Bioinformatics Internship Program for College Students

A 12-week program
Director: Prof. Kalai Mathee, MSc, PhD, MPH
Co-Director: Associate Teaching Prof Dr. Trevor Cickovski, PhD

Earn a certificate upon completion
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Duration: July 26 to Oct 15, 2021
Mode: By Zoom
Prerequisite: R package and Python Language
Participating Faculty Members

Curriculum: The participants will be exposed to various areas of bioinformatics research conducted by the Florida International University faculty members and the students. The projects include, but are not limited to:

• • Microbiome analyses
  • Comparative Genomics

• Protein evolution
• Protein structure and machine learning
• Molecular modeling
• Cancer biomarkers
• Multiomics data analyses
• Differential gene expression analysis

In addition, the participants will receive extensive training in professional development. The lectures are planned as follows:

• How to prepare effective slides and give a compelling presentation?
• How to review an article?
• How to write a manuscript?
• How to make a conference poster?

Project: The participants were divided into teams to work with specific ongoing projects.
Presentation: The program will culminate with all the participants presenting their projects to an open audience.

Final Survey

See agenda for final project presentations

Photo Gallery (2021 Cohort)

Prabin Baral	Parshatd Govindasamy	Shaarveen Kumar	Vivien Lim Zhi Ling
Muventther Parama Lingam	Lavinia Manimaran	Alvin Loh Bin Fang	Fantaysia Polanco
Praveen Raj	Ambreetha Sakthivel	Hovinyaa Selvaraju	Tej Sharma

Guest Lectures

Date	Name	Presentation Title
July 27, 8 PM EST	Professor Giri Narasimhan Knight Foundation School of Computing and Information Sciences, FIU	Microbiome social network analyses
	Vitalii Stebliankin Graduate Student, Computer Science, FIU	Replication rates and causal inference for antibiotic resistance analysis
	Arpit Mehtha Graduate Student, Computer Science, FIU	RNA editing in irritable bowel syndrome microbiomes
August 3, 8 PM EST	Dr. Trevor Cickovski Knight Foundation School of Computing and Information Sciences, FIU	Sophisticted microbiome tools
	Eric Nayman Medical Student, Herbert Wertheim College of Medicine, FIU	Customization of bioinformatic tools for microbiome analysis
August 10, 8 PM EST	Haroldo Rodriguez Graduate Student, U of Washington	Core genome analyses of Pseudomonas aeruginosa genomes
August 17, 8 PM EST	Dr. Ananda Mondal Knight Foundation School of Computing and Information Sciences, FIU	Epigenetics and Diseases
	Abdullah Mahmun Graduate Student, Computer Science, FIU	Molecular subtype classification using recursive l1-norm multiclass SVM reveals key lncRNAs for breast cancer
	Masrur Sobhan Graduate Student, Computer Science, FIU	Differential gene expression in COVID-19 patients
August 24, 8 PM EST	Professor Prem Chapagain, Department of Physics, FIU	Molecular modeling
	Prabin Baral Graduate Student, Department of Physics, FIU	Mutation-induced changes in the receptor-binding interface of the SARS-CoV-2 Delta variant B.1.617.2
	Vitalii Stebliankin Graduate Student, Computer Science, FIU	Deep Learning for Protein Structures
August 26, 8 PM EST	Professor Kalai Mathee Herbert Wertheim College of Medicine, FIU	Sequencing and assembly of a extremely drug-resistant Pseudomonas aeruginosa CDN118 genome
September 8, 8 PM EST	Dr. Trevor Cickovski Knight Foundation School of Computing and Information Sciences, FIU	The anatomy of Cloud computing and Containers
	Joseph	Pluma Plugins 2.0 — Streamlining microbiome tools and Pluma’s future in the Cloud.
	Muventther Parama Lingam (AIMST) & Fantaysia Polanco (FIU)	Quick demo on how to use Contaimers in the Cloud
September 21, 8 pm	Professor Kalai Mathee Herbert Wertheim College of Medicine, FIU	Critical cohort analysis for meaningful data outcome
	Zachary Schriner Undergraduate, Computer Science, FIU	Comparison of microbiome data from ileum and rectum of patients with ulecrative colitis, irritable bowel syndrome (IBD) and nonIBD
September 28, 8 pm	Dr. Jessica Liberles Department of Biological Sciences, FIU	Spike mimicry of thrombopoietin may induce thrombocytopenia in COVID-19 patients
	Janelle Nunez-Castilla Graduate Student, Biological Sciences, FIU	Spike protein molecular mimicry