News Archive

  1. August 2017: We have two papers accepted to Briefings in Bioinformatics, one to the Middleware conference, and one to Theranostics. See under "Publications".

  2. June 2017: I gave a talk at the IFIP Working Group 10.4 workshop in Longmont, Colorado on the topic of "The Fault Tolerant Epigenome & its Data Profile". The working group comprises leading researchers and practitioners in the area of dependable computing and meets for two workshops each year. [ pdf ] [ WG web site ]

  3. March-June 2017: We have 3 papers accepted or under minor revision. They are on federation in bioinformatics cyber infrastructures (Briefings in Bioinformatics), genome editing (Theranostics journal), and parallelization of de novo genome assembly (ACM BCB). [ html ]

  4. January 2017: I am serving on the Organizing Committee and Program Committee of the 10th IEEE International Conference on Communication Systems and Networks (Comsnets) to be held Jan 3-7 in Bangalore, India.  [ html ]

  5. September 2016: A new graduate student Ashraf Mahgoub joins our team as a Graduate Research Assistant. He will be working on the NIH R01 project with Argonne. Ashraf comes to us with a Masters from Cairo University, Egypt. Here is a brief profile. [ html ]

  6. February 2016: Our NIH R01 proposal titled "Continued development and maintenance of the MG-RAST metagenomics pipeline" has just been funded for 5 years. This is joint between us at Purdue and Argonne National Lab (Folker Meyer). This came out of NIAID and the total budget is about $3.7M.
  7. November 2016: Our paper is accepted to Nature Scientific Reports. It is on using Deep Neural Network to predict the location of regulatory elements called enhancers. The paper is titled "EP-DNN: A Deep Neural Network-Based Global Enhancer Prediction Algorithm" and co-authored by Seong Gon Kim, Mrudul Harwani, Ananth Grama, Somali Chaterji. Here is the paper. [ pdf ]

  8. July 2016: The kickoff meeting for our NIH R01 project happened at Argonne National Lab near Chicago. [ picture (jpg) ]

  9. June 2016: Our BMC Systems Biology paper is accepted. It is on predicting genomic enhancers by doing deep learning and further shows how the results of the data analytic classifier can be made interpretable. [ Paper (in pdf) ]

  10. June 2016: Our BMC Systems Biology paper is accepted. It is on predicting genomic enhancers by doing deep learning and further shows how the results of the data analytic classifier can be made interpretable. [ Paper (in pdf) ]

  11. March 2016: Our ICS paper on a domain specific language for genomics applications has just been accepted. It is titled "SARVAVID: A Domain Specific Language for Developing Scalable Computational Genomics Applications" and is authored by Kanak Mahadik, Christopher Wright, Jinyi Zhang, Milind Kulkarni, Saurabh Bagchi, and me, and is 13 pages long. 32 of 183 submissions were accepted, for an acceptance rate of 17.5%. [ Paper in pdf ]

  12. November 2015: The CS news story on our best paper award at ACM BCB is up now. This was our award for the paper that deciphers interactions between microRNAs and genes using sequence and thermodynamic features in a distributed SVM. [ News story ] [ pic ]

  13. October 2015: I huffed and puffed and completed my first half marathon. This was at the Purdue half marathon held on October 17, 2015. Here is a pic of me shortly after my finish, after I have had a chance to catch my breath. [ picture (jpg) ]

  14. October 2015: Our paper submitted to Comsnets 16 is accepted. This paper lays out how to use a distributed Support Vector Machine for large-scale genomics data. It brings out the computational and the networking resource usages and performance implications in running such a code on an actual computational cluster. The paper is titled: "Computational and network cost of training distributed Support Vector Machines for large genomics data" and the co-authors are: Nawanol Theera-Ampornpunt, Seong Gon Kim, Asish Ghoshal, Saurabh Bagchi, Ananth Grama, and Somali Chaterji. The acceptance rate was 39/143 = 27.3%.

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