2015  VisREU  midterm  presentation  

 Mentors:  Karan  Sapra,  Dr.  Alex  Feltus,  Dr.  Melissa  Smith    

Visualization  mentor:  Dr.  Jill  Gemmill  

Amari  Lewis    funded  by  NSF  ACI  Grant  No.  1359223  

Project  overview  “Visualization  and  interaction  of  multiple  layers  

of  high  dimensional  biological  data."          

  Maize  and  Rice  networks    

through  gene  interaction  graphs  

  Big  data  

  Sufficient  visualization  

  valuable  information    

 

Retrieving  the  Gene  annotation  

   Utilizing  Ensembl-­‐rest  Application  Programming  Interface,  database  (version  4.2)  

  the  Gene  Ontology  information    Gene  ID:    Description:      Type  of  gene:  independent/dependent  

  Parsing  (.json)  file  in  python  

Goals    Biologists  can  gain  new  informational  about  genes    

  Understanding  systems  genetics    

Vizualization  goal:  gPICTviz    Create  an  interactive  Visualization  tool  for  biologists      High  dimensional      To  visualize  multiple  networks  (10-­‐100  networks)    

  Identify  correct  in-­‐species  gene  mixture  for  crop  improvement    

   natural  breeding  as  an  alternative  to  genetically  modified  organisms.    

Timeline      

  Using  QT  to  create  the  interactive  query  tool    Interact  with  nodes    User  can  send  and  receive  information    Display  text  attribute  window  

  Integrating  with  Kathleen’s  project    

  Faster  results    

  Visualize  multiple  networks  (10-­‐100  networks)    

 

Thank  you  for  listening,  

any  questions?