Publications

Raviteja Vangara, Marcos Díaz-Gay, others, Ludmil Alexandrov (2023). Assigning mutational signatures to individual samples and individual somatic mutations with SigProfilerAssignment. Bioinformatics.

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Azhar Kandekar, Raviteja Vangara, others (2023). Visualizing and exploring patterns of large mutational events with SigProfilerMatrixGenerator. BMC Genomics.

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SM Ashiqul Islam, Marcos Dı́az-Gay, Yang Wu, Mark Barnes, Raviteja Vangara, Erik N Bergstrom, Yudou He, Mike Vella, Jingwei Wang, Jon W Teague, others (2022). Uncovering novel mutational signatures by de novo extraction with SigProfilerExtractor. Cell Genomics.

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Manish Bhattarai, Namita Kharat, Erik Skau, Boian Alexandrov, Raviteja Vangara, James Smith, Thomas Tierney (2021). pyDRESCALk.

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Manish Bhattarai, Ben Nebgen, Erik Skau, Maksim Eren, Gopinath Chennupati, Raviteja Vangara, Hristo Djidjev, John Patchett, Jim Ahrens, Boian Alexandrov (2021). pydnmfk: Python distributed non negative matrix factorization.

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Gianmarco Manzini, Erik Skau, Duc P Truong, Raviteja Vangara (2021). Nonnegative Tensor-Train Low-Rank Approximations of the Smoluchowski Coagulation Equation. International Conference on Large-Scale Scientific Computing.

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Nasrin Akhter, Kazi Lutful Kabir, Gopinath Chennupati, Raviteja Vangara, Boian S Alexandrov, Hristo Djidjev, Amarda Shehu (2021). Improved protein decoy selection via non-negative matrix factorization. IEEE/ACM Transactions on Computational Biology and Bioinformatics.

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Raviteja Vangara, Manish Bhattarai, Erik Skau, Gopinath Chennupati, Hristo Djidjev, Tom Tierney, James P Smith, Valentin G Stanev, Boian S Alexandrov (2021). Finding the number of latent topics with semantic non-negative matrix factorization. IEEE Access.

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Raviteja Vangara, Kim Ø Rasmussen, Gopinath Chennupati, Boian Alexandrov (2021). Determination of the number of clusters by symmetric non-negative matrix factorization. Big Data III: Learning, Analytics, and Applications.

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DJ Prakash, L Denoyer, R Vangara, JM Baca, F van Swol, DN Petsev (2021). Classical density functional analysis of the ionic size effects on the properties of charge regulating electric double layers. Molecular Physics.

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Benjamin T Nebgen, Raviteja Vangara, Miguel A Hombrados-Herrera, Svetlana Kuksova, Boian S Alexandrov (2021). A neural network for determination of latent dimensionality in non-negative matrix factorization. Machine Learning: Science and Technology.

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Raviteja Vangara, Erik Skau, Gopinath Chennupati, Hristo Djidjev, Thomas Tierney, James P Smith, Manish Bhattarai, Valentin G Stanev, Boian S Alexandrov (2020). Semantic nonnegative matrix factorization with automatic model determination for topic modeling. 2020 19th IEEE International Conference on Machine Learning and Applications (ICMLA).

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Raviteja Vangara, Kim Ø Rasmussen, Dimiter N Petsev, Golan Bel, Boian S Alexandrov (2020). Identification of anomalous diffusion sources by unsupervised learning. arXiv preprint arXiv:2010.02168.

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Manish Bhattarai, Gopinath Chennupati, Erik Skau, Raviteja Vangara, Hristo Djidjev, Boian S Alexandrov (2020). Distributed non-negative tensor train decomposition. 2020 IEEE High Performance Extreme Computing Conference (HPEC).

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Gopinath Chennupati, Raviteja Vangara, Erik Skau, Hristo Djidjev, Boian Alexandrov (2020). Distributed non-negative matrix factorization with determination of the number of latent features. The Journal of Supercomputing.

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Kazi Lutful Kabir, Gopinath Chennupati, Raviteja Vangara, Hristo Djidjev, Boian S Alexandrov, Amarda Shehu (2020). Decoy selection in protein structure determination via symmetric non-negative matrix factorization. 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

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Raviteja Vangara (2019). An example preprint / working paper.

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Nasrin Akhter, Raviteja Vangara, Gopinath Chennupati, Boian S Alexandrov, Hristo Djidjev, Amarda Shehu (2019). Non-negative matrix factorization for selection of near-native protein tertiary structures. 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

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Raviteja Vangara (2019). Coulombic and Non-coulombic Effects of Single and Overlapping Electric Double Layers with Surface Charge Regulation.

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R Vangara, F van Swol, DN Petsev (2018). Solvophilic and solvophobic surfaces and non-Coulombic surface interactions in charge regulating electric double layers. The Journal of Chemical Physics.

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R Vangara, F van Swol, DN Petsev (2017). Ionic solvation and solvent-solvent interaction effects on the charge and potential distributions in electric double layers. The Journal of Chemical Physics.

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R Vangara, DCR Brown, F van Swol, DN Petsev (2017). Electrolyte solution structure and its effect on the properties of electric double layers with surface charge regulation. Journal of Colloid and Interface Science.

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Raviteja Vangara, Robert Ford (2015). An example journal article. Journal of Source Themes, 1(1).

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Raviteja Vangara, Robert Ford (2013). An example conference paper. In STC.

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