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2012 Summer Internship

Lijian Cui

Lijuan received her Master's degree in Plasma Physics from the Dalian University of Technology, China, and a second M.S. degree in Electrical and Computer Engineering (ECE) from the University of Oklahoma (OU).  Now, she is pursuing her Ph.D. in ECE at OU. She has a broad range of research interests including Information Theory, Image/Video processing, Machine learning and privacy. She is involved in many NSF and Oklahoma State-funded research programs, such as distributed source/video coding and commercial vehicle tracking on inter-state highways. She is also interested in the privacy-related research, such as privacy preserving smart metering and distributed model learning without data sharing.

Presentation: Privacy-Preserving Data Compression - View video

Glenn Dayton

Glenn will graduate La Jolla High School in June. He became interested in programming his Junior year (2 years ago) after taking an AP Computer Science course (taught with Java). Glenn was an intern last year at the Supercomputer center with REHS under the direction of Dr. Brian Chapman. Glenn is an Eagle scout from Troop 506. He enjoys hiking, reading, programming websites, and making tutorials.

 Presentation: Twisted ConText NLP Application - View video

Stephanie Feudjio-Feupe

Stephanie earned a Bachelor of Science in Computer Sciences at the African Institute of Computer Sciences with a minor in Network Administration. Stephanie also received her Master's degree in Bioinformatics and Medical Informatics at San Diego State University. During the course of her training, she developed a unique skillset that includes exceptional interpersonal communication, team building, computer programming (including Python and Matlab), and bioinformatics analysis (including sequencing, sequence analysis, data mining, and classifications methods).

Presentation: Integrating, Sharing, and Analyzing Data toward Personalized Diabetes Care - View video

Alec Garza-Galindo

Alec is earning his Bachelor of Science in Computer Science and Electrical Engineering from the Massachusetts Institute of Technology in Cambridge, MA.  His undergraduate work experience has mainly been in back-end design of websites, but he would like to gain experience in the field of computational biology.  He is currently working with the Alexander-Katz group in the Department of Materials Science and Engineering at MIT to parallelize their simulations of particle interactions with the lipid bilayer.  He will be returning to MIT to get his M. Eng in Bio-Electrical Engineering and Computer Science in the fall of 2012.

Presentation: Linked Data Filtering and Estimation of Missing Values Using the Savitzky-Golay and Kalman Filter - View video

Gwendolyn Gillingham (Gwen)

Gwen is a fourth year PhD student in Linguistics at UCSD, with an undergraduate degree in Linguistics and Psychology from McGill University in Canada. Her research focuses on Semantics and Pragmatics - the meaning of language, and the information it conveys in context. She approaches this study from both theoretical and experimental standpoints. Her current research focuses primarily on the interpretation of emphatic pronouns.

Although she is a Linguist by training, she has been an amateur programmer for more than a decade. This has allowed her to contribute in the past to a variety of projects involving natural language data (from her first job at the Canadian Musical Heritage Society, where she independently developed a method for classifying the language of very short texts; to her later involvement with Modéliser le changement - Les voies du français, a project curating a corpus of Historical French). She is thrilled to now be able to put these talents to use to help people with respiratory ailments - a set that contains many of her family members.

In her spare time, she enjoys tinkering with her bike, making fun of her cat, ranting about American politics, and secretly planting vegetables in abandoned lots.

Presentation: Content Analysis of Asthma-Related TweetsView video

Matthew Hong

Matthew is an undergraduate student studying Cognitive Science and Human-Computer Interaction at University of California, San Diego. Currently, Matthew is an honors student and a researcher at the Distributed Cognition and Human-Computer Interaction (DCOG-HCI) Lab. His research interests span the areas of human cognition and HCI, including cognitive psychology, distributed cognition, multimodal analysis, ubiquitous computing, and information visualization; with an aim to integrate digital information and physical world in a seamless fashion. 

Presentation: User Studies for Schema Builder - View video

Mayuko Inoue

Mayuko is currently pursing her Bachelor of Science in Computer Science at the University of California, San Diego. She currently works as the Research Project Assistant at the UCSD Division of Biomedical Informatics. Her research interests include usability in human computer interactions. She enjoys playing tennis, doing Aikido, and playing the violin. 

Presentation: Visualization of MicroRNA Sequence Data Analysis - View video

Elizabeth Johnstone

Elizabeth earned her Bachelor of Science from Winona State University in Winona, MN, in Environmental Biology and Ecology, with a minor in Biochemistry. She is currently a student in the Master's of Public Health program at the University of Minnesota, in Minneapolis, MN. She focuses on toxicology and risk analysis. During her undergraduate years, Elizabeth worked at USGS investigating gene expression changes in male yellow perch that were exposed to phyto-estrogens via soymeal in the diet. Currently, Elizabeth holds a research assistant position at the University of Minnesota in the department of Plant genetics, conducting qPCR on genes indicative of color changes in the Norland species of potato. Elizabeth enjoys reading, cooking, and hiking. 

Presentation: Electronic Informed Consent - View video

Bethany Keffala

Bethany earned her Bachelor of Arts in Linguistic and Cognitive Sciences at Bryn Mawr College in Bryn Mawr, PA, and she is currently a graduate student in Linguistics at UC San Diego. Between her undergraduate and graduate studies, she was an English language assistant at a teacher training college in Metz, France. Her graduate work focuses on questions in phonological knowledge and acquisition, how sound systems are organized within the minds of speakers, and how learners arrive at this organization. She is interested in psycholinguistic methods. Her Master's thesis used methods in experimental syntax to investigate the acceptability of resumptive pronouns in a set of syntactic environments in English. Her hobbies include cooking and baking, collecting linguistically interesting utterances, exploring outside, and tinkering with design in her apartment. 

Presentation: Content Analysis of Syndromic TweetsView video

Seyed Hamid Mirebrahim (Hamid)

Hamid earned his Master of Science in Computer Science and Engineering at Amirkabir University of Technology, Tehran, Iran. His work focused on wireless ad-hoc networks during his master studies. Hamid joined "Algorithms and Computational Biology" lab in the department of CSE at UCR in 2010. His research interests include applications of data mining in bioinformatics, NGS computational challenges and computational population genetics. Hamid has been involved in projects like assembly of NGS reads to study of epigenetic signatures of Malaria parasite and sequencing barley genome at UCR. 

Presentation: A Taverna Workflow Engine for Detecting Novel microRNAs - View video

Matthew Muñoz

Matthew earned his Bachelor of Science in Biotechnology from UC Davis and will earn his Master of Science in Bioinformatics and Medical Informatics from San Diego State University in May. At UC Davis, Matthew worked in a plant biology lab focused on gene expression in seed development. Matthew is currently working on a project comparing the phylogenies of genes and their regulatory sequences. He also enjoys political philosophy.

Presentation: Whole Genome rVISTA: Identification of Transcription Factors for Co-Regulated Genes - View video

Mark Myslín

Mark earned his Bachelor of Arts in Linguistics at UC Santa Barbara. He is currently a second-year PhD student in Linguistics and Cognitive Science at UC San Diego, and works in the Computational Psycholinguistics Lab. Mark is interested in the convergence of cognitive psychology, computational linguistics, and everyday discourse and interaction as a primary locus of language usage. Mark is also interested in the linguistic and real-world expectations speakers bring to these situations based on experience and memory, as well as the fine, instant-by-instant (re-)alignments characteristic of the collaborative process that is conversation. Mark's current projects address the predication of grammatical choices on information flow in discourse using a variety of computational and psycholinguistic methodologies.

Presentation: Twitter for Tobacco Surveillance - View video

Shashank Sathe (Shas)

Shas is a graduate student in Bioinformatics & Medical Informatics at the San Diego State University. He completed his Bachelor of Science in Bioinformatics at the Dr. D.Y.Patil University, India. Shas is largely interested in research work and is comfortable with many programming languages including PERL, SQL, Java, C, and C++. Shas also has experience working with bioinformatics tools for genome analysis, etc.  His senior year undergraduate research project mainly focused on Medical Informatics, in part developing a Hospital Management System for hospitals in India. Currently Shas is working with Professor Dinsdale at SDSU, where the focus is on analysis metagenomes. Shas is an avid soccer fan, and loves cycling, playing soccer, and reading.

Presentation: DOSSIER- Decision Support for Breast Cancer Treatment - View video

Afrah Shafquat

Afrah is a 4th year undergraduate at MIT, majoring in Biological Engineering. Her past research experiences involve automated analysis of cellular signals from calcium imaging data of slices, analysis of the EM algorithm being used to identify the zinc finger binding motifs, and research on the structure and function of Rag GTPases hetrodimer. Afrah is involved in the Addir Interfaith Group at MIT, and also an active member of the PaksMIT Students Organization (where she served as Vice-President for a year). Afrah enjoys watching movies and spending time at the beach.

Presentation: Segmentation and Analysis of Ventricles under Pumonary Hypertension - View video

Karapet Shaginyan (Karo)

Karo earned his Bachelor of Science in Computer Science from the University of California, Los Angeles in 2011 and is now pursuing a Master of Science degree in Computer Science from the University of California, Los Angeles. He is expected to graduate in 2013. Broadly, he is interested in the synergy between mathematics and computer science. More specifically, he is interested in algorithm design and analysis, data structures, and AI search algorithms. Some of his recent projects include valid anagram detection using the entire contents of Wikipedia as a data set. His current research interests include developing various models for AI search algorithms. In the current literature, AI search algorithms are measured by time and space complexity. He hopes to extend the models using communication complexity. When away from his desk, he enjoys running and traveling.

Presentation: Distributed Logistic Regression: Building Models without Sharing Data - View video

Jianlin Shi

Jianlin earned his Bachelor of Arts, Master of Science, and MD in Sichuan University, China. After graduation, Jianlin practiced surgery as a resident and chief resident in West China Hospital, Sichuan University for five years. During that time, Jianlin also conducted several clinical trials, but found he was more interested in the medical informatics field. Last year, Jianlin enrolled an informatics masters program. Jianlin also began to pursue EMR-related research with Professor Chen. Jianlin enjoys sharing ideas with other people, graphic design, and basketball.

Presentation: Understanding How Clinicians Would Like to Visualize a Patient's Medical Course - View video

Emily Silgard

Emily received a Bachelor of Arts in Linguistics from the University of Massachusetts and is enrolled in a Master's program at the University of Washington, studying Computational Linguistics. She is interested in bringing Natural Language Processing techniques and tools to a wide variety of domains in order to improve information processing and extraction. When she's not in school, she's coaching strength and conditioning classes.

Presentation: Temporal Relation Extraction from Clinical Discharge Summaries - View video

Karen Truong

Karen is a first-year undergraduate at the University of California, Los Angeles, studying Computer Science and Engineering. She serves on the outreach committee for the Society of Women Engineers and is a general member of IEEE at UCLA. During the California State Summer School for Mathematics and Science at UC San Diego, she studied erythrocytes and the tensegrity model of their junctional complexes with professors in the Jacobs School of Engineering, highlighting her interest in using computer science for biological purposes. She hopes that this internship will provide her with even more experience in the bioinformatics industry. In her free time, Karen enjoys music, playing tennis, and traveling. 

Presentation: Text Classification of dbGaP Studies - View video

Michael Tyler

Michael Tyler is presently an undergraduate student at Carnegie Mellon University, double majoring in Computer Science and Cognitive Science.  At CMU, Michael is currently working on a research project implementing a large-scale simulation of human behavior (using Python scripting alongside the Blender 3D content creation suite) which is used to test interactive robots.  Michael's true passion lies in machine learning and data mining.  Michael hopes to use his Computer Science research skills to help prevent, treat, and ultimately find a cure for diabetes.  When not studying, Michael enjoys working behind the scenes at theatre production shows, and participating as the club ambassador of Vermillion, which involves Japanese culture appreciation through video and art.

Presentation: Finding Patterns within Blood Glucose Time-Series Data - View video

Tao Wang

Tao received his Bachelor of Science with Honors in Computer Science from the University of Auckland, New Zealand. After working in the industry as a software engineer for six years, he moved to US and started his PhD at the Department of Informatics, University of California Irvine in 2011.  Tao's research interest is in Human Computer Interaction, and specifically on assistive technology. His passion for research is driven by the desire to alleviate everyday problems faced by people with physical or mental disabilities, or people with impaired abilities due to aging. In his spare time, Tao enjoys running and traveling.

Presentation: Interface for Clinical Temporal Data - View video