Areas of expertise
- Applied Informatics
- Computing, Simulation & Modelling
- Soil Resources
Dr. Rezwan is the Lecturer in Bioinformatics at School of Water, Energy and Environment with over 15 years of experience in bioinformatics and computational methods. He graduated with a Ph.D. in Bioinformatics from the University of Hertfordshire (UK) in 2012 and joined the University of Southampton as a research fellow in bioinformatics. His initial research involved data mining big scale genetic and epigenetic data to identify novel genes and gene regulatory networks. Currently, Dr. Rezwan’s research mainly focuses on basic and applied problems in bioinformatics using machine learning and data integration. He has extensive experience of genome-wide transcriptomic, genetic, and epigenetic analysis and next generation sequencing data analysis. He has track record of developing bioinformatics tools and pipelines, including: GEO import, Single Sample DNA Methylation Data Analysis.
Currently, he is leading a metagenomics project revealing the law of natural succession of soil bacteria community in mining subsidence area. He is the PI in a machine learning project titled "Predictive agricultural models for improving food security in Turkey". In addition, he is involved (as the Co-I) in a NERC funded project titled Restoring Resilient Ecosystems (RestREco)(NE/V006444/1). Dr. Rezwan was awarded the prestigious Turing fellowship and his research at Turing included a pilot project applying deep learning approach on patient data from Electronic Health Record Systems (EHRS).
Dr. Rezwan has over 12 years of experience in teaching and is actively involved in teaching. He is currently leading two modules (Introduction to Bioinformatics using Python and Application of Bioinformatics in Epigenetics, Proteomics and Metagenomics) and teaching in the MSc in Applied Bioinformatics. He is also supervising five doctoral students.
He is also an active member of the Bioinformatics Group in AgriFood. He is the member of FoodBioSystems Doctoral Training Program Training sub-committee. He is a Fellow of Higher Education Academy (FHEA) and has obtained the Postgraduate Certificate in Academic Practice.
Dr. Rezwan’s research mainly focuses on basic and applied problems in bioinformatics using data integration and data mining to analyse genetic, epigenetic, and metagenomic data. His interest also involves in pattern recognition and machine learning for analysing, understanding and improving computational prediction for identifying genes, their regulatory regions and other biological features.
16S amplicon analyses
Natural succession of soil bacteria community in mining subsidence area: The aim of the project is to reveal the law of natural succession of soil bacteria community in mining subsidence area. In this project, soil sampling was performed at Daliuta Mine in the Shenfu-Dongsheng coal field (China) in the subsidence area (5years, 10years, 15years and 20years) and in an adjacent unexploited area and further the law and driving factors of natural succession of soil microbial community in mining subsidence area studied using 16S rRNA sequence analysis.
Quantification of biodiversity and community complexity/RestREco: The main objective of the RestREco project is to determine the most efficient approaches to restore complex, multi-functional and resilient ecosystems, thus securing net environmental gain. This part of the project involved multi-trophic assessment of above and below ground diversity aims to quantify net community complexity. It assesses soil microbial community structure using 16S rRNA gene amplicon sequencing where ~400 16S libraries with c. 30,000 raw 150bp paired-end reads per sample will be sequenced using the Illumina NovoSeq platform.
Application of machine learning
Predictive agricultural models for improving food security in Turkey: Climate change is known to have an impact on agricultural production due to temperature increases and changes in precipitation levels and patterns. In Turkey, where current climate conditions are ideal for wheat production, a temperature increase of 1 degree Celsius is expected to result in a decrease of 10-30% in wheat yield in the area. This project explores and develops preliminary models to predict future wheat yield based on meteorological data (temperature, light, rain and wind) and understand its use in policy intervention and decision making to improve sustainability and climate change adaptation capacity of agriculture to improve food security in Turkey.
Reducing potato losses by controlling black dot disease: The aims of this project are to use sophisticated photonics and associated machine learning and data integration method across the pre and postharvest continuum to create a predictive model for black dot incidence and severity during storage, and evaluate how resilience can be improved in response to different climate change scenarios. Further, metabolomic data is included to further improve the prediction models.
Epigenetic and transcriptomic
Evaluating the epigenetic and transcriptomic adaptations to climate change in oilseed rape (Brassica napus): The aim of this project is to provide a systems-level molecular and metabolic understanding of the impact of heat stress on yield and seed development of B. napus for UK-specific varieties. It will identify site-specific modification of DNA methylation in the B. napus genome susceptible to heat stress and perform transcriptome profiling using RNA-Seq, to identify key differentially expressed genes as a result of heat stress. The project is a collaboration between Cranfield University and University of Reading.
- University of Reading
- Bilecik Seyh Edebali University, Turkey
- China University of Mining and Technology, China
- University of Southampton, UK
- University of Memphis, USA
- University of Bergen, Norway
Articles In Journals
- Hammer B, Kadalayil L, Boateng E, Buschmann D, Rezwan FI, Wolff M, Reuter S, Bartel S, Knudsen TM, Svanes C, Holloway JW & Krauss-Etschmann S (2021) Preconceptional smoking alters spermatozoal miRNAs of murine fathers and affects offspring’s body weight, International Journal of Obesity, Available online 17 May 2021.
- Wang J, Zhang H, Rezwan FI, Relton C, Arshad SH & Holloway JW (2021) Pre-adolescence DNA methylation is associated with BMI status change from pre-to post-adolescence, Clinical Epigenetics, 13 (1) Article No. 64.
- Zhang H, Huang X, Han S, Rezwan FI, Karmaus W, Arshad H & Holloway JW (2021) Gaussian Bayesian network comparisons with graph ordering unknown, Computational Statistics and Data Analysis, 157 (May) Article No. 107156.
- Arefeen MA, Nimi ST, Rahman MS, Arshad SH, Holloway JW & Rezwan FI (2020) Prediction of lung function in adolescence using epigenetic aging: A machine learning approach, Methods and Protocols, 3 (4) Article No. 77.
- Amaral AFS, Imboden M, Wielscher M, Rezwan FI, Minelli C, Garcia-Aymerich J, Peralta GP, Auvinen J, Jeong A, Schaffner E, Beckmeyer-Borowko A, Holloway JW, Jarvelin MR, Probst-Hensch NM & Jarvis DL (2020) Role of DNA methylation in the association of lung function with body mass index: a two-step epigenetic Mendelian randomisation study, BMC Pulmonary Medicine, 20 (1) Article No. 171.
- Vehmeijer FO, Küpers LK. & Sharp GC. (2020) DNA methylation and body mass index from birth to adolescence: meta-analyses of epigenome-wide association studies, Genome Medicine, 12 (1) Article No. 105. Dataset/s: 10.6084/m9.figshare.13172873
- Kothalawala DM, Kadalayil L, Weiss VBN, Kyyaly MA, Arshad SH, Holloway JW & Rezwan FI (2020) Prediction models for childhood asthma: a systematic review, Pediatric Allergy and Immunology, 31 (6) 616-627.
- Sherwood WB, Kothalawala DM, Kadalayil L, Ewart S, Zhang H, Karmaus W, Arshad SH, Holloway JW & Rezwan FI (2020) Epigenome-wide association study reveals duration of breastfeeding is associated with epigenetic differences in children, International Journal of Environmental Research and Public Health, 17 (10) Article No. 3569.
- Sunny SK, Zhang H, Rezwan FI, Relton CL, Henderson AJ, Merid SK, Melén E, Hallberg J, Arshad SH, Ewart S & Holloway JW (2020) Changes of DNA methylation are associated with changes in lung function during adolescence, Respiratory Research, 21 (1) Article No. 80.
- Eze IC, Jeong A, Schaffner E, Rezwan FI, Ghantous A, Foraster M, Vienneau D, Kronenberg F, Herceg Z, Vineis P, Brink M, Wunderli JM, Schindler C, Cajochen C, Röösli M, Holloway JW, Imboden M & Probst-Hensch N (2020) Genome-wide DNA methylation in peripheral blood and long-term exposure to source-specific transportation noise and air pollution: The SAPALDIA Study, Environmental Health Perspectives, 128 (6) Article No. 067003.
- Merid SK & et al (2020) Epigenome-wide meta-analysis of blood DNA methylation in newborns and children identifies numerous loci related to gestational age, Genome Medicine, 12 (1) Article No. 25. Dataset/s: 10.6084/m9.figshare.11688762.v1
- Rezwan FI, Imboden M, Amaral AFS, Wielscher M, Jeong A, Triebner K, Real FG, Jarvelin MR, Jarvis D, Probst-Hensch NM & Holloway JW (2020) Association of adult lung function with accelerated biological aging, Aging-US, 12 (1) 518-542.
- Mørkve Knudsen GT, Rezwan FI, Johannessen A, Skulstad SM, Bertelsen RJ, Real FG, Krauss-Etschmann S, Patil V, Jarvis D, Arshad SH, Holloway JW & Svanes C (2019) Epigenome-wide association of father's smoking with offspring DNA methylation: a hypothesis-generating study, Environmental Epigenetics, 5 (4) Article No. dvz023.
- Sparago A, Verma A, Patricelli MG, Pignata L, Russo S, Calzari L, De Francesco N, Del Prete R, Palumbo O, Carella M, Mackay DJG, Rezwan FI, Angelini C, Cerrato F, Cubellis MV & Riccio A (2019) The phenotypic variations of multi-locus imprinting disturbances associated with maternal-effect variants of NLRP5 range from overt imprinting disorder to apparently healthy phenotype, Clinical Epigenetics, 11 (1) Article No. 190.
- Jiang Y, Wei J, Zhang H, Ewart S, Rezwan FI, Holloway JW, Arshad H & Karmaus W (2019) Epigenome wide comparison of DNA methylation profile between paired umbilical cord blood and neonatal blood on Guthrie cards, Epigenetics, Available online 09 December 2019 (5).
- Han L, Zhang H, Kaushal A, Rezwan FI, Kadalayil L, Karmaus W, Henderson AJ, Relton CL, Ring S, Arshad SH, Ewart SL & Holloway JW (2019) Changes in DNA methylation from pre- to post-adolescence are associated with pubertal exposures, Clinical Epigenetics, 11 (1) Article No. 176.
- Sherwood WB, Bion V, Lockett GA, Ziyab AH, Soto-Ramírez N, Mukherjee N, Kurukulaaratchy RJ, Ewart S, Zhang H, Arshad SH, Karmaus W, Holloway JW & Rezwan FI (2019) Duration of breastfeeding is associated with leptin (LEP) DNA methylation profiles and BMI in 10-year-old children, Clinical Epigenetics, 11 (1) Article No. 128.
- Imboden M. et al (2019) Epigenome-wide association study of lung function level and its change, European Respiratory Journal, 54 (1) Article No. 1900457.
- Everson TM, Zhang H, Lockett GA, Kaushal A, Forthofer M, Ewart SL, Burrows K, Relton CL, Sharp GC, Henderson AJ, Patil VK, Rezwan FI, Arshad SH, Holloway JW & Karmaus W. (2019) Epigenome-wide association study of asthma and wheeze characterizes loci within HK1, Allergy, Asthma and Clinical Immunology, 15 Article No. 43.
- Sikdar S, Joehanes R, Joubert BR, Xu CJ, Vives-Usano M, Rezwan FI, Felix JF, Ward JM, Guan W, Richmond RC, Brody JA, Küpers LK, Baïz N, Håberg SE, Smith JA, Reese SE, Aslibekyan S, Hoyo C, Dhingra R, Markunas CA, Xu T, Reynolds LM, Just AC, Mandaviya PR, Ghantous A, Bennett BD, Wang T, Bakulski KM, Melen E, Zhao S, Jin J, Herceg Z, Meurs JV, Taylor JA, Baccarelli AA, Murphy SK, Liu Y, Munthe-Kaas MC, Deary IJ, Nystad W, Waldenberger M, Annesi-Maesano I, Conneely K, Jaddoe VW, Arnett D, Snieder H, Kardia SL, Relton CL, Ong KK, Ewart S, Moreno-Macias H, Romieu I, Sotoodehnia N, Fornage M, Motsinger-Reif A, Koppelman GH, Bustamante M, Levy D & London SJ (2019) Comparison of smoking-related DNA methylation between newborns from prenatal exposure and adults from personal smoking, Epigenomics, Available online 19 September 2019 (13).
- Kazmi N et al (2019) Hypertensive Disorders of Pregnancy and DNA Methylation in Newborns, Hypertension, 74 (2) 375-383.
- Jeffries AR et al (2019) Growth disrupting mutations in epigenetic regulatory molecules are associated with abnormalities of epigenetic aging, Genome Research, 29 (7) 1057-1066.
- Krzyzewska IM, Alders M, Maas SM, Bliek J, Venema A, Henneman P, Rezwan FI, vd Lip K, Mul AN, Mackay DJ & Mannens MM (2019) Genome-wide methylation profiling of Beckwith-Wiedemann syndrome patients without molecular confirmation after routine diagnostics, Clinical Epigenetics, 11 (1) Article No. 53.
- Reese SE et al (2019) Epigenome-wide meta-analysis of DNA methylation and childhood asthma, Journal of Allergy and Clinical Immunology, 143 (6) 2062-2074.
- Losol P, Rezwan FI, Patil VK, Venter C, Ewart S, Zhang H, Arshad SH, Karmaus W & Holloway JW (2019) Effect of gestational oily fish intake on the risk of allergy in children may be influenced by FADS1/2, ELOVL5 expression and DNA methylation, Genes and Nutrition, 14 (1) Article No. 20.
- Wiklund P, Karhunen V, Richmond RC, Parmar P, Rodriguez A, De Silva M, Wielscher M, Rezwan FI, Richardson TG, Veijola J, Herzig KH, Holloway JW, Relton CL, Sebert S & Järvelin MR (2019) DNA methylation links prenatal smoking exposure to later life health outcomes in offspring, Clinical Epigenetics, 11 (1) Article No. 97.
- Zhang H, Kaushal A, Merid SK, Melén E, Pershagen G, Rezwan FI, Han L, Ewart S, Arshad SH, Karmaus W & Holloway JW (2019) DNA methylation and allergic sensitizations: A genome-scale longitudinal study during adolescence, Allergy, 74 (6) 1166-1175.
- Küpers LK et al (2019) Meta-analysis of epigenome-wide association studies in neonates reveals widespread differential DNA methylation associated with birthweight, Nature Communications, 10 (1) Article No. 1893.
- Stalman SE et al (2018) Genetic analyses in small-for-gestational-age newborns, Journal of Clinical Endocrinology and Metabolism, 103 (3) 917-925.
- Begemann M et al (2018) Maternal variants in NLRP and other maternal effect proteins are associated with multilocus imprinting disturbance in offspring, Journal of Medical Genetics, 55 (7) 497-504.
- Beckmeyer-Borowko A, Imboden M, Rezwan FI, Wielscher M, Amaral AF, Jeong A, Schaffner E, Auvinen J, Sebert S, Karhunen V, Bettschart R, Turk A, Pons M, Stolz D, Kronenberg F, Arathimos R, Sharp GC, Relton C, Henderson AJ, Jarvelin MR, Jarvis D, Holloway JW & Probst-Hensch NM (2018) SERPINA1 methylation and lung function in tobacco-smoke exposed European children and adults: A meta-analysis of ALEC population-based cohorts, Respiratory Research, 19 (1) Article No. 156.
- Mørkve Knudsen T, Rezwan F, Jiang Y, Karmaus W, Svanes C & Holloway J (2018) Transgenerational and intergenerational epigenetic inheritance in allergic diseases, Journal of Allergy and Clinical Immunology, 142 (3) 765-772.
- Sharp GC et al (2017) Maternal BMI at the start of pregnancy and offspring epigenome-wide DNA methylation: Findings from the pregnancy and childhood epigenetics (PACE) consortium, Human Molecular Genetics, 26 (20) 4067-4085.
- Machin M, Amaral AF, Wielscher M, Rezwan FI, Imboden M, Jarvelin MR, Adcock IM, Probst-Hensch N, Holloway JW & Jarvis DL (2017) Systematic review of lung function and COPD with peripheral blood DNA methylation in population based studies, BMC Pulmonary Medicine, 17 (1) Article No. 54.
- Lockett G, Soto-Ramírez N, Ray M, Everson T, Xu C, Patil V, Terry W, Kaushal A, Rezwan F, Ewart SL, Gehring U, Postma D, Koppelman G, Arshad S, Zhang H, Karmaus W & Holloway J (2016) Association of season of birth with DNA methylation and allergic disease, Allergy, 71 (9) 1314-1324.
- Janjanam VD, Mukherjee N, Lockett GA, Rezwan FI, Kurukulaaratchy R, Mitchell F, Zhang H, Arshad H, Holloway JW & Karmaus W (2016) Tetanus vaccination is associated with differential DNA-methylation: Reduces the risk of asthma in adolescence, Vaccine, 34 (51) 6493-6501.
- Docherty LE, Rezwan FI, Poole RL, Turner CL, Kivuva E, Maher ER, Smithson SF, Hamilton-Shield JP, Patalan M, Gizewska M, Peregud-Pogorzelski J, Beygo J, Buiting K, Horsthemke B, Soellner L, Begemann M, Eggermann T, Baple E, Mansour S, Temple IK & Mackay DJG (2015) Mutations in NLRP5 are associated with reproductive wastage and multilocus imprinting disorders in humans, Nature Communications, 6 (1) Article No. 8086.
- Rezwan F, Docherty L, Poole R, Lockett G, Arshad S, Holloway J, Temple I & Mackay D (2015) A statistical method for single sample analysis of humanmethylation450 array data: Genome-wide methylation analysis of patients with imprinting disorders, Clinical Epigenetics, 7 (1) Article No. 48.
- Quraishi BM, Zhang H, Everson TM, Ray M, Lockett GA, Holloway JW, Tetali SR, Arshad SH, Kaushal A, Rezwan FI & Karmaus W (2015) Identifying CpG sites associated with eczema via random forest screening of epigenome-scale DNA methylation, Clinical Epigenetics, 7 (1) Article No. 68.
- Soellner L, Monk D, Rezwan F, Begemann M, Mackay D & Eggermann T (2015) Congenital imprinting disorders: Application of multilocus and high throughput methods to decipher new pathomechanisms and improve their management, Molecular and Cellular Probes, 29 (5) 282-290.
- Rezwan F, Poole R, Prescott T, Walker J, Temple IK & Mackay D (2014) Very small deletions within the NESP55 gene in pseudohypoparathyroidism type 1b, European Journal of Human Genetics, 23 (4) 494-499.
- Docherty LE, Rezwan FI, Poole RL, Jagoe H, Lake H, Lockett GA, Arshad H, Wilson DI, Holloway JW, Temple IK & Mackay DJ (2014) Genome-wide DNA methylation analysis of patients with imprinting disorders identifies differentially methylated regions associated with novel candidate imprinted genes, Journal of Medical Genetics, 51 (4) 229-238.
- Zhang H, Tong X, Holloway JW, Rezwan FI, Lockett GA, Patil V, Ray M, Everson TM, Soto-Ramírez N, Arshad SH, Ewart S & Karmaus W (2014) The interplay of DNA methylation over time with Th2 pathway genetic variants on asthma risk and temporal asthma transition, Clinical Epigenetics, 6 (1) Article No. 8.
- Rayner TF, Rezwan FI, Lukk M, Bradley XZ, Farne A, Holloway E, Malone J, Williams E & Parkinson H (2009) MAGETabulator, a suite of tools to support the microarray data format MAGE-TAB, Bioinformatics, 25 (2) 279-280.
- Parkinson H, Kapushesky M, Kolesnikov N, Rustici G, Shojatalab M, Abeygunawardena N, Berube H, Dylag M, Emam I, Farne A, Holloway E, Lukk M, Malone J, Mani R, Pilicheva E, Rayner TF, Rezwan F, Sharma A, Williams E, Bradley XZ, Adamusiak T, Brandizi M, Burdett T, Coulson R, Krestyaninova M, Kurnosov P, Maguire E, Neogi SG, Rocca-Serra P, Sansone SA, Sklyar N, Zhao M, Sarkans U & Brazma A. (2009) ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression, Nucleic Acids Research, 37 (Suppl 1) D868-D872.
- Robinson M, González Castellano C, Rezwan F, Adams R, Davey N, Rust A & Sun Y (2008) Combining experts in order to identify binding sites in yeast and mouse genomic data, Neural Networks, 21 (6) 856-861.