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2020 – today
- 2024
[j10]Daniel Ji, Robert Aboukhalil, Niema Moshiri
:
ViralWasm: a client-side user-friendly web application suite for viral genomics. Bioinform. 40(1) (2024)- [j9]Jaeyoung Kang, Weihong Xu, Wout Bittremieux, Niema Moshiri, Tajana Simunic Rosing:
DRAM-Based Acceleration of Open Modification Search in Hyperdimensional Space. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 43(9): 2592-2605 (2024) - [c8]Sumukh Pinge, Weihong Xu, Jaeyoung Kang, Tianqi Zhang, Niema Moshiri, Wout Bittremieux, Tajana Rosing:
SpecHD: Hyperdimensional Computing Framework for FPGA-Based Mass Spectrometry Clustering. DATE 2024: 1-6 - [i6]Sumukh Pinge, Weihong Xu, Wout Bittremieux, Niema Moshiri, Sang-Woo Jun, Tajana Rosing:
RapidOMS: FPGA-based Open Modification Spectral Library Searching with HD Computing. CoRR abs/2409.13361 (2024) - 2023
- [j8]Niema Moshiri:
ViralConsensus: a fast and memory-efficient tool for calling viral consensus genome sequences directly from read alignment data. Bioinform. 39(5) (2023) - [j7]Weihong Xu, Saransh Gupta, Niema Moshiri, Tajana Simunic Rosing:
RAPIDx: High-Performance ReRAM Processing In-Memory Accelerator for Sequence Alignment. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 42(10): 3275-3288 (2023) - [c7]Tianqi Zhang, Antonio González, Niema Moshiri, Rob Knight, Tajana Rosing:
GenoMiX: Accelerated Simultaneous Analysis of Human Genomics, Microbiome Metagenomics, and Viral Sequences. BioCAS 2023: 1-5 - [i5]Derek Jones, Jonathan E. Allen, Xiaohua Zhang, Behnam Khaleghi, Jaeyoung Kang, Weihong Xu, Niema Moshiri, Tajana Simunic Rosing:
HD-Bind: Encoding of Molecular Structure with Low Precision, Hyperdimensional Binary Representations. CoRR abs/2303.15604 (2023) - [i4]Sumukh Pinge, Weihong Xu, Jaeyoung Kang, Tianqi Zhang, Niema Moshiri, Wout Bittremieux, Tajana Rosing:
SpecHD: Hyperdimensional Computing Framework for FPGA-based Mass Spectrometry Clustering. CoRR abs/2311.12874 (2023) - 2022
- [c6]Behnam Khaleghi, Tianqi Zhang, Niya Shao, Ameen Akel, Ken Curewitz, Justin Eno, Sean Eilert, Niema Moshiri, Tajana Rosing:
FAST: FPGA-based Acceleration of Genomic Sequence Trimming. BioCAS 2022: 510-514 - [c5]Behnam Khaleghi, Tianqi Zhang, Cameron Martino, George Armstrong, Ameen Akel, Ken Curewitz, Justin Eno, Sean Eilert, Rob Knight, Niema Moshiri, Tajana Rosing:
SALIENT: Ultra-Fast FPGA-based Short Read Alignment. FPT 2022: 1-10 - [i3]Weihong Xu, Saransh Gupta, Niema Moshiri, Tajana Rosing:
RAPIDx: High-performance ReRAM Processing in-Memory Accelerator for Sequence Alignment. CoRR abs/2211.05733 (2022) - 2021
- [j6]Niema Moshiri:
ViralMSA: massively scalable reference-guided multiple sequence alignment of viral genomes. Bioinform. 37(5): 714-716 (2021) - [j5]Kimberly Almaraz, Tyler Jang, McKenna Lewis, Titan Ngo, Miranda Song, Niema Moshiri:
SEPIA: simulation-based evaluation of prioritization algorithms. BMC Medical Informatics Decis. Mak. 21(1): 177 (2021) - [j4]Elizabeth Leininger, Kelly Shaw, Niema Moshiri, Kelly Neiles, Getiria Onsongo, Anna M. Ritz:
Ten simple rules for attending your first conference. PLoS Comput. Biol. 17(7) (2021) - [c4]Minxuan Zhou, Lingxi Wu, Muzhou Li, Niema Moshiri, Kevin Skadron, Tajana Rosing:
Ultra Efficient Acceleration for De Novo Genome Assembly via Near-Memory Computing. PACT 2021: 199-212 - [c3]McKenna Lewis, Niema Moshiri, Kit Curtius:
MethylDrift: A Software Package for Calculating Age-related Epigenetic Drift in Human Tissues Using DNA Methylation Data. AMIA 2021 - [c2]Sahand Salamat, Jaeyoung Kang, Yeseong Kim, Mohsen Imani, Niema Moshiri, Tajana Rosing:
FPGA Acceleration of Protein Back-Translation and Alignment. DATE 2021: 822-827 - [i2]Elizabeth Leininger, Kelly Shaw, Niema Moshiri, Kelly Neiles, Getiria Onsongo, Anna M. Ritz:
Ten Simple Rules for Attending Your First Conference. CoRR abs/2101.11706 (2021) - 2020
- [j3]Niema Moshiri:
TreeSwift: A massively scalable Python tree package. SoftwareX 11: 100436 (2020) - [c1]Yeseong Kim, Mohsen Imani, Niema Moshiri, Tajana Rosing:
GenieHD: Efficient DNA Pattern Matching Accelerator Using Hyperdimensional Computing. DATE 2020: 115-120
2010 – 2019
- 2019
- [b1]Niema Moshiri:
Mathematical Modeling of Viral Evolution and Epidemiology. University of California, San Diego, USA, 2019 - [j2]Niema Moshiri, Manon Ragonnet-Cronin, Joel O. Wertheim, Siavash Mirarab:
FAVITES: simultaneous simulation of transmission networks, phylogenetic trees and sequences. Bioinform. 35(11): 1852-1861 (2019) - [j1]Adam Rule, Amanda Birmingham, Cristal Zuñiga, Ilkay Altintas, Shih-Cheng Huang, Rob Knight, Niema Moshiri, Mai H. Nguyen, Sara Brin Rosenthal, Fernando Pérez, Peter W. Rose:
Ten simple rules for writing and sharing computational analyses in Jupyter Notebooks. PLoS Comput. Biol. 15(7) (2019) - 2018
- [i1]Adam Rule, Amanda Birmingham, Cristal Zuñiga, Ilkay Altintas, Shih-Cheng Huang, Rob Knight, Niema Moshiri, Mai H. Nguyen, Sara Brin Rosenthal, Fernando Pérez, Peter W. Rose:
Ten Simple Rules for Reproducible Research in Jupyter Notebooks. CoRR abs/1810.08055 (2018)
Coauthor Index
aka: Tajana Simunic Rosing
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last updated on 2024-10-18 19:26 CEST by the dblp team
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