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2020 – today
- 2024
[j14]Fabian Santiago
, Amandeep Kaur, Shannon Bride, Dougald Monroe, Karin Leiderman, Suzanne S. Sindi:
A new look at TFPI inhibition of factor X activation. PLoS Comput. Biol. 20(11): 1012509 (2024)- [c19]Jocelyn Ornelas Munoz, Erica M. Rutter, Mario Banuelos, Suzanne S. Sindi, Roummel F. Marcia:
Sparse Negative Binomial Signal Recovery for Genomic Variant Prediction in Diploid Species. EMBC 2024: 1-5 - 2023
- [j13]Ruihao Li, Jordan C. Rozum, Morgan M. Quail, Mohammad N. Qasim, Suzanne S. Sindi, Clarissa J. Nobile, Réka Albert, Aaron D. Hernday:
Inferring gene regulatory networks using transcriptional profiles as dynamical attractors. PLoS Comput. Biol. 19(8) (2023) - [c18]Mohammed Aburidi, Mario Banuelos, Suzanne Sindi, Roummel F. Marcia:
Genetic Variant Detection Over Generations: Sparsity-Constrained Optimization Using Block-Coordinate Descent. MeMeA 2023: 1-5 - 2022
- [j12]Abbas-Ali Heydari, Oscar A. Davalos, Lihong Zhao, Katrina K. Hoyer, Suzanne S. Sindi:
ACTIVA: realistic single-cell RNA-seq generation with automatic cell-type identification using introspective variational autoencoders. Bioinform. 38(8): 2194-2201 (2022) - [j11]Abbas-Ali Heydari, Suzanne S. Sindi, Maxime Theillard:
Conservative finite volume method on deforming geometries: The case of protein aggregation in dividing yeast cells. J. Comput. Phys. 448: 110755 (2022) - [j10]Fabian Santiago, Suzanne S. Sindi:
A structured model and likelihood approach to estimate yeast prion propagon replication rates and their asymmetric transmission. PLoS Comput. Biol. 18(7) (2022) - [i3]Abbas-Ali Heydari, Oscar A. Davalos, Katrina K. Hoyer, Suzanne S. Sindi:
N-ACT: An Interpretable Deep Learning Model for Automatic Cell Type and Salient Gene Identification. CoRR abs/2206.04047 (2022) - 2021
- [c17]Andrew Lazar, Mario Banuelos, Suzanne Sindi, Roummel F. Marcia:
Novel structural variant genome detection in extended pedigrees through negative binomial optimization. ACSCC 2021: 563-567 - [i2]Anne E. Carpenter, Casey S. Greene, Piero Carnici, Benilton S. Carvalho, Michiel de Hoon, Stacey D. Finley, Kim-Anh Lê Cao, Jerry S. H. Lee, Luigi Marchionni, Suzanne Sindi, Fabian J. Theis, Gregory P. Way, Jean Y. H. Yang, Elana J. Fertig:
A field guide to cultivating computational biology. CoRR abs/2104.11364 (2021) - [i1]Alex John Quijano, Rick Dale, Suzanne Sindi:
A Statistical Model of Word Rank Evolution. CoRR abs/2107.09948 (2021) - 2020
- [j9]Paul Lemarre, Laurent Pujo-Menjouet, Suzanne S. Sindi:
A unifying model for the propagation of prion proteins in yeast brings insight into the [PSI+] prion. PLoS Comput. Biol. 16(5) (2020) - [c16]Andrew Lazar, Mario Banuelos, Suzanne Sindi, Roummel F. Marcia:
Detecting novel genomic structural variants through negative binomial optimization. ACSSC 2020: 511-515 - [c15]Erica Sawyer, Mario Banuelos, Roummel F. Marcia, Suzanne Sindi:
A Neural Network Approach for Anomaly Detection in Genomic Signals. APSIPA 2020: 968-971 - [c14]Mario Banuelos, Omar DeGuchy, Suzanne Sindi, Roummel F. Marcia:
Related Inference: A Supervised Learning Approach to Detect Signal Variation in Genome Data. EUSIPCO 2020: 1215-1219 - [c13]Melissa Spence, Mario Banuelos, Roummel F. Marcia, Suzanne Sindi:
Genomic Signal Processing for Variant Detection in Diploid Parent-Child Trios. EUSIPCO 2020: 1318-1322
2010 – 2019
- 2019
- [c12]Xiaolong Chen, Hansell Perez, Melissa Spence, Roummel F. Marcia, Suzanne Sindi:
Fine Tuning Sparsity Penalties to Improve Structural Variant Detection. BIBM 2019: 1182-1184 - [c11]Melissa Spence, Mario Banuelos, Roummel F. Marcia, Suzanne Sindi:
Predicting Novel and Inherited Variants in Parent-Child Trios. MeMeA 2019: 1-6 - 2018
- [c10]Melissa Spence, Mario Banuelos, Roummel F. Marcia, Suzanne Sindi:
Detecting Novel Structural Variants In Genomes By Leveraging Parent-Child Relatedness. BIBM 2018: 943-950 - [c9]Mario Banuelos, Suzanne Sindi, Roummel F. Marcia:
Structural Variant Prediction in Extended Pedigrees Through Sparse Negative Binomial Genome Signal Recovery. EMBC 2018: 1311-1314 - [c8]Mario Banuelos, Suzanne Sindi, Roummel F. Marcia:
Negative Binomial Optimization for Biomedical Structural Variant Signal Reconstruction. ICASSP 2018: 906-910 - 2017
- [c7]Mario Banuelos, Lasith Adhikari, Rubi Almanza, Andrew Fujikawa, Jonathan Sahagun, Katharine Sanderson, Melissa Spence, Suzanne Sindi, Roummel F. Marcia:
Sparse diploid spatial biosignal recovery for genomic variation detection. MeMeA 2017: 275-280 - [c6]Mario Banuelos, Lasith Adhikari, Rubi Almanza, Andrew Fujikawa, Jonathan Sahagun, Katharine Sanderson, Melissa Spence, Suzanne Sindi, Roummel F. Marcia:
Nonconvex regularization for sparse genomic variant signal detection. MeMeA 2017: 281-286 - 2016
- [j8]H. T. Banks, Kevin B. Flores, Suzanne S. Sindi:
On analytical and numerical approaches to division and label structured population models. Appl. Math. Lett. 60: 81-88 (2016) - [c5]Mario Banuelos, Rubi Almanza, Lasith Adhikari, Roummel F. Marcia, Suzanne Sindi:
Constrained variant detection with SPaRC: Sparsity, parental relatedness, and coverage. EMBC 2016: 3490-3493 - [c4]Mario Banuelos, Rubi Almanza, Lasith Adhikari, Suzanne Sindi, Roummel F. Marcia:
Sparse signal recovery methods for variant detection in next-generation sequencing data. ICASSP 2016: 864-868 - [c3]Mario Banuelos, Rubi Almanza, Lasith Adhikari, Roummel F. Marcia, Suzanne Sindi:
Sparse genomic structural variant detection: Exploiting parent-child relatedness for signal recovery. SSP 2016: 1-5 - 2015
- [j7]Jason K. Davis, Suzanne S. Sindi:
A study in nucleated polymerization models of protein aggregation. Appl. Math. Lett. 40: 97-101 (2015) - 2014
- [j6]Anna M. Ritz, Ali Bashir, Suzanne S. Sindi, David Hsu, Iman Hajirasouliha, Benjamin J. Raphael:
Characterization of structural variants with single molecule and hybrid sequencing approaches. Bioinform. 30(24): 3458-3466 (2014) - [j5]Peter Olofsson, Suzanne S. Sindi:
A Crump-Mode-Jagers Branching Process Model of Prion Loss in Yeast. J. Appl. Probab. 51(2): 453-465 (2014) - 2012
- [j4]Alejandro Cáceres, Suzanne S. Sindi, Benjamin J. Raphael, Mario Cáceres, Juan R. González:
Identification of polymorphic inversions from genotypes. BMC Bioinform. 13: 28 (2012) - 2011
- [c2]Benjamin J. Raphael, Suzanne S. Sindi, Anna M. Ritz, Ali Bashir:
Workshop: Characterization of structural variants with next generation DNA sequencing. ICCABS 2011: 275 - 2010
- [j3]Suzanne S. Sindi, Benjamin J. Raphael:
Identification and Frequency Estimation of Inversion Polymorphisms from Haplotype Data. J. Comput. Biol. 17(3): 517-531 (2010)
2000 – 2009
- 2009
- [j2]Suzanne S. Sindi, Elena Helman, Ali Bashir, Benjamin J. Raphael:
A geometric approach for classification and comparison of structural variants. Bioinform. 25(12) (2009) - [c1]Suzanne S. Sindi, Benjamin J. Raphael:
Identification and Frequency Estimation of Inversion Polymorphisms from Haplotype Data. RECOMB 2009: 418-433 - 2007
- [j1]Suzanne S. Sindi:
Handbook of Computational Molecular Biology: Edited by Srinivas Aluru. Briefings Bioinform. 8(3): 201-203 (2007)
Coauthor Index
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