INBRE SRE Summer Bioinformatics Course

 News & Announcements, SRE Student Accomplishments, Student Research Experience
May 252023
 

The Hawaii INBRE Program will be hosting a 9-week Summer Bioinformatics Course from Wednesday, June 14 to Wednesday, August 9, 2023 via Zoom. We highly encourage all Student Research Experience (SRE) students to join in this exclusive experience. All students that complete the course will receive a certificate of completion that they can add to their resumes or CVs. Here is the course description:

Description: This introductory bioinformatics course from INBRE is designed for undergraduate students to gain technical training in bioinformatics. This course is focused on providing students with the necessary skills to learn R programming and utilize this software in their own biological data analysis. Through hands-on exercises and practical examples, they will gain proficiency in utilizing R to process, manipulate, and visualize data. Additionally, this course will cover essential concepts and techniques for performing a general genome analysis. No prior experience with R is necessary and by the end of the course, students will be equipped with the foundational knowledge and practical skills required to integrate bioinformatics into their own research projects. This course will be held via Zoom over a 9-week period. Links to the Zoom sessions will be given at a later date.

For further information, please refer to the attached course syllabus.

LINK TO REGISTER FOR THE COURSE: REGISTRATION FORM

For any questions regarding the course, please contact Angelica Valdez (angel301@hawaii.edu) and Dr. Jon-Paul Bingham (jbingham@hawaii.edu). Thank you!

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2023 Biomedical Symposium

 News & Announcements, SRE Student Accomplishments, Student Research Experience
May 052023
 

The INBRE Program Meeting and Biomedical Sciences & Health Disparities Symposium held on April 21, 2023, was a great success with students expanding upon their academic activities. We had nearly 180 total attendees! A special “Thank you” to all the volunteers who contributed to the success of the program.
Students, we hope you enjoyed the experience of networking with your peers, listening to the discussion by the panel of professionals, and presenting your poster. We had many faculty comments about the impressive quality of research and the manner of professional presentation – INBRE students you did yourself proud!

The scores are in for the Top 4 INBRE Undergraduate Student Poster Presentations. These students are invited to attend and participate in the NIH IDeA Western Regional Conference in Santa Ana Pueblo, New Mexico August 2 – 4, 2023.

Here are the top 4 scores:

  • Yuewen Ding, Kapiolani Community College, University of Hawaii at Manoa
    Poster Title: “Production and Characterization of Pre-Fusion Ebola Virus Gp2 Expressed in Drosphila S2 Cells for Analysis of Vaccine-Induced Immune Responses”
  • Jenna Spellman (with Nikki Zamani & Samantha Teramulo), University of Hawaii Maui College
    Poster Title: “Effects of Food Preservatives on Human Recombinant Lysozyme in Turbidimetric and Fluorescent Assays”
  • Emily Andrist, Hawaii Pacific University
    Poster Title: “Impact of Environmental Variability on Vibrio vulnificus“
  • Finn Reil, University of Hawaii Hilo
    Poster Title: “New Syntheses and Chemistry of Diazo Compounds“
graphic image
Yuewen Ding, Kapiolani Community College, UH Manoa
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Nikki Zamani, Jenna Spellman, & Samantha Teramulo, University of Hawaii Maui College
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Emily Andrist, Hawaii Pacific University

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Finn Reil, University of Hawaii Hilo
INBRE Admin Team
Front Row (left to right): Kari Kim, Grace Matsuura, Leighanne Felix, Mark Oandasan.
Second Row (left to right): Robert Nichols, Ben Fogelgren, Brad Jones, Peter Hoffman. Missing: Jane Onoye


2023 Biomedical Symposium Day 2 INBRE

2023 BIOMEDICAL SYMPOSIUM APRIL 20-21, 2023

 News & Announcements, Student Research Experience
Mar 062023
 

Aloha,
We are excited to announce that the registration for the 2023 Annual Biomedical Science & Health Disparities Symposium is now OPEN! The symposium will occur April 20 – 21, 2023, both virtually and in-person. 

Event Description: The Annual Biomedical Sciences & Health Disparities Symposium attracts some of the top health science research and ideas from throughout academia in Hawaii. Medical Students, Residents, Medical Fellows, Graduate Students, Post-Doctoral Fellows and Undergraduates are invited to present their work. Research Associates and Faculty are encouraged to attend. The Symposium will have both virtual and live components this year. Friends and family may attend the online event. The live, in-person poster sessions will be closed to the general public.

Day 1 : April 20, 2023 (Mixed Format)

  • Graduate Students, Post-Doctoral Researchers (In-Person posters in Sullivan Center)
  • Medical Students, Residents, and Medical Fellows (5 min Powerpoint presentations via Zoom)
  • Keynote Seminar (In MEB 315 at 12:00 – 1:00 PM, also available via Zoom)

Day 2 : April 21, 2023 (In-Person)

  • INBRE Student Research Experience (SRE) Students
  • Undergraduate Students, Community College Students

For more information about the conference or to register, see the website:http://biosymp.jabsom.hawaii.edu.The deadline to submit an abstract is Wednesday, March 15, 2023.

If you have any questions or concerns, please email biosymp@hawaii.edu. If you are affiliated with INBRE, please email inbre@hawaii.edu.


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HOW TO WRITE AN ABSTRACT

Bioinformatics Core Sponsored Seminar for February 9, 2023: Speaker Leng Han, PhD, Texas A&M

 News & Announcements
Feb 062023
 

“Harnessing Big Data for Precision Oncology”

Leng Han (headshot)

Leng Han, Ph.D.,

Associate Professor and CPRIT scholar at Texas A&M University,

Institute of Biosciences & Technology

Thursday, February 9, 2023

12:00 – 1:00 PM HST

Zoom Details

Link: https://hawaii.zoom.us/j/92124491501

Meeting ID: 921 2449 1501

Passcode: QHS646

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Dr. Han is an Associate Professor and CPRIT scholar at Texas A&M University, Institute of Biosciences & Technology. Before join TAMU, he is an Assistant Professor at The University of Texas Health Science Center at Houston. Dr. Han obtained his PhD from Chinese Academy of Sciences and did postdoc training with Dr. Joseph C. Wu at Stanford University, and Dr. Han Liang at MD Anderson Cancer Center. Dr. Han’s lab focused on harnessing big data for precision oncology. In the past several years, his labs contributed to RNA-targeted therapy, target therapy and immunotherapy, and published several papers in high profile journals, including Cancer Cell, Nature Metabolism, Nature Immunology, Nature Communications, The Innovation, Cell Systems, Cell Reports, Nucleic Acids Research, Genome Medicine, Journal of the National Cancer Institute. He has been invited to contribute review, commentary and spotlight by multiple journals, including Nature Reviews Clinical Oncology, Nature Biotechnology, Trends in Genetics, Trends in Cancer, Trends in Molecular Medicine, Genome Medicine, and Oncogene. To date, he has published >160 peer-reviewed papers, with a total of > 20,000 citations (Google scholar, H-index = 56).

For more information, contact Dr. Chathura Siriwardhana at Tel. 692-1487 or Email: cksiri@hawaii.edu ; or
Hua Yang at Tel. 692-1661 or Email: yanghua@hawaii.edu

Bioinformatics Core Sponsored Seminar January 19, 2023

 News & Announcements
Jan 182023
 

Automating Machine Learning for Predicting Risk of Alzheimer’s Disease


Jason Moore, Ph.D.,

Chair of Department of Computational Biomedicine at Cedars-Sinai Medical Center

Dr. Moore completed a Ph.D. in Human Genetics and an M.A. in Statistics at the University of Michigan. In 1999 he went to Vanderbilt University where he held an Ingram Professorship and served as founding Director of the Advanced Computing Center for Research and Education. He then went to the Geisel School of Medicine at Dartmouth College in 2004 where he held the Third Century Professorship and served as founding Director of the Institute for Quantitative Biomedical Sciences. In 2015, he joined Penn Medicine at the University of Pennsylvania as the founding Director of the Institute for Biomedical Informatics and Senior Associate Dean for Informatics. He joined Cedars-Sinai in 2021 as the founding Chair of the Department of Computational Biomedicine. His research on artificial intelligence methods for the analysis of biomedical data has been continuously funded the NIH for more than 20 years. He is an elected fellow of the American College of Medical Informatics, the International Academy of Health Sciences Informatics, the American Statistical Association, the International Statistics Institute, and the American Association for Advancement of Science. He is Editor-in-Chief of the open-access journal BioData Mining.

Thursday, January 19, 2023

12:00 – 1:00 PM HST

Zoom Details

Link:_https://hawaii.zoom.us/j/92124491501

Meeting ID: 921 2449 1501

Passcode: QHS646

2023 MHRT Cohort Recruitment (Application Deadline: Sunday January 8, 2023)

 News & Announcements, Student Research Experience
Dec 202022
 


The MHRT program provides directed reading coursework and research projects in topics focused on global health, tropical medicine, infectious diseases and community-based participatory research for undergraduates (juniors and seniors), graduate students and Ola HAWAII junior faculty (see attached flyer).
For instructions on how to apply, please visit our website at https://manoa.hawaii.edu/tropicalmedicine/mhirt/index.php/apply/

If you or your students have any questions about the program please visit our website at https://manoa.hawaii.edu/tropicalmedicine/mhirt/  or contact us at mhirt-l@lists.hawaii.edu.


The deadline to apply is Sunday, January 8, 2023.  


MHRT Program

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11th Annual Workshop to Increase Diversity in Mathematical Modeling & Public Health – March 27-28, 2023

 News & Announcements
Dec 082022
 

We are pleased to let you know that we are now accepting applications for the 11th Annual Workshop to Increase Diversity in Mathematical Modeling & Public Health! The workshop will be held March 27-28, 2023 in Boston, Massachusetts.

Students can submit an application anytime between now and the deadline of January 15, 2023 at 11:59 PM EST.

This Workshop is for undergraduates or students in a post baccalaureate program from underrepresented groups who have an interest in public health and/or mathematical modeling, and are studying quantitative disciplines and/or public health at their home institutions. See the workshop website for eligibility criteria.

Over 1.5 days, students will listen to scientific talks from public health researchers and trainees who use infectious disease epidemiology and mathematical modeling to solve problems in public health. They will also engage in professional development and networking opportunities, and participate in hands-on activities to practice the concepts and skills they are learning.

Students must apply and be accepted to the workshop to participate. Accepted students receive free admission to the workshop. Students can get travel scholarships that help pay for transportation to Boston, including the cost of their flights, train or bus fare. More details will be provided to accepted students.

Feel free to share this opportunity with interested eligible students.

Best Wishes,

Workshop Organizers

Center for Communicable Disease Dynamics at Harvard T.H. Chan School of Public Health & the MIDAS Coordination Center at the University of Pittsburgh

Four-Day Bioinformatics Workshops: November 29, 2022 – December 2, 2022 (9 am – 12 pm HST)

 News & Announcements
Nov 252022
 

Bioinformatics Data Science Workshops
Sponsored by the Bioinformatics Core
Department of Quantitative Health Sciences
JABSOM, University of Hawaii at Manoa

*All workshops include theory and hands-on practice

The Bioinformatics Data Science Workshops is a four-day virtual workshop from Tuesday, November 29 to Friday, December 2 from 9 am-12 pm HST. If you are interested in participating, please fill out this form. 

Please Register Here: https://forms.gle/yvZhTCZWVaZzi98T7

World Time Buddy (WTB) is a convenient world clock and a time zone converter: https://www.worldtimebuddy.com/

Workshop Day 1: R Programming for Data Science
Date/Time: 9:00 am – 12:00 pm, HST, Nov 29, 2022

          – Introduction and getting started with R

          – Programming with R

          – Simple exploratory analysis

          – Hands-on walkthrough training

Note: Please install R and RStudio on your computer before the workshop.

Workshop Day 2: Using secondary data

Date/Time: 9:00 am – 12:00 pm, HST, Nov 30, 2022   

         – Pros and cons of secondary datasets

         – Individual datasets

         – Learn tools to locate and download secondary data

         – Analyzing complex survey data

Workshop Day 3: Introduction to Python          

Date/Time: 9:00 am – 12:00 pm, HST, Dec 1, 2022           

        – Basic Python Syntax

        – Python Data Structures and Libraries

        – File I/O

        – Data Wrangling

Workshop Day 4: Introduction to Deep Learning

Date/Time: 9:00 am – 12:00 pm, HST, Dec 2, 2022

        – Theory

        – History

        – Basic Examples using R

        – Published Deep Learning Models using PyTorch

There are a limited number of spots available. ZOOM link will be provided after registration. For questions, please email: yanghua@hawaii.edu

The Chan Zuckerberg Biohub Internship Applications Now Open!

 News & Announcements, Student Research Experience
Nov 142022
 

The Chan Zuckerberg Biohub Internship Applications have opened! 
There are intern postings in the following categories/groups:

  • Arias Group
  • Computational Microscopy
  • Data Science (ID)
  • Data Science (QCS)
  • Jacobo Group
  • Leonetti Group
  • Mass Spectrometry
  • Protein Sciences
  • Royer Group
  • Theory Group

How to Apply:

  1. Go to https://www.czbiohub.org/careers/.
  2. Click on the position you want to apply for.
  3. Click on the “Apply Now” button in the upper right corner.
  4. Fill out and submit the application! 

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