Bioinformatician/Computational Biologist
Resume:
Gokhul Krishna Kilaru
*** ******* ******, *****#***, Indianapolis, IN 46202
Phone (703) 944 – 8311, Email: *******************@*****.***
> Master of Science in Bioinformatics, graduate with 2+ years of research experience in algorithm design and development, high-dimensional data analysis, database development, workflow enhancement, interface and applications design.
> Bachelor of Technology in Biotechnology, with 4+ years of research experience in various biological fields.
> Proficiency in analyzing, modeling and monitoring clinical, biological and research data using bioinformatics skill sets.
> Exposure to different aspects of data analysis and quality control protocols.
> Fast-learner, team-worker, flexible and adaptable to different roles.
> Understanding scientific user needs, translating them into technical requirements, and implementing efficient data management solutions.
OBJECTIVE:
Seeking a challenging and continuous learning environment in the field of high-dimensional biological data analysis and management, to apply my bioinformatics and data analytical skills, for a successful research career and the growth of organization.
EDUCATION:
Master of Science, Bioinformatics Expected May 2011 IU School of Informatics, Indianapolis, IN GPA- (3.9/4.0), Dean’s List
Thesis Advisor – Dr. Mathew J. Palakal
Bachelor of Technology, Biotechnology May 2008
Jawaharlal Nehru Technological University, India GPA – (3.8/4.0)
SKILL SET:
> Languages & Scripts: R, PERL, JAVA, SQL, PHP, HTML,CSS, XML, LAMP
> Platforms: UNIX, Win XP/2000/Vista/7, Macintosh OSX.
> Tools: FASTA, Blast, Clustal W, SPSS, Spotfire, BioMAP, Genome Browser, Ensembl, Waters Vision Publisher, Nugenesis SDMS, GENEGO, INGENUITY
> Network Analysis Tools: Pathway studio, Cytoscape, Visant, MetaCore, Gephi, Network workbench, Pajek, Cell Illustrator, Knowledge Editor
> NGS Tools: BWA, Samtools, GATK, SIFT and POLYPHEN
> Database: MySQL, Oracle, SQL Server 2005, MS Access and MS Excel
RESEARCH WORK EXPERIENCE:
> Research Assistant – Indiana University, School of Informatics (Jan 09 – Present)
* Thesis titled “Use of apriori knowledge in assessing the prediction performances of bayesian networks.” (Accepted to ACM-2011, Bioinformatics Conference, Chicago, Illinois and under review at 2011 IEEE International Conference on Bioinformatics and Biomedicine (BIBM11))
* Gene expression and sequence data analysis obtained from GEO, GXD & SMD.
* Mapping biological pathways to literature mined protein–protein associations.
* Developed protein-protein interaction algorithm using literature mining protocols and machine learning methods.
* Quality analyst, data mining specialist for protein-protein interaction algorithm.
* Bioinformatics support and performance developer for Bio-Map tool.
* Analysis of biological networks constructed from omics data.
* Modeling biological pathways using different software tools.
* Data analysis and visualization specialist for research articles.
> Research Technician/Database Developer – IU Dept. of Hepatology (Apr 09-Aug 09)
* Database developer and interface designer for clinical research data.
* Informatics support for smooth information retrieval, methodology enhancement and data flow.
* Used MySQL, SQL Server, JAVA and MS ACCESS.
> Data Analyst – IU Dermatology, IU School of Medicine (Mar’09 – Feb’10)
* Worked on collecting, analyzing and managing clinical data related to the on-going research in the department.
COURSE PROJECTS:
> Biological Database Management:
* Designed and semantically integrated a comprehensive human pathway database which facilitates a semantic level integration of human signaling pathways, regulatory networks, and protein-protein interactions (in-info-web4.informatic.iupui.edu/~gkkilaru/p1.html).
* Knowledge of concepts on database structure, design and management along with data normalization has been acquired as a part of the course syllabus.
> Scientific and Clinical Data Management:
* “Adding knowledge to Human Protein Reference Database” – Database is constructed using SQL Server 2008, data was processed using MS Excel, Spotfire has been used to visualize and interpret the results. Documentation and progress has been monitored continuously using Waters Vision Publisher.
> Introduction to Bioinformatics:
* “Diabetes Protein Repository” – Using 7 different sources of proteins, genes and drugs associated with the causation of diabetes, a database using MySQL was developed with a web-interface, designed using HTML, PHP and JAVA. Database was automatically curated through PERL parsing.
> Algorithms in Bioinformatics:
* “Data mining approaches to predict protein-protein interactions”- Used WEKA tool for classifying large datasets and adopted various classifiers to train and predict the protein-protein interactions using their patch scores. The approach proved random forest as the best classifier to predict the protein-protein interactions. Had hands on experience on several algorithms including Smith Waterman Algorithm.
> Bio Statistics:
* Experience on working with different statistical models of SPSS and SAS on large and complex biological datasets.
> Undergraduate Projects:
* “Comparative Sequence Analysis and docking studies of Haemophilus Influenza subtypes” – Identified the evolutionary relationship between the subtypes of Influenza by using BLAST, ClustalW, RAMPAGE, and SPDBV. Identified 2 important lead molecules by performing docking studies.
* “Identification of aflatoxins in food products using High Pressure Liquid Chromatography (HPLC)” – Identified different types of aflatoxins present in food products such as Cashews, Fruit Juices and Milk Powders using High Pressure Liquid Chromatography protocols at Sipra Labs, India.
ACADEMIC ACTIVITIES:
> Presented a poster on “Edge weighted networks and their marriage to biology” at IUPUI
> Presented a poster on “A web-system to identify novel protein-protein interactions” at IUPUI.
> Presented a poster on “Frontiers in Genetics and Biotechnology – Retrospect and Prospect”, organized by Department of Genetics in 2007 at Osmania University, India.
> Presented a review paper on “Molecular docking of colorectal cancer proteins” at Osmania University, India.
> Presented review papers and posters at various National Level Biotechnology Symposiums.
PRACTICAL TRAINING
* Underwent in plant training in manufacturing facility at Sipra Labs Limited, India.
WORKSHOP
* Participated in a workshop held by Indian Institute of Technology, Chennai ,TN, on
“Nanotechnology”.
ACTIVITIES
* Media coordinator (2010 – Present), Greater Indianapolis Telugu Association (GITA)
* Chairman (2010-Present), Indian Students Advisory Council, IUPUI, Indianapolis, IN
* Co-chair (2009-Present), Media & PR, Telugu Association of North America (TANA), USA
* President (2009-2010), Indian Students Advisory Council, IUPUI, Indianapolis, IN
* Member of Heifer International, a volunteer organization at IUPUI.
LANGUAGES
* Fluent in English, Hindi, Telugu
REFERENCES
* Dr. Mathew J. Palakal,
Professor of Informatics and Computer Science,
719 Indiana Ave., WK 305,
Indianapolis, IN 46202,
Ph: 317-***-****, E-mail: ********@*****.***
* Dr. Naga P. Chalasani,
Professor of Medicine, Chief, Gastroenterology/Hepatology Division,
Regenstrief Health Center, Room 4100, 1050 Wishard Blvd,
Indianapolis, IN 46202,
Ph: 317-***-****, E-mail: ********@*****.***
* Dr. Narayanan B Perumal,
Assistant Professor, Bioinformatics,
719 Indiana Ave., WK 311,
Indianapolis, IN 46202,
Ph: 317-***-****, E-mail: ********@*****.***
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