The Huck Institutes of the Life Sciences

2016 Bioinformatics and Genomics Retreat


Friday, September 9, 2016

The 2016 Bioinformatics and Genomics retreat will be held on September 9th and 10th. The one and a half day retreat will feature  Dr. Richard Myers from HudsonAlpha Institute for Biotechnology as the keynote speaker. There will also be a number of faculty and student talks as well as a workshop session on the September 10th. The retreat is open to everyone and attendance is free, but everyone must register before August 31st. 
Please be considerate while signing up for dinner (Friday), breakfast and lunch (Saturday) because we need accurate headcount for ordering food and beverages.
Click here for Dr. Richard Myers talk.


Event details


Sep, 9th 4-8:30PM
Sep 10th 8:30-5PM


Life Sciences Building, University Park 

Contact Person

Anurag Verma

General Information

Directions, parking and lodging information


Register for the retreat

Registration for this event is closed.



There will be a free hands-on 'Pandas and Machine Learning' workshop session on Saturday afternoon.



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Tentative Itinerary 

Friday, September 9, 2016





4:00-4:35 PM

4:40 PM


Opening remarks

Lobby Life Science Building

4:45-5:45 PM

Session 1: New Faculty       Moderator: Anurag Verma

Dr. Jesse Lasky : "Genomic basis of local adapatation to climate" 

Dr. Lynn Lin : "New clustering method for single-cell flow and mass cytometry data"

Dr. Dokyoon Kim : "Multi-omics data integration for translational bioinformatics"

Berg Auditorium, 100 Life Sciences Building

5:45-5:55 PM


First floor, Life Sciences Building

5:55-7:15 PM

Session 2: Machine Learning  Moderator:  Matthew Jensen

Dr. Shaun Mahony: " Machine learning in regulatory genomics"

Mr. Lin An: "A computational framework to predict chromatin interactions using genomic and epigenomic data"

Ms. Anna Okula: "A data driven approach to address clinical heterogeneity in COPD"

Dr. Yasser El-Manzalawy: "Protein-RNA interface prediction: advances, challenges, and future directions" 

Berg Auditorium, 100 Life Sciences Building


Dinner and poster session 1

Third floor bridge, Life Sciences Building

Saturday, September 10, 2016




8:30-9:00 AM


9:00-10:15 AM

Continental Breakfast


Session 3    Moderator: Theodora Maravegias

Mr. Wilfried Guiblet: "Local context in DNA sequence influences: the time between incorporation of consecutive bases"

Mr. Tao Yang:  "HiCRep: Measuring the reproducibility of Hi-C experiment"

Mr. Seth Polydore: "sRNA transcriptome analysis in Arabidopsis thaliana rdr226 mutants"

Mr. Nabeel Ahmed: "A hundred fold variability in codon translation rates in yeast"

Mr. Mariano Russo: "Altered molecular profile in thyroid cancers from patients affected by the three mile island nuclear accident"

Lobby, Life Science Building


Berg Auditorium, 100 Life Sciences Building

10:15-10:30 AM

Coffee break

First floor, Life Sciences Building

10:30-11:30 AM

Session 4   Moderator: Shefali Setia

Dr. George Perry:  "Genomic-scale STR genotyping and analysis for non-model species and from non-invasive samples"

Dr. Feng Yue: "Identification of large-scale structural variations and their implications in tumorigenesis

Dr. Mike Lee: "Moving towards precision medicine: Implementing pharmacogenetics"

Berg Auditorium, 100 Life Sciences Building

11:30-12:30 PM

Keynote Speaker

Dr. Richard Myers: "Using genomics and genetics to understand human health and disease"

Berg Auditorium, 100 Life Sciences Building

12:30-2:00 PM

Lunch and poster session 2

Third floor bridge, Life Sciences Building

2:00-5:00 PM

Session 5: Workshop     Organizers: Samarth Rangavittal and Zachary Fuller

Introduction to Machine Learning 

Berg Auditorium, 100 Life Sciences Building


5:00-5:05 PM

Concluding remarks

Berg Auditorium, 100 Life Sciences Building

6:00 PM

Students' evening social



Poster session


Any registered participant can present a poster.

Students in the Bioinformatics and Genomics program are required to present a poster.

This is a great opportunity to discuss your research with faculty and students in the Bioinformatics and Genomics community at Penn State as well as with our distinguished keynote speaker!

Instructions for poster presenters