:00 PM Networking event and refreshments Anelia Horvath

Jonathon Keeney

Raja Mazumder

Keith Crandall

*Talk titles TBD

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 Dias. 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 Department of 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
Shekhar Nagar Biological Sciences CCAS Metabolic flexibility and dissemination of antibiotic resistomes from Actinobacteria in Hawaii hydrothermal steam vents
Dae Young Kim Center for Translational Research CNH mhGPT: A Lightweight Domain-Specific Language Model for Mental Health Analysis
Anelia Horvath Biochemistry and Molecular Medicine SMHS AI driven Functional SNV Discovery from long read Single-Cell RNA-Seq Data
Ljubica Caldovic Center for Genetic Medicine Research CNH Active Learning of Data Science and Bioinformtics
Max Alekseyev Mathematics / Biostatistics & Bioinformatics CCAS/SPH Bioinformatics Meets Quantum Informatics: from Genome Rearrangements to Weingarten Calculus
Aintzane Santaquiteria Gil Department of Biological Sciences CCAS Using comparative genomics to link genes with convergently evolved traits.
Chen Zeng Department of Physics CCAS Modeling RNA-protein Interactions with network guided machine learning
Mohammad Hammas Saeed Electrical and Computer Engineering SEAS AI for Good: Leveraging Graph-Based Methods and Large Language Models to Address Real-World Challenges
Hiroki Morizono Center for Genetic Medicine Research CNH Biomedical data resources at Children's National
Marc Garbey/Henry Kaminski Neurology & Rehabilitation Medicine MFA Moving towards a digital twin for myasthenia gravis (tentative title)

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 setup: Poster numbers and poster category (AI/ML, Bioinformatics) will be distributed during registration.

Name Presentation Title
Sunisha Harish AI-Driven Drug Response Prediction in Cancer Using Long-Read Single-Cell RNA-Seq
Dae Young Kim mhGPT: A Lightweight Domain-Specific Language Model for Mental Health Analysis
*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
Sarah Tiufekchiev-Grieco Promoting Resolution of Inflammation as a Potential Therapy for DMD
Karli Gilbert Machine Learning Models Predict Treatment Outcome from Serum Proteins in Patients with Myasthenia Gravis that received Thymectomy
Reny Mathew Identification of anti-helminthic drug resistance associated Quantitative trait loci (QTLs) in the canine hookworm, Ancylostoma caninum: A pooled-sequencing approach
Jo Lynne Rokita Accelerating discovery and target identification for pediatric brain tumors through open-source platforms and tools
Henry Kaminski Moving towards a digital twin for myasthenia gravis
Huai Chin Chiang Single-Cell Transcriptomic and Phenotypic Profiling Reveals T Cell Dysfunction in BRCA1 Mutation Carriers
Lori Krammer GW-FEAST: a federated ecosystem for data analysis and machine learning
Medha Kurukunda Analyzing the Use of Artificial Intelligence to Enhance the Identification of Food Insecure Areas in Washington, D.C.
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
*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
*Jane Ulianova Comparison of alignment performance between the T2T-CHM13 and GRCh38/hg38 reference genome assemblies for RNAseq
Zhe Yu Automated Tracking of Freezing Behavior in Paired House Mice Using DeepLabCut
Zhe Yu Behavioral Bioinformatics for Temporal Analysis of Freezing Behavior in Dyad Mice
Karim Ismat Generation of a single nuclei RNA sequencing atlas of dysferlin-deficient skeletal muscle
*Kai Leung (Adam) Wong An Experience of carrying out GPU-accelerated Genomic Analysis on Pegasus
Gabriel Batzli Defining macrophage heterogeneity in murine skin wounds during inflammation
Hovhannes Arestakesyan Recurrent Somatic scSNVs in Single-Cell RNA-Seq: Insights into Tumor Heterogeneity and RNA-Level Variants
Chloe Sachs Secretome distinguishes spectrum of NF1 associated peripheral nerve sheath tumors
Nikhil Arethiya A Time-Series Approach to Glucose-Based Participant Classification
Siera Martinez Hetero-GNN Link Prediction of RNA Editing in Single Cells
Renxi Li Thirty-day outcomes of infrainguinal bypass surgery with concurrent iliac artery stenting in patients with chronic limb-threatening ischemia
Matthew Mollerus ResLens: Detecting Antibiotic Resistance Genes with Large Language Models
Parimala Nagaraj Cybersecurity at the Intersection of Genomics and Data Science: Securing the Future of Bioinformatics
Shekhar Nagar Metabolic flexibility and dissemination of antibiotic resistomes from Actinobacteria in Hawaii hydrothermal steam vents
Cristina Fenollar Ferrer Functional impact of PIP2 on the Serotonin Transporter (SERT)
Ali Taheriyoun Dynamics of gut microbiome and metabolome of obesity patients under sleeve gastrectomy
Irene Zohn Next Generation sequencing approaches to understand developmental defects
Max Alekseyev Bioinformatics meets Quantum Informatics: from genome rearrangements to Weingarten calculus
Lausanne Lee Oliver Phylogenetic analysis of novel phages from Hawaiian fumaroles
Mahdi Baghbanzadeh seqLens: optimizing language models for genomic predictions
Dezhao Fu varLens - enhancers genetic testing using language models
Lilly Shaw Uncovering Shared and Unique Biomarkers Across 23 Cancer Types Using The Cancer Genome Atlas (TCGA)
Daniall Masood BiomarkerKB: A Comprehensive Biomarker Knowledgebase
Ljubica Caldovic Active Learning of Data Science and Bioinformatics
Urnisha Bhuiyan GlyGen: A Comprehensive Resource for Glycoscience Data Integration and Discovery
Surajit Bhattacharya Redefining Human Airway Biology in Children from The Top Down: Unique Features of the Nasal Airway Epithelium.
Anelia Horvath A Machine Learning Approach to Functional SNV Discovery via Isoform-Aware Single-Cell RNA-Seq
Christie Rose Woodside Enhanced QC Metrics for Reference-Grade Genomic Data
Yi-Wen Chen From gene to treatment: omics approaches for understanding facioscapulohumeral muscular dystrophy
Pia Sen Investigating the role of bacteriophage diversity in Hawaiian steam vent microbial communities
Emily Williams TRIM28 regulates endogenous retroviral element expression in prostate cancer
Cadina Powell Be Smart And Use Smartphones for Telemedicine: Narrative Review
Xinyang Zhang Meta-analytic microbiome target discovery for immune checkpoint inhibitor response in advanced melanoma
Cyrus Chun Hong Au Yeung Leveraging Large Language Models for Scalable Glycan-Disease Relation Extraction
Ashley Garrison Gut Microbiome Composition as an Indicator of Preclinical Alzheimer's Disease
*Chelcie Puetz Combined Neuroinflammatory and Neurovascular Molecular Screening for Early Detection of Blood-Brain Barrier Dysfunction in Patients with Traumatic Brain Injury
Ranojoy Chatterjee cellSight: Enhanced Single-Cell Analysis Platform with Comprehensive Cell Communication Analysis.
Ishita Chopra Characterizing Cell Interaction and Gene Expression
Luke Johnson scSNViz: a user-friendly R package for visualization and analysis of cell specific expressed SNVs

*Flash talks

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