Usman Roshan

发表

Parallel Divide-and-Conquer Phylogeny Reconstruction by Maximum Likelihood

Alexandros Stamatakis, Luay Nakhleh, F. Lin, 2005, HPCC.

Rec-I-DCM3: a fast algorithmic technique for reconstructing phylogenetic trees

Bernard M. E. Moret, T. Warnow, T. Williams, 2004, Proceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004..

Rec-I-DCM3: A Fast Algorithmic Technique for Reconstructing Large Phylogenetic Trees

Tandy J. Warnow, Bernard M. E. Moret, Usman Roshan, 2004, IEEE Computer Society Computational Systems Bioinformatics Conference.

Computational Grand Challenges in Assembling the Tree of Life: Problems and Solutions

David A. Bader, Alexandros Stamatakis, Usman Roshan, 2006, Adv. Comput..

Algorithmic techniques for improving the speed and accuracy of phylogenetic methods

Tandy Warnow, Usman Roshan, T. Warnow, 2004 .

Fast and accurate population structure prediction using a greedy support vector machine clustering algorithm

Usman Roshan, 2018 .

Population and Genetic Analysis Semi-supervised feature extraction for population structure identification using the Laplacian linear discriminant

Usman Roshan, 2009 .

Ranking causal variants and associated regions in genome-wide association studies by the support vector machine and random forest

Satish Chikkagoudar, Hakon Hakonarson, Usman Roshan, 2011, Nucleic acids research.

High scoring segment selection for pairwise whole genome sequence alignment with the maximum scoring subsequence and GPUs

Usman Roshan, Abdulrhman Aljouie, Ling Zhong, 2020 .

An iterated coordinate descent algorithm for regularized 0 / 1 loss minimization

Usman Roshan, Mohammedreza Esfandiari, Usman Aleem, 2018 .

Algorithms in comparative genomics

Usman Roshan, Satish Chikkagoudar, 2010 .

Searching for evolutionary distant RNA homologs within genomic sequences using partition function posterior probabilities

Satish Chikkagoudar, Dennis R. Livesay, Usman Roshan, 2008, BMC Bioinformatics.

K-means-based Feature Learning for Protein Sequence Classification

P. Melman, Usman Roshan, 2017 .

Chi8: a GPU program for detecting significant interacting SNPs with the Chi-square 8-df test

Usman Roshan, S. Ramakrishnan, M. Esfandiari, 2015, BMC Research Notes.

and cross-study validation of chronic lymphocytic leukemia with exome sequences and machine learning

Usman Roshan, Abdulrhman Aljouie, Bharati Ihadav, 2015 .

A multipath decoder network for brain tumor segmentation

William W. Graves, J. Binder, Usman Roshan, 2019 .

Classification of Histopathology Images with Random Depthwise Convolutional Neural Networks

F. Shih, Usman Roshan, Yunzhe Xue, 2020, ICBRA.

The accuracy of phylogeny reconstruction on simulated whole genome sequences from Evolver

Usman Roshan, Junilda Spirollari, S. Leong, 2017 .

MaxSSmap: a GPU program for mapping divergent short reads to genomes with the maximum scoring subsequence

Usman Roshan, T. Turki, 2014, BMC Genomics.

The Accuracy of Fast Phylogenetic Methods for Large Datasets

Tandy J. Warnow, Bernard M. E. Moret, Luay Nakhleh, 2001, Pacific Symposium on Biocomputing.

Machine learning based prediction of gliomas with germline mutations obtained from whole exome sequences from TCGA and 1000 Genomes Project

M. Schatz, Usman Roshan, Abdulrhman Aljouie, 2019, 2019 Third International Conference on Intelligent Computing in Data Sciences (ICDS).

Estimating the Deviation from a Molecular Clock

Tandy J. Warnow, Luay Nakhleh, Usman Roshan, 2002, WABI.

The Performance of Phylogenetic Methods on Trees of Bounded Diameter

Tandy J. Warnow, Luay Nakhleh, Katherine St. John, 2001, WABI.

Designing fast converging phylogenetic methods

Tandy J. Warnow, Luay Nakhleh, Katherine St. John, 2001, ISMB.

Multiple sequence alignment using Probcons and Probalign.

Usman Roshan, Usman Roshan, 2014, Methods in molecular biology.

Probalign: multiple sequence alignment using partition function posterior probabilities

Dennis R. Livesay, Usman Roshan, Usman Roshan, 2006, Bioinform..

Prediction of Continuous Phenotypes in Mouse, Fly, and Rice Genome Wide Association Studies with Support Vector Regression SNPs and Ridge Regression Classifier

Abdulrhman Aljouie, Usman Roshan, Usman Roshan, 2015, 2015 IEEE 14th International Conference on Machine Learning and Applications (ICMLA).

Cross-validation and cross-study validation of chronic lymphocytic leukemia with exome sequences and machine learning

Abdulrhman Aljouie, Usman Roshan, Nihir Patel, 2015, 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

PLAST-ncRNA: Partition function Local Alignment Search Tool for non-coding RNA sequences

Satish Chikkagoudar, Dennis R. Livesay, Usman Roshan, 2010, Nucleic Acids Res..

RISK PREDICTION WITH GENOMIC DATA by Bharati Jadhav

Usman Roshan, B. Jadhav, 2014 .

Structural and Evolutionary Considerations for Multiple Sequence Alignment of RNA , and the Challenges for Algorithms That Ignore Them

Joseph J. Gillespie, Usman Roshan, Usman Roshan, 2007 .

Improved phylogenetic motif detection using parsimony

Dennis R. Livesay, Usman Roshan, David La, 2005, Fifth IEEE Symposium on Bioinformatics and Bioengineering (BIBE'05).

Improving progressive alignment for phylogeny reconstruction using parsimonious guide-trees

Satish Chikkagoudar, Dennis R. Livesay, Usman Roshan, 2006, Sixth IEEE Symposium on BioInformatics and BioEngineering (BIBE'06).

Brain Tumor Classification with Tumor Segmentations and a Dual Path Residual Convolutional Neural Network from MRI and Pathology Images

Frank Y. Shih, Jeffrey R. Binder, William W. Graves, 2019, BrainLes@MICCAI.

A Multi-path Decoder Network for Brain Tumor Segmentation

Jeffrey R. Binder, William W. Graves, Olga Boukrina, 2019, BrainLes@MICCAI.

Accurate and adversarially robust classification of medical images and ECG time-series with gradient-free trained sign activation neural networks

Frank Y. Shih, Yunzhe Xue, Usman Roshan, 2020, 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

Two-stage and dual-decoder convolutional U-Net ensembles for reliable vessel and plaque segmentation in carotid ultrasound images

Usman Roshan, Yunzhe Xue, Meiyan Xie, 2020, 2020 19th IEEE International Conference on Machine Learning and Applications (ICMLA).

Defending against substitute model black box adversarial attacks with the 01 loss pdf

Yunzhe Xue, Meiyan Xie, Usman Roshan, 2020, ArXiv.

Towards adversarial robustness with 01 loss neural networks pdf

Yunzhe Xue, Meiyan Xie, Usman Roshan, 2020, 2020 19th IEEE International Conference on Machine Learning and Applications (ICMLA).

On the transferability of adversarial examples between convex and 01 loss models pdf

Yunzhe Xue, Meiyan Xie, Usman Roshan, 2020, 2020 19th IEEE International Conference on Machine Learning and Applications (ICMLA).

Robust binary classification with the 01 loss pdf

Yunzhe Xue, Meiyan Xie, Usman Roshan, 2020, ArXiv.

Defending against black-box adversarial attacks with gradient-free trained sign activation neural networks

Yunzhe Xue, Meiyan Xie, Usman Roshan, 2021 .

Diametrical clustering for identifying anti-correlated gene clusters

Inderjit S. Dhillon, Edward M. Marcotte, Usman Roshan, 2003, Bioinform..

A multi-path 2.5 dimensional convolutional neural network system for segmenting stroke lesions in brain MRI images

Jeffrey R. Binder, William W. Graves, Olga Boukrina, 2019, NeuroImage: Clinical.

Multi-path convolutional neural network for glioblastoma survival group prediction with point mutations and demographic features

Abdulrhman Aljouie, Usman Roshan, Usman Roshan, 2019, 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

Reconstruction of large phylogenetic trees: A parallel approach

Feng Lin, Zhihua Du, Usman W. Roshan, 2005, Comput. Biol. Chem..

PRec-I-DCM3: A Parallel Framework for Fast and Accurate Large Scale Phylogeny Reconstruction

John M. Mellor-Crummey, Luay Nakhleh, Cristian Coarfa, 2005, 11th International Conference on Parallel and Distributed Systems (ICPADS'05).

Assessing the ability of sequence-based methods to provide functional insight within membrane integral proteins: a case study analyzing the neurotransmitter/Na+ symporter family

Dennis R. Livesay, Usman Roshan, Patrick D. Kidd, 2007, BMC Bioinformatics.

Top-k Parametrized Boost

Zhi Wei, Turki Turki, Muhammad Ihsan, 2014, MIKE.

Exploring Classification, Clustering, and Its Limits in a Compressed Hidden Space of a Single Layer Neural Network with Random Weights

Meiyan Xie, Usman Roshan, Usman Roshan, 2019, IWANN.

Sequence-Length Requirements for Phylogenetic Methods

Tandy J. Warnow, Bernard M. E. Moret, Usman Roshan, 2002, WABI.

Chi8: a GPU program for detecting significant interacting SNPs with the Chi-square 8-df test

Usman Roshan, M. Esfandiari, Abdulrhman Al-jouie, 2015, BMC Research Notes.

Weighted Maximum Variance Dimensionality Reduction

Turki Turki, Usman Roshan, Usman Roshan, 2014, MCPR.

Performance of Supertree Methods on Various Data Set Decompositions

Bernard M. E. Moret, Tandy Warnow, Tiffani L. Williams, 2004 .

MaxSSmap: a GPU program for mapping divergent short reads to genomes with the maximum scoring subsequence

Turki Turki, Usman Roshan, Usman Roshan, 2014, BMC Genomics.

Cross-validation and cross-study validation of kidney cancer with machine learning and whole exome sequences from the National Cancer Institute

Abdulrhman Aljouie, Usman Roshan, Nihir Patel, 2018, 2018 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB).

The Accuracy of Fast Phylogenetic Methods for Large Datasets

Bernard M. E. Moret, T. Warnow, Usman Roshan, 2001, Pacific Symposium on Biocomputing.

Stochastic Coordinate Descent for 01 Loss and Its Sensitivity to Adversarial Attacks

Yunzhe Xue, Meiyan Xie, Usman Roshan, 2019, 2019 18th IEEE International Conference On Machine Learning And Applications (ICMLA).

Image Classification and Retrieval with Random Depthwise Signed Convolutional Neural Networks

Yunzhe Xue, Usman Roshan, Usman Roshan, 2018, IWANN.