Alex Crits-Christoph

I am currently a graduate student in Microbiology at University of Calfornia, Berkeley.

Interests
Computational analysis of microbial communities; evolution and ecology of microbes and viruses; CRISPR genome editing; bioinformatics software and web development; statistics and machine learning applied to genomics.
My past
BA in Biophysics from Johns Hopkins (2016)
2015-2016 - data analysis @ Second Genome,
2016 summer - genome informatics @ Caribou Biosciences,
2012-2016 - microbial genomics @ DiRuggiero lab at JHU,
2014 - Google Summer of Code.

In the past I have collaborated on individual projects with Marc Halushka, Gary Bader and Mohammed Helmy, and Rachel Karchin. My email and Github are at the top of this page.

Publications

Helmy, Mohamed, Alexander Crits-Christoph, and Gary D. Bader. "Ten Simple Rules for Developing Public Biological Databases." PLoS Comput Biol 12, no. 11 (2016): e1005128.

Crits‐Christoph, Alexander, Diego R. Gelsinger, Bing Ma, Jacek Wierzchos, Jacques Ravel, Alfonso Davila, M. Cristina Casero, and Jocelyne DiRuggiero. "Functional interactions of archaea, bacteria, and viruses in a hypersaline endolithic community." Environmental Microbiology (2016).

Crits-Christoph, Alexander, Courtney K. Robinson, Bing Ma, Jacques Ravel, Jacek Wierzchos, Carmen Ascaso, Octavio Artieda, Virginia Souza-Egipsy, M. Cristina Casero, and Jocelyne DiRuggiero. "Phylogenetic and functional substrate specificity for endolithic microbial communities in hyper-arid environments." Frontiers in Microbiology 7 (2016).

McCall, Matthew N., Alexander S. Baras, Alexander Crits-Christoph, Roxann Ingersoll, Melissa A. McAlexander, Kenneth W. Witwer, and Marc K. Halushka. "A benchmark for microRNA quantification algorithms using the OpenArray platform." BMC Bioinformatics 17, no. 1 (2016): 1.

Crits-Christoph, Alexander, Courtney K. Robinson, Tyler Barnum, W. Florian Fricke, Alfonso F. Davila, Bruno Jedynak, Christopher P. McKay, and Jocelyne DiRuggiero. "Colonization patterns of soil microbial communities in the Atacama Desert." Microbiome 1, no. 1 (2013): 28.

Robinson, Courtney K., Jacek Wierzchos, Celeste Black, Alexander Crits-Christoph, Bing Ma, Jacques Ravel, Carmen Ascaso et al. "Microbial diversity and the presence of algae in halite endolithic communities are correlated to atmospheric moisture in the hyper-arid zone of the Atacama Desert". Environmental Microbiology. (2014).

Projects

DV-IMPACT (Disease Variants' Impacts on Domain-based Protein Interactions) allows users to explore the effects of over 800,000 missense mutations on PPI interactions, as mediated by wildtype and variants protein sequences.

An experimental augmented reality AdBlock, created using a custom head-mounted display and OpenCV image processing with Python. Placed in top 30 hacks @ PennApps. Read more: VICE, Wired, HackerNews Discussion

Aezon - A team of Johns Hopkins students selected as one of 10 finalists in the $10 million Qualcomm Tricorder X-Prize, a competition to built a medical system capable of diagnosing a user of 15 diseases and conditions. I was in charge of development and operations of the servers which store and analyze patient data.