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Bioinformatics (Oxford, England)|June 19, 2018
TranscriptClean: variant-aware correction of indels, mismatches and splice junctions in long-read transcriptsDana Wyman, Ali MortazaviCell Systems|April 3, 2017
Dynamic Gene Regulatory Networks of Human Myeloid DifferentiationRicardo N Ramirez, Nicole C El-Ali, Mikayla Anne Mager, et al.Nucleic Acids Research|October 11, 2021
Diverse functional elements in RNA predicted transcriptome-wide by orthogonal RNA structure probingDalen Chan, Chao Feng, Whitney E England, et al.Nature Immunology|August 23, 2012
Technical considerations for functional sequencing assaysWeihua Zeng, Ali MortazaviBiorxiv : the Preprint Server for Biology|June 12, 2025
Dogme: A nextflow pipeline for reprocessing nanopore RNA and DNA modificationsElnaz Abdollahzadeh, Ali MortazaviBioinformatics (Oxford, England)|September 29, 2020
Swan: a library for the analysis and visualization of long-read transcriptomesFairlie Reese, Ali MortazaviBriefings in Functional Genomics|March 27, 2018
Integrating ChIP-seq with other functional genomics dataShan Jiang, Ali MortazaviBioinformatics (Oxford, England)|March 2, 2026
Dogme: A nextflow pipeline for reprocessing nanopore RNA and DNA modificationsElnaz Abdollahzadeh, Ali MortazaviACS Omega|August 5, 2024
A Numerical Study of Fault Reactivation Mechanisms in CO2 StorageAli Mortazavi, Torekeldi MaratovBMC Systems Biology|July 18, 2014
The common ground of genomics and systems biologyAna Conesa, Ali MortazaviPageof 21