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I am a professional bioinformatician with over 12 years of experience in both industry and academia. I am committed to provide innovative solutions for complex biological problems by combining methods from mathematics, statistics, and computer science.
Identification

Personal identification

Full name
Muhammad Asif

Citation names

  • Asif, Muhammad

Author identifiers

Ciência ID
3113-C7F0-4B2F
ORCID iD
0000-0001-9144-7630

Email addresses

  • muhasif123@gmail.com (Personal)

Knowledge fields

  • Exact Sciences - Computer and Information Sciences - Bioinformatics

Languages

Language Speaking Reading Writing Listening Peer-review
Urdu Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2)
Punjabi (Mother tongue)
English Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2)
Portuguese Beginner (A1) Beginner (A1) Beginner (A1) Beginner (A1) Beginner (A1)
Education
Degree Classification
2018/10/02
Concluded
 Systems Biology and Bioinformatics (Doutoramento)
Major in Especialidade: Biologia de Sistemas and Bioinformatics
Universidade de Lisboa Faculdade de Ciências, Portugal
"" A System medicine approach to study autism spectrum disorder, based on genomic, and clinical data"" (THESIS/DISSERTATION)
 Approved with Distinction
2011 - 2013
Concluded
 M Phil Bioinformatics (Postgraduate Certificate)
Major in Bioinformatics
Quaid-i-Azam University National Center for Bioinformatics, Pakistan
"In silico RFLP simulation, incorporated with SNPs" (THESIS/DISSERTATION)
 A Grade
2006 - 2010
Concluded
 Bachelor of Science (4-years) Bioinformatics (Bachelor)
Major in Bioinformatics, Computer science, Biology and mathematics
Government College University Faisalabad, Pakistan
"A Computational Approach To Predict The Protein-Protein Interaction" (THESIS/DISSERTATION)
 B+
Affiliation

Science

Category
Host institution 		Employer
2020/02/01 - Current Science and Technology Management Instituto de Biologia Experimental e Tecnológica, Portugal
2014/03/01 - 2018/10/02 Contracted Researcher (Research) Universidade de Lisboa Instituto de Biossistemas e Ciências Integrativas, Portugal

Teaching in Higher Education

Category
Host institution 		Employer
2013/07/01 - 2014/02/28 Lecturer (University Teacher) COMSATS Institute of Information Technology - Sahiwal Campus, Pakistan

Others

Category
Host institution 		Employer
2019/01/07 - 2050/01/07 Bioinformatics project leader SGS Molecular, Portugal
2018/07/01 - 2018/12/31 Research Associate Universidade de Lisboa Laboratório de Sistemas Informáticos de Grande Escala, Portugal
Outputs

Publications

Book chapter
  1. Hugo F. M. C. Martiniano; Muhammad Asif; Astrid Moura Vicente; Luís Correia. "Network Propagation-Based Semi-supervised Identification of Genes Associated with Autism Spectrum Disorder". 239-248. Springer International Publishing, 2020.
    10.1007/978-3-030-34585-3_21
Conference paper
  1. Vilela, Joana; Martiniano, Hugo; Luzia, Sonija; Marques, Ana Rita; Santos, João; Asif, Muhammad; Rasga, Célia; Oliveira, Guiomar; Vicente, Astrid M.. "Identification of disease risk variants in neurotransmission and synaptic genes in Autism Spectrum Disorder". 2019.
  2. Asif, Muhammad; Couto, Francisco M.; Vicente, Astrid M.. "An integrative system biology approach to delineate complex genotype-phenotype associations in Autism Spectrum Disorder". 2018.
  3. Vilela, Joana; Martiniano, Hugo; Luzi, Sonija; Marques, Ana; Santos, João; Asif, Muhammad; Rasga, Célia; Oliveira, Guiomar; Vicente, Astrid. "Identification of molecular alterations in neurotransmission and synaptic genes in Autism Spectrum Disorder". 2018.
  4. Vilela, Joana; Martiniano, Hugo; Marques, Ana Rita; Xavier Santos, João; Asif, Muhammad; Rasga, Célia; Oliveira, Guiomar; Vicente, Astrid M.. "Autism Spectrum Disorder: modulation of genomic variant effects on brain structure and function". 2018.
  5. Marques, Ana Rita; Martiniano, Hugo; Asif, Muhammad; Santos, João Pedro; M. Vicente, Astrid. "Exploratory analysis of mutations targeting noncoding RNAs in autism". 2017.
  6. Xavier Santos, João; Rasga, Célia; Marques, Ana Rita; Asif, Muhammad; Café, Cátia; Nunes, Ana; Oliveira, Guiomar; Moura-Vicente, Astrid. "Gene-environment interactions in Autism Spectrum Disorder (ASD)". 2017.
Journal article
  1. Asif, Muhammad; Martiniano, Hugo F. M. C.; Marques, Ana Rita; Santos, João Xavier; Vilela, Joana; Rasga, Celia; Oliveira, Guiomar; Couto, Francisco M.; Vicente, Astrid M.. "Identification of biological mechanisms underlying a multidimensional ASD phenotype using machine learning". Translational Psychiatry 10 1 (2020): http://dx.doi.org/10.1038/s41398-020-0721-1.
    Published • 10.1038/s41398-020-0721-1
  2. Asif, Muhammad; Vicente, Astrid M.; Couto, Francisco M.. "FunVar: A systematic pipeline to unravel the convergence patterns of genetic variants in ASD, a paradigmatic complex disease". Journal of Biomedical Informatics 98 (2019): 103273. http://dx.doi.org/10.1016/j.jbi.2019.103273.
    Published • 10.1016/j.jbi.2019.103273
  3. Muhammad Asif; Jianjun Hu; Hugo F. M. C. M. Martiniano; Astrid M. Vicente; Francisco M. Couto. "Identifying disease genes using machine learning and gene functional similarities, assessed through Gene Ontology". PLOS ONE 13 12 (2018): e0208626-e0208626. https://doi.org/10.1371/journal.pone.0208626.
    10.1371/journal.pone.0208626
  4. Asif, Muhammad; Couto, Francisco; Vicente, Astrid M.. "Associação entre variantes genéticas e perfil clínico multidimensional de doentes com perturbação do espetro do autismo: uma abordagem integrativa". (2018): http://hdl.handle.net/10400.18/5590.
  5. Kausar, Samina; Asif, Muhammad; Bibi, Nousheen; Rashid, Sajid. "Comparative Molecular Docking Analysis of Cytoplasmic Dynein Light Chain DYNLL1 with Pilin to Explore the Molecular Mechanism of Pathogenesis Caused by Pseudomonas aeruginosa PAO". PLoS ONE 8 10 (2013): e76730. http://dx.doi.org/10.1371/journal.pone.0076730.
    Published • 10.1371/journal.pone.0076730
Thesis / Dissertation
  1. Asif, Muhammad. "A systems medicine approach to study Autism Spectrum Disorder based on genomic and clinical data". PhD, 2018. http://hdl.handle.net/10400.18/5828.
  2. Asif, Muhammad. "A systems medicine approach to study autism spectrum disorder based on genomic and clinical data". PhD, 2018. http://hdl.handle.net/10451/35761.

Other

Other output
  1. Mining of Genes Relevant to ASD in Large Databases. Introduction: Autism Spectrum Disease (ASD): Wide range of phenotypes; ASD is characterized by (1. deficits in social communication and social interaction; 2. restricted repetitive behaviors, interests, and activities); High heritability (e.g. strong genetic influence); Complex genetic etiology; Large number of involved genes (>800); Despite this ASD is still diagnosed with behavioral evaluations.. 2018. Martiniano, Hugo FMC; Asif, Muhammad; Vicente, Astrid; Correia, Luís. http://hdl.handle.net/10400.18/5639.
  2. An integrative system biology approach to delineate complex genotype-phenotype associations in Autism Spectrum Disorder. utism Spectrum Disorder (ASD) is a neurodevelopmental disorder which affects the brain structure and the proper establishment of the neuronal connectivity.. 2018. Asif, Muhammad. http://hdl.handle.net/10400.18/5723.