Ali Sharifi-Zarchi

Cell Identity Codes: Understanding Cell Identity from Gene Expression Profiles using Deep Neural Networks

Farzad Abdolhosseini, Behrooz Azarkhalili, Abbas Maazallahi, 2018, Scientific Reports.

StrongestPath: a Cytoscape application for protein–protein interaction analysis

Ali Sharifi-Zarchi, Zaynab Mousavian, Mehran Khodabandeh, 2020, BMC Bioinformatics.

Graph Traversal Edit Distance and Extensions

Ali Sharifi-Zarchi, Hamidreza Chitsaz, Akash Shrestha, 2020, J. Comput. Biol..

An end-to-end workflow for statistical analysis and inference of large-scale biomedical datasets

Ali Sharifi-Zarchi, Masoud Mirzaei, Elyas Heidari, 2020 .

Kahu and Olympedia: Ideas for Educating Computer Science to High-School Students

Ali Sharifi-Zarchi, Hamid Zarrabi-Zadeh, Ali Babaei, 2017 .

PyGTED: Python Application for Computing Graph Traversal Edit Distance.

Ali Sharifi-Zarchi, Hamidreza Chitsaz, Akash Shrestha, 2020, Journal of computational biology : a journal of computational molecular cell biology.

Enhanced Waddington landscape model with cell-cell communication can explain molecular mechanisms of self-organization

Ali Sharifi-Zarchi, Babak Hossein Khalaj, Parsa Moradi, 2019, Bioinform..

Natural Biased Coin Encoded in the Genome Determines Cell Strategy

Ali Sharifi-Zarchi, Hamid Mahini, Hamid Pezeshk, 2014, PloS one.

DNA methylation regulates discrimination of enhancers from promoters through a H3K4me1-H3K4me3 seesaw mechanism

Ali Sharifi-Zarchi, Hamidreza Chitsaz, Hossein Baharvand, 2017, BMC Genomics.