List of Publications

In Preparation:

• "Homogeneous Meta-clustering in Flow Cytometry by Variance Stabilization", A. Azad, B. Rajwa, and A. Pothen.

• "Online Classification of Immunophenotypes as captured with Fow Cutometry", A. Azad, A. Khan, B. Rajwa, S. Pyne, and A. Pothen.

Under Review:

• "On Parallel Push-Relabel based Algorithms for Bipartite Maximum Matching", J. Langguth, A. Azad, M. Halappanavar, F. Manne, in Parallel Computing.

• "A Unified Framework for Phylogenetic Trees, Multi-Dimensional Scaling and Planar Graphs", P. Waddell, X. Tan, I. Khan, A. Azad, S. Yoo, in Systematic Biology.

Journal Publications:

• "Critical Assessment of Automated Flow Cytometry Analysis Techniques", N. Aghaeepour, G. Finak, D. Dougall, A. Hadj-Khodabakhshi, P. Mah, G. Obermoser, J. Spidlen, I. Taylor, S. A Wuensch, J. Bramson, C. Eaves, A. P. Weng, E. Fortuno III, K. Ho, T. Kollmann, W. Rogers, S. Rosa, B. Dalal, A. Azad, A. Pothen, A. Brandes, H. Bretschneider, R. Bruggner, R. Finck, R. Jia, N. Zimmerman, M. Linderman, D. Dill, G. Nolan, C. Chan, F. Khettabi, K. Neill, M. Chikina, A. Gupta, P. Shooshtari, H. Zare, P.  Jager, M. Jiang, J. Keilwagen, J. M. Maisog, P. Majek, J. Vilcek, T. Manninen, H. Huttunen, P. Ruusuvuori, M. Nykter, G. J. McLachlan, K. Wang, I. Naim, G. Sharma, R. Nikolic, S. Pyne, Y. Qian, P. Qiu, J. Quinn, A. Roth, R. Norel, G. Stolovitzky, P. Meyer, J. Saez-Rodriguez, M. Bhattacharjee, M. Biehl, P. Bucher, K. Bunte, B. .Camillo, S. Dimitrieva, J. Grau, I. Grosse, S. Posch, N. Guex, J. Keilwagen, M. Kursa, B. Liu, M. Maienschein-Cline, T. Manninen, G. J. McLachlan, P.  Seifert, M. Strickert, J. Vilar, H. Hoos, T. Mosmann, R. Brinkman, R. Gottardo, and R. Scheuermann, Nature Methods, Februrary, 2013. 

• "Matching phosphorylation response patterns of antigen-receptor-stimulated T cells via flow cytometry",  Ariful Azad, Saumyadipta Pyne and Alex Pothen, BMC Bioinformatics, March, 2012.

Conference Proceedings:

• "Multithreaded Algorithms for Maximum Matching in Bipartite Graphs", A. Azad, M. Halappanavar, S. Rajamanickam, A. Khan, E. Boman, and A. Pothen, in the procedings of the 26^th IEEE International Parallel & Distributed Processing Symposium (IPDPS), Shanghai, China, 2012.
  

• "Multithreaded Algorithms for Matching in Graphs with Application to Data Analysis in flow cytometry",  A. Azad and A. Pothen, IPDPS PhD Forum, Shanghai, China, 2012. 

• "Computing Maximum Matching in Parallel on Bipartite Graphs: Worth the Effort?", A. Azad, M. Halappanavar, F. Dobrian, and A. Pothen, Workshop on Irregular Applications: Architectures & Algorithms, Seattle, USA.
  

• "Identifying Rare Cell Population in Comparative Flow Cytometry", A. Azad, J. Langguth, Y. Fang, A. Qi, A. Pothen , Algorithms in Bioinformatics, 2010, Volume 6293/2010, 162-175, Proceedings of the 10^th Workshop on Algorithms in Bioinformatics, Liverpool, UK   [PDF] [SpringerLink]

ArXiv Pre-prints

• [ArXiv '10]: "Resampling Residuals on Phylogenetics Trees: Extended Results", P. Waddell, A. Azad, I. Khan, ArXiv , Dec 2010. [ArXiv]
  

• [ArXiv '09]: "Residual Resampling: Robust Estimators of Error and Fit for Evolutionary Trees and Phylogenomics", P. Waddell, A. Azad , ArXiv , Dec 2009. [PDF][ArXiv]
  
  

Undergraduate Publications

• "Router oriented traffic flow analysis for IP backbone network", A. Azad, A.B.M. Islam, M. K. Alam and M. S. Alam, in ICICT 2007, Dhaka, Bangladesh.
• "Security Attack Detection using Genetic Algorithm (GA) in Policy Based Network", A.B.M. Islam, A. Azad, M. K. Alam and M. S. Alam, in ICICT 2007, Dhaka, Bangladesh.
  

Posters

• "Variance stabilization in Flow Cytometry", Cyto 2013, San Diego, 2013
  
• "Meta-clustering based population matching in Flow Cytometry", Interdisciplinary graduate program reception, Purdue University, West Lafayette, IN, March, 2012.
  
• "Comparative Flow Cytometry", Cyber Infrastructure Day, Purdue University, West Lafayette, IN, USA. [Poster]
  

Presentations and Talks

• "Analyzing High Dimensional Flow Cytometry Data: Combinatorial and Statistical Algorithms", Bioinformatics Seminar, Purdue university, West Lafayette, IN. March 2013. (Invited Talk)
  

• "Classifying HIV Vaccination Status with Regularized Logistic Regression", FlowCAP-III, NIH, Bethesda, Maryland, Oct 2012. (Invited Talk). [Slides]

• "Meta-clustering based population matching in Flow Cytometry", SIAM life science conference, San Diego, August 2012.
  

• "flowMatch: A tool to create feature-preserving templates by population matching",  FlowCAP-II, NIH, Bethesda, Maryland Sept 2011. (Invited Talk) [Slides]
  

• "Identifying Cross Class Phosphorylation in Comparative Flow Cytometry", Great Lakes Bioinformatics Conference (GLBIO), Athens, Ohio. [Slides]
  

• "Parallel Maximum Matching Algorithms on Multithreaded Platforms", Pacific Northwest National Lab, Richland, WA. [Slides]
  

• "Consensus Clustering by Matching populations Across Samples in Comparative Flow Cytometry", 3rd SIAM Computational Science and Engineering Student Conference (CSESC), Purdue University, West Lafayette, IN. [Slides]
  

•   "Identifying Leukemic Cell Populations in Comparative Flow Cytometry", in the 10^th Workshop on Algorithms in Bioinformatics, Liverpool, UK. [Slides]
  

Last Updated: 05/01/2013