FACULTY BIOGRAPHIES
Dr. Tanvir Alam
- Emailtalam@hbku.edu.qa
- Phone+974 44542277
- Office locationA 161, 1st floor, LAS Building
Biography
Dr.Tanvir Alam’s work has been centered on biomedical discoveries using artificial intelligence and machine learning techniques in big data platform. His current research focusing on long non-coding RNAs, short RNAs, and their transcription regulation to understand how these genes are involved in different diseases and their function in cellular process using next-generation sequencing data.
He is also interested in protein-protein interactions, which are involved in cell adhesion and cancer metastasis. He is also developing knowledge-based methods to understand the genotype-phenotype relationship.
Research Interests
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Machine Learning & Data Mining
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Text Mining
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Bioinformatics
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Transcription Regulation
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Long non-coding RNA
Experience
Assistant Professor
Hamad Bin Khalifa University; Qatar
2018 - PresentData Scientist
Saudi Telecom Company; Saudi Arabia
2016-2018Visiting Scholar
RIKEN; Japan
2015-2015
Senior Software Engineer
AfriGIS ; South Africa
2008-2009Lecturer
Department of Computer Science; State University of Bangladesh; Bangladesh
2007-2008
Education
Ph.D. in Computer Science
King Abdullah University of Science and Technology; Saudi Arabia
2016MSc in Computer Science
King Abdullah University of Science and Technology; Saudi Arabia
2012
BSc in Computer Science & Engineering
Bangladesh University of Engineering & Technology; Bangladesh
2007
Selected Publications
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miRCOVID-19: Potential Targets of Human miRNAs in SARS-CoV-2 for RNA-Based Drug Discovery.
Alam T, Lipovich L. Non-coding RNA, 2021. https://doi.org/10.3390/ncrna7010018
2021 -
Risk Factors and Comorbidities Associated to Cardiovascular Disease in Qatar: A Machine Learning based Case-Control Study.
Al-Absi HRH, Refaee MA, Rehman AU, Islam MT, Belhaouari SB, Alam T. IEEE Access, 2021. https://doi.org/10.1109/ACCESS.2021.3059469
2021 -
DiaNet: A Deep Learning Based Architecture to Diagnose Diabetes Using Retinal Images Only.
Islam MT, Al-Absi HRH, Ruagh E, Alam T. IEEE Access, 2021. https://doi.org/10.1109/ACCESS.2021.3052477
2021 -
Comparative transcriptomics of primary cells in vertebrates.
Alam T, Agrawal S, Severin J, Young RS, Andersson R, Arner E, Hasegawa A, Lizio M, Ramilowski J, Abugessaisa I, Ishizu Y, Noma S, Tarui H, Taylor MS, Lassmann T, Itoh M, Kasukawa T, Kawaji H, Marchionni L, Sheng G, Forrest AR, Khachigian LM, Hayashizaki LM, Carninci P, de Hoon M. Genome Research, 2020. http://www.genome.org/cgi/doi/10.1101/gr.255679.119
2020 -
Towards Preparing a Knowledgebase to Explore Potential Drugs and Biomedical Entities Related to COVID-19.
Khan JY, Khan JY, Khondaker MTI, Hoque IT, Al-Absi HRH, Guler R, Alam T, Rahman MS. JMIR Medical Informatics, 2020. https://doi.org/10.2196/21648
2020 -
Machine learning models reveal key performance metrics of football players to win matches in the Qatar Stars League.
Al-Mulla J, Alam T. IEEE Access, 2020. https://doi.org/10.1109/ACCESS.2020.3038601
2020 -
Deep Learning in LncRNAome: Contribution, Challenges and Perspectives.
Alam T, Al-Absi HRH, Scheimer S. Non-Coding RNA, 2020. https://doi.org/10.3390/ncrna6040047
2020 -
Agree-to-Disagree (A2D): A Deep Learning-Based Framework for Authorship Discrimination Task in Corpus-Specificity Free Manner.
Khondaker MTI, Khan JY, Alam T, Rahman MS. IEEE Access, 2020. https://doi.org/10.1109/ACCESS.2020.3021658
2020 -
Proteome-level assessment of origin, prevalence and function of leucine-aspartic acid (LD) motifs.
Alam T, Alazmi M, Naser R, Huser F, Momin AA, Astro V, Hong S, Walkiewicz KW, Canlas CG, Huser RI, Ali AJ, Merzaban J, Adamo A, Jaremko M, Jaremko L, Bajic VB, Gao X, Arold ST. Bioinformatics, 2019. https://doi.org/10.1093/bioinformatics/btz703
2019 -
Transcriptional landscape of Mycobacterium tuberculosis infection in macrophages
Scientific Reports volume 8, Article number: 6758 (2018), doi:10.1038/s41598-018-24509-6
Roy S, Schmeier S, Kaczkowski B, Arner E, Alam T, Ozturk M, Tamgue O, Parihar SP, Kawaji H, Itoh M, Lassmann T, Carninci P, Hayashizaki Y, Forrest ARR, Guler R, Bajic VB, Brombacher F, Suzuki H .
2018 -
The FANTOM5 integrated expression atlas of miRNAs and their promoters
Nature Biotechnology 2017, doi:10.1038/nbt.3947
Rie DD, Abugessaisa I, Alam T, Arner E, Arner P, Ashoor H, Åström G, Babina M, Bertin N, Burroughs AM,Daub CO, Detmar M, Deviatiiarov R, Fort A, Goldowitz D, Guhl S, Harshbarger J, Hasegawa A, Hashimoto K, Heutink P, Huang E, Klinken P, Lassmann T, Lecellier C, Lee W, Lizio M, Makeev V, Mathelier A, Medvedeva YA, Mungall C, Noma S, Ohshima M, Persson H, Roudnicky F, Sætrom P, Severin J, Summers KM, Tarui H, Vitting-Seerup K, Wells C, Winteringham L, Yamaguchi Y, Kawaji H, Sandelin A, Rehli M, the FANTOM consortium, Hayashizaki Y, Carninci P, Forrest ARR, HoonMJLde.
2017 -
DES-ncRNA: A knowledgebase for exploring information about human micro and long non-coding RNAs based on literature-mining
RNA Biology, 2017, doi:10.1080/15476286.2017.1312243
Salhi A, Essack M, Alam T, Bajic VP, Ma L, Radovanovic A, Marchand B, Schmeier S, Zhang Z, Bajic VB.
2017 -
An atlas ofhumanlong non-coding RNAs reveals their heterogeneity and evidence of their widespread function
Nature 2016, doi:10.1038/nature21374
Hon CC, Ramilowski JA, Harshbarger J, Bertin N, Rackham OJL, Gough J, Denisenko E, Schmeier S, Poulsen TM, Severin J, Lizio M, Kawaji H, Kasukawa T, Itoh M, Burroughs AM, Noma S, Djebal Si, Alam T, Medvedeva YA, Testa AC, Lipovich L, Yip CW, Abugessaisa I,Mendez M, Hasegawa A, Tang D, Lassmann T, Heutink P, Babina M, Wells CA, Kojima S, Nakamura Y, Suzuki H, Daub CO, HoonMJLde, Arner E, the FANTOM consortium, Hayashizaki Y, Carninci P,Forrest ARR.
2016 -
FARNA: Knowledgebase of Annotated Functions of Non-coding RNA Transcripts
Nucleic Acids Research 2016, doi:10.1093/nar/gkw973
Alam T, Uludag M, Essack M, Salhi A, Ashoor H, Hanks JB, Kapfer C, Mineta K, Gojobori T, Bajic VB.
2016 -
TcoF-DB v2: Update of the database of transcription cofactors and transcription factor interactions
Nucleic Acids Research 2016, doi:10.1093/nar/gkw1007
Schmeier S, Alam T, Essack M, Bajic VB.
2016 -
Insights into the Transcriptional Architecture of Behavioral Plasticity in the Honey Bee Apismellifera
Scientific Reports 2015 Jun 15;5:11136. doi: 10.1038/srep11136
Khamis, AM, Hamilton AR, Medvedeva YA, Alam T, Alam I, Essack M, Umylny B, Jankovic BR, Naeger NL, Suzuki M, Harbers M, Robinson GE, Bajic VB.
2015 -
Redefining the transcriptional regulatory dynamics in classical and alternative activated macrophage by deepCAGE transcriptomics
Nucleic Acids Research 2015 Aug 18;43(14):6969-82. doi: 10.1093/nar/gkv646
Roy S, Schmeier S, Arner E, Alam T, Parihar SP, Ozturk M, Tamgue O, Kawaji H, de Hoon MJ, Itoh M, Lassmann T, Carninci P, Hayashizaki Y, Forrest AR, Bajic VB, Guler R, Consortium FANTOM, Brombacher F, Suzuki H.
2015 -
Promoter analysis reveals globally differential regulation of human long non-coding RNA and protein-coding genes
PLoS One 2014 Oct 2;9(10):e109443. doi: 10.1371/journal.pone.0109443. eCollection 2014
Alam T, Medvedeva YA, Jia H, Brown JB, Lipovich L, Bajic VB.
2014 -
How to find a leucine in a haystack? Structure, ligand recognition and regulation of leucine-aspartic acid (LD) motifs
Biochemical Journal 2014 Jun 15;460(3):317-29. doi: 10.1042/BJ20140298
Alam T, Alazmi M, Gao X, Arold ST.
2014
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