News

2017

December 2017
Ibrahim Youssef's and my abstract on Integrating Protein Localization Information in Signaling Pathway Reconstructions was accepted at the ROCKY Bioinformatics Conference, where I will be giving a flash talk and a poster.
November 2017
Our paper Differentially Private ANOVA Testing. was accepted at ICDIS 2018. Congratulations to first author Zachary Campbell '18 and the other co-authors Adam Groce and Andrew Bray!
I will be attending the twenty-sixth Murdock College Science Research Conference in Spokane, with other Reed faculty and students.
October 2017
Congratulations to my collaborator George Thomas at OHSU - our paper Metabolic reprogramming ensures cancer cell survival despite oncogenic signaling blockade was accepted in Genes & Development.
The paper titled Programming the Central Dogma: An Integrated Unit on Computer Science and Molecular Biology Concepts has been accepted at SICGSE 2018. Thanks to the students for providing valuable feedback on the Bio131 unit.
I gave a Systems Science seminar at Portland State University.
I gave a Biology seminar at Lewis and Clark College.
September 2017
Derek Applewhite and I co-organized the second Pacific Northwest Quantitative Biology (PacNow QB) Symposium on Friday, September 22. We arranged a great lineup of speakers, and had some excellent student poster presentations.
August 2017
I am teaching Bio331: Computational Systems Biology.
The group went to ACM-BCB in Boston! My postdoctoral researcher Ibrahim Youssef presented a poster titled Breaking Ties in Weighted Interactomes. Students Gio Ramirez and Nick Egan also attended.
Check out the CREU team's blog, The Pathway Not Taken (kudos to Alex King for the name).
July 2017
I went to ISMB/ECCB in Prague - what a great meeting.
  • I presented a poster on Hyperpath Relaxations for Signaling Pathway Analysis, which is co-authored with Adam Groce and Jim Fix in the CS Department and former students Nick Franzese and Barney Potter.
  • I lead a discussion at the Computational Biology Education (CoBE) BOF.
  • I was on the 2017 Career Central Session panel on Essential Skills and Networking Advice for Early-Career Researchers.
Chris Lydgate wrote a blog post about Derek's and my NSF grant: Bio Profs Win NSF Grant to Study Shapeshifting Cells
I was on the Award Selection Committee for the ACM-BCB 2017 Student Travel Grant. Congratulations to the winners!
June 2017
Ibrahim Youssef's poster abstract was accepted to ACM-BCB! He will present the poster, titled Breaking Ties in Weighted Interactomes, in Boston at the end of August.
Derek Applewhite's and my NSF grant has been funded! The grant is titled RUI: Investigating the Molecular Mechanisms of Non-muscle Myosin II Contractility. Congratulations to the PI, Derek Applewhite.
We received funding from CRA for a collaborative REU project! The project, titled Graph-Based Semi-Supervised Learning to Predict Genes Associated with Schizophrenia, will support student research for the next academic year. Congratulations to the co-PI Derek Applewhite and the two students on the team, Miriam Bern and Alex King!
The GraphSpace paper has been accepted to Bioinformatics! Congratulations to all my collaborators on that paper (in Computer Science, Human Computer Interaction, Biology, Mathematical Modeling, and Statistics. Talk about interdisciplinary!)
Check out Bio131's final projects on the class website.
May 2017
I visited UC Davis and Stanford for workshops on careers in the liberal arts.
I will be presenting a poster at the NetBio track of ISMB titled Hyperpath Relaxations for Signaling Pathway Analysis, co-authored by Nick Franzese, Barney Potter, Adam Groce, and Jim Fix.
We received summer student funding to work on a thesis database supported by the Summer Scholarship Funds at Reed College.
Congratulations to the graduating seniors!
  • Moira Differding's thesis is titled Your Microbes are Super Models: Using Microbiome Data to Reproducibly Predict Crohn's Disease
  • Nick Franzese's thesis is titled Examining the Practicality of Shortest Hyperpaths for Signaling Pathway Analysis: The Cheating Hyperpath Algorithm as an Alternative Approach
April 2017
I am attending the NCWIT Regional Award Ceremony for the high school Aspirations in Computing award. Congratulations to the award winners!
March 2017
I reviewed poster submissions for the Grace Hopper Celebration - good luck applicants!
I reviewed applications for the Grace Hopper Celebration Faculty Scholarships - good luck applicants!
I attended a CRA-Women's Early Career Mentoring Workshop in Seattle.
I attended SIGCSE 2017 in Seattle.
February 2017
Ibrahim gave a talk at the Biology Department seminar about mathematical models of disease outcome analysis in cancer.
I gave a guest lecture in Topics in Biology (Bio102) about the computational challenges of de novo genome assembly.
I am reviewing applications for the NCWIT College Award - good luck applicants!
I am a co-chair of the Biologial Modeling track of ACM-BCB'17.
January 2017
Welcome Ibrahim Youssef, a new postdoctoral researcher in my lab.
Spring classes have commenced! I am teaching Introduction to Computational Biology (Bio131) and a seminar on Computational Cancer Biology (Bio431).
Bio331 Final Projects are posted on the course web page - nice work everyone.

2016

December 2016
Classes are Complete! Enjoy Winter Break.
November 2016
PathLinker made it on the Top Ten Papers Reading List 2015-2016 at the RECOMB/ISCB Conference on Regulatory & Systems Genomics in Phoenix earlier this month.
I attended the Murdock College Science Research (MCSR) Conference in Spokane, WA co-hosted with Gonzaga University.
October 2016
I gave a talk at the Mathematics and Statistics Seminar at Washington State University (WSU) Vancouver.
Congratulations to Barney Potter for receiving the Best Poster Award at ACM-BCB!
I brought my Computational Systems Biology class to ACM-BCB in Seattle! Thanks to the organizers for putting together such a great opportunity.
I chaired a session at ACM-BCB.
August 2016
Fall classes have commenced! I am teaching Computational Systems Biology (Bio331).
Congratulations to current student Karl Menzel and recent graduates Barney Potter and Nicole Ezell for getting poster abstracts accepted to ACM-BCB!
  • Karl Menzel, Suzy CP Renn, and Anna Ritz. Copy Number Variation and Adaptive Evolutionary Radiations across the African Cichlid phylogeny.
  • Barney Potter, James Fix, and Anna Ritz. Modeling Cell Signaling Networks with Prize-Collecting Subhypernetworks.
  • Nicole Ezell and Anna Ritz. Reconstructing Neuronal Signaling Pathways With the Potential for Disruption in Schizophrenia.
July 2016
I attended ISMB in Orlando
July 2016
I am attending ISMB in Orlando - looking forward to some great talks!
Looking for a job? We are accepting applications for a postdoctoral researcher in computational biology. Please see the announcement and the job posting. Send me any questions you may have.
June 2016
An NSF proposal for student conference travel was funded! The grant is titled A Course-Based Undergraduate Conference Experience in Computational Biology.
I gave a talk at Carleton College.
May 2016
I visited collaborators at Virginia Tech, supported by the Summer Scholarship Funds at Reed College.
I visited UC Davis and Stanford for workshops on careers in the liberal arts.
Apr 2016
Classes are complete! Happy Renn Fayre.
My work on signaling pathway reconstructions was written up in a press release at Virginia Tech. Congratulations to all my PathLinker co-authors.
I am a member of the Poster Committee for the Grace Hopper Celebration of Women in Computing Conference (GHC) 2016.
I am on the Program Committee for the 7th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB) 2016.
I received Summer Scholarship Funds from Reed College to visit collaborators at Virginia Tech.
I attended the National Center for Women in Information Technology (NCWIT) Aspirations in Computing Regional Awards reception at Lewis and Clark College. Congratulations to the award recipients!
I was on an Open Access Panel as part of the Digital Scholarship Week at Reed.
Mar 2016
My computer lab was on display when I hosted tours for the high school Junior Visit Day at Reed.
Congratulations to Kara Cerveny and Suzy Renn for receiving grant funding! Our success with Murdock and NSF grant awards were written up in the Reed Magazine.
A grant proposal submitted to the Murdock College Research Program for Natural Sciences was funded! The project's title is Developing Computational Methods to Identify Candidate Driver Genes Involved in Signaling Pathway Dysregulation in Colorectal Cancer. That's a mouthful.
The PathLinker paper is now available online at NPJ Systems Biology and Applications.
Feb 2016
I attended an NSF Grants Conference hosted by Portland State University.
Jan 2016
Spring classes have commenced! I am teaching two sections of Introduction to Computational Biology (Bio131).
I am on the program committee of the RECOMB Satellite Workshops on Massively Parallel Sequencing (RECOMB-Seq) and Computational Cancer Biology (RECOMB-CCB) 2015.
Looking to do summer research? I updated my webpage with opportunities and the CompBio Lab.
I am on the program committee of the RECOMB satellite workshops on Massively Parallel Sequencing (RECOMB-Seq) and Computational Cancer Biology (RECOMB-CCB).

2015

Dec 2015
Classes are done! Enjoy Winter Break.
Nov 2015
Our paper on PathLinker has been accepted to NPJ Systems Biology and Applications! Congratulations to my co-authors Chris Poirel, Allison Tegge, Nick Sharp, Allison Powell, Kelsey Simmons, Shiv Kale, and T. M. Murali.
Oct 2015
I attended a Bioinformatics and Genomics Workshop at Reed.
Sept 2015
I attended the Pacific Northwest Quantitative Biology Meeting at OHSU.
August 2015
Reed classes have commenced! I am teaching Introduction to Computational Biology (Bio131) and Computational Cancer Biology (Bio431).
July 2015
Our paper on signaling hypergraphs has been accepted to IEEE Transactions on Computational Biology and Bioinformatics (TCBB)! Congratulations to my co-authors Brendan Avent and T. M. Murali.
June 2015
I am on the program committee of the 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB) 2015
May 2015
I gave a talk at the ICTAS Center for Systems Biology of Engineered Tissues (ISBET) Workshop at Virginia Tech
I led a Bioinformatics session at the 17th Annual Women in Computing Day at Virginia Tech. The Association for Women in Computing put on a great event.
I gave a chalk talk at Reed College about student thesis ideas.
March 2015
I gave a talk at the SIAM seminar at Virginia Tech
February 2015
I gave a talk at the University of Kansas
January 2015
I gave a talk at the BioFrontiers Institute at CU Boulder

2014

December 2014
I gave a talk at Reed College
November 2014
I gave a talk at the RECOMB/ISCB Conference on Regulatory & Systems Genomics (San Diego, CA)
September 2014
I gave a talk at the ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (Newport Beach, CA)
October 2014
I gave a talk at the Virginia Tech Computer Science Department seminar
I helped out at a community STEM workshop for middle school girls sponsored by the Wytheville American Association of University Women (AAUW) Chapter.

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Contact

Biology Department
Reed College
3203 SE Woodstock Blvd.
Portland, OR 97202-8199

Email aritz-at-reed-dot-edu

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