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ChipSeq Analysis Team Members: Wen-Han Pang, Natalia Shatokina Faculty Advisor: Dr. Russ Abbott, Dr. Sandra Sharp California Institute of Technology Liaison: D epartment of Computer Science College of Engineering, Computer Science, and Technology California State University, Los Angeles. - PowerPoint PPT Presentation

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RESULT ChipSeq Analysis Team Members: Wen-Han Pang, Natalia Shatokina Faculty Advisor: Dr. Russ Abbott, Dr. Sandra Sharp California Institute of Technology Liaison: Department of Computer Science College of Engineering, Computer Science, and Technology California State University, Los Angeles INSIGHTS STEP BY STEP STEP BY STEP INTO DNA! intersection between any of number of regulator binding site data files, which could scale up to 23,000 records per files DNA MODEL Regulato r Protein Find the spatial relationship between regulator binding site and gene model, which range from WHOLE GENOME downstream upstream Find the gene model over / under certain RNA strength threshold through out the Genome RDBMS Schema Javascri pt Dynamic Uploadin g JSP/ JDBCReal Time/ Interact ive Interfac e Create/ Delete Tables On The Run AJAX Real Time Input Feedback Raw Data .xls, .txt format A RDBMS APPROACH A CLOUD COMPUTING APPROACH Hadoop File System Multiple Nodes Cluster Map-Reducee Program Function Programming Pig Data Flow Framework Query- Based Map- Reduce Picture Credits: Gordon Kwan, UTMB Cell Biological Graduate Program

Transcript

RESULT

ChipSeq AnalysisTeam Members: Wen-Han Pang, Natalia ShatokinaFaculty Advisor: Dr. Russ Abbott, Dr. Sandra Sharp

California Institute of Technology Liaison: Department of Computer Science

College of Engineering, Computer Science, and TechnologyCalifornia State University, Los Angeles

INSIGHTS STEP BY STEPSTEP BY STEP INTO DNA!

intersection between any of number of regulator binding site data files, which could scale up to 23,000 records per files

DNA MODEL Regulator Protein

Find the spatial relationship between regulator binding site and gene model, which range from WHOLE GENOME

downstreamupstream

Find the gene model over / under certain RNA strength threshold through out the Genome

RDBMS

Schema

Javascript Dynamic Uploading

JSP/JDBCReal Time/ Interactive Interface

Create/Delete Tables On The Run

AJAX

Real Time Input Feedback

Raw Data

.xls, .txt format

A RDBMS APPROACH

A CLOUD COMPUTING APPROACH

Hadoop File System

Multiple Nodes Cluster

Map-Reducee Program

Function Programming

Pig Data Flow Framework

Query-Based Map-Reduce

Picture Credits: Gordon Kwan, UTMB Cell Biological Graduate Program

RESULT

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