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Mudita Singhal


Mudita Singhal, portrait
Mudita Singhal

Dr. Singhal is a Senior Research Scientist in the Data Intensive Scientific Computing Group at the Pacific Northwest National Laboratory (PNNL). She has more than seven years of experience working in interdisciplinary teams facilitating requirements analysis, design and data analysis and has authored and co-authored more than 25 peer-reviewed journal and conference publications. Her expertise is in the areas of user interfaces, visual analytics, and applied machine learning. Her current research focuses on developing visual paradigms for high-volume data. She has contributed significantly to several publicly available tools, including the Complex Pathway Simulator (COPASI), Bioinformatics Resource Manager (BRM), the Peptide Permutation and Protein Prediction (PQuad), and the Collective Analysis of Biological Interaction Networks (CABIN) softwares as well as prediction algorithms such as DomainGA , domainSVM and imPredict.


  • Ph.D., Computer Science, Washington State University, 2007
  • MS, Computer Science and Applications (with Bioinformatics option), Virginia Tech, 2003
  • BE, Computer Science and Engineering, MMEC, Kurukshetra University, India, 2001

Honors and Awards

  • Finalist, Analytics Challenge, Supercomputing 2006
  • First Prize, IN-SPIRE InfoVis 2004 Contest Entry
  • Graduate Research Assistantship, Virginia Bioinformatics Institute, Virginia Tech, 2001-2003
  • New Student Representative, Graduate Council, Virginia Tech, 2001-2002
  • Certificate of Excellence for outstanding performance, NIIT, India, 1999-2001
  • Graduated with honors, Kurukshetra University, India, 1997-2001

Selected Publications (out of 28)

Singhal M, Domico K. 2007. "CABIN: Collective Analysis of Biological Interaction Networks." Computational Biology and Chemistry, 31(3): 222-225.

Singhal M, Resat H. 2007. "DomainGA: Optimizing domain-domain interaction scores." BMC Bioinformatics 8:199.

Webb-Robertson BM, Peterson ES, Singhal M, Klicker KR, Oehmen CS, Adkins JN, and Havre SL. 2007. "PQuad - A visual analysis platform for proteomic data exploration of microbial organism." Bioinformatics. 23(13):1705-7.

Shah A, Singhal M, Klicker KR, Stephan EG, Wiley HS and Waters KM. 2007. "Enabling high throughput systems biology: The Bioinformatics Resource Manager." Bioinformatics 23(7):906-909.

Waters KM, Singhal M, Webb-Robertson BM, Stephan EG, and Gephart JM. 2006. "Breaking the High-Throughput Bottleneck: New tools help biologists integrate complex datasets." Scientific Computing 23(4):22-26.

Contact Information

Systems Biology at PNNL

Research & Capabilities