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Raza Ur Rahman, Ph.D.

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My aim is to use computational systems biology methods to diagnose and find cures for diseases. In my current position we are focused on liver fibrosis. I am interested in the integrative data analysis of multi-omics to identify biomarkers for disease prediction and progression using long non-coding RNAs (lncRNAs). The ultimate aim is to find next generation medicines using long non-coding RNAs.

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Kaczmarczyk L, Bansal V, Rajput A, Rahman RU, Krzyzak W, Degen J, Poll S, Fuhrmann M, Bonn S, Jackson WS. Correction: Tagger-A Swiss army knife for multiomics to dissect cell type-specific mechanisms of gene expression in mice. PLoS Biol. 2022 Nov; 20(11):e3001882. PMID: 36318742; PMCID: PMC9625337.
    Citations:    Fields:    
  2. Fraschilla I, Amatullah H, Rahman RU, Jeffrey KL. Immune chromatin reader SP140 regulates microbiota and risk for inflammatory bowel disease. Cell Host Microbe. 2022 10 12; 30(10):1370-1381.e5. PMID: 36130593.
    Citations: 1     Fields:    Translation:HumansAnimalsCells
  3. Li W, Chen JY, Sun C, Sparks RP, Pantano L, Rahman RU, Moran SP, Pondick JV, Kirchner R, Wrobel D, Bieler M, Sauer A, Ho Sui SJ, Doerner JF, Rippmann JF, Mullen AC. Nanchangmycin regulates FYN, PTK2, and MAPK1/3 to control the fibrotic activity of human hepatic stellate cells. Elife. 2022 05 26; 11. PMID: 35617485; PMCID: PMC9135407.
    Citations:    Fields:    Translation:HumansCells
  4. Adiliaghdam F, Amatullah H, Digumarthi S, Saunders TL, Rahman RU, Wong LP, Sadreyev R, Droit L, Paquette J, Goyette P, Rioux JD, Hodin R, Mihindukulasuriya KA, Handley SA, Jeffrey KL. Human enteric viruses autonomously shape inflammatory bowel disease phenotype through divergent innate immunomodulation. Sci Immunol. 2022 04 08; 7(70):eabn6660. PMID: 35394816; PMCID: PMC9416881.
    Citations: 7     Fields:    Translation:HumansAnimalsCells
  5. Karen A, Abd-Elfattah A, Nasef M, Rahman RU, Ihsan MB, Muthukumaran S. Factors affecting outcomes of embryo transfer in dromedary camels: A retrospective study. Reprod Domest Anim. 2022 Apr; 57(4):402-417. PMID: 34971452.
    Citations: 1     Fields:    Translation:Animals
  6. Rahman RU, Liebhoff AM, Bansal V, Fiosins M, Rajput A, Sattar A, Magruder DS, Madan S, Sun T, Gautam A, Heins S, Liwinski T, Bethune J, Trenkwalder C, Fluck J, Mollenhauer B, Bonn S. SEAweb: the small RNA Expression Atlas web application. Nucleic Acids Res. 2020 01 08; 48(D1):D204-D219. PMID: 31598718; PMCID: PMC6943056.
    Citations: 9     Fields:    Translation:HumansAnimals
  7. Kaczmarczyk L, Bansal V, Rajput A, Rahman RU, Krzyzak W, Degen J, Poll S, Fuhrmann M, Bonn S, Jackson WS. Tagger-A Swiss army knife for multiomics to dissect cell type-specific mechanisms of gene expression in mice. PLoS Biol. 2019 08; 17(8):e3000374. PMID: 31393866; PMCID: PMC6701817.
    Citations: 7     Fields:    Translation:AnimalsCells
  8. Wanner N, Vornweg J, Combes A, Wilson S, Plappert J, Rafflenbeul G, Puelles VG, Rahman RU, Liwinski T, Lindner S, Grahammer F, Kretz O, Wlodek ME, Romano T, Moritz KM, Boerries M, Busch H, Bonn S, Little MH, Bechtel-Walz W, Huber TB. DNA Methyltransferase 1 Controls Nephron Progenitor Cell Renewal and Differentiation. J Am Soc Nephrol. 2019 01; 30(1):63-78. PMID: 30518531; PMCID: PMC6317605.
    Citations: 32     Fields:    Translation:AnimalsCells
  9. Mandad S, Rahman RU, Centeno TP, Vidal RO, Wildhagen H, Rammner B, Keihani S, Opazo F, Urban I, Ischebeck T, Kirli K, Benito E, Fischer A, Yousefi RY, Dennerlein S, Rehling P, Feussner I, Urlaub H, Bonn S, Rizzoli SO, Fornasiero EF. The codon sequences predict protein lifetimes and other parameters of the protein life cycle in the mouse brain. Sci Rep. 2018 11 15; 8(1):16913. PMID: 30443017.
    Citations: 12     Fields:    Translation:AnimalsCells
  10. Fornasiero EF, Mandad S, Wildhagen H, Alevra M, Rammner B, Keihani S, Opazo F, Urban I, Ischebeck T, Sakib MS, Fard MK, Kirli K, Centeno TP, Vidal RO, Rahman RU, Benito E, Fischer A, Dennerlein S, Rehling P, Feussner I, Bonn S, Simons M, Urlaub H, Rizzoli SO. Precisely measured protein lifetimes in the mouse brain reveal differences across tissues and subcellular fractions. Nat Commun. 2018 10 12; 9(1):4230. PMID: 30315172; PMCID: PMC6185916.
    Citations: 95     Fields:    Translation:Animals
  11. Rahman RU, Gautam A, Bethune J, Sattar A, Fiosins M, Magruder DS, Capece V, Shomroni O, Bonn S. Oasis 2: improved online analysis of small RNA-seq data. BMC Bioinformatics. 2018 02 14; 19(1):54. PMID: 29444641.
    Citations: 24     Fields:    Translation:Cells
  12. Hatje K, Rahman RU, Vidal RO, Simm D, Hammesfahr B, Bansal V, Rajput A, Mickael ME, Sun T, Bonn S, Kollmar M. The landscape of human mutually exclusive splicing. Mol Syst Biol. 2017 12 14; 13(12):959. PMID: 29242366.
    Citations: 28     Fields:    Translation:HumansAnimalsCells
  13. Centeno TP, Shomroni O, Hennion M, Halder R, Vidal R, Rahman RU, Bonn S. Genome-wide chromatin and gene expression profiling during memory formation and maintenance in adult mice. Sci Data. 2016 10 11; 3:160090. PMID: 27727234.
    Citations: 4     Fields:    Translation:AnimalsCells
  14. Halder R, Hennion M, Vidal RO, Shomroni O, Rahman RU, Rajput A, Centeno TP, van Bebber F, Capece V, Garcia Vizcaino JC, Schuetz AL, Burkhardt S, Benito E, Navarro Sala M, Javan SB, Haass C, Schmid B, Fischer A, Bonn S. DNA methylation changes in plasticity genes accompany the formation and maintenance of memory. Nat Neurosci. 2016 Jan; 19(1):102-10. PMID: 26656643.
    Citations: 145     Fields:    Translation:AnimalsCells
  15. Alonso-Barba JI, Rahman RU, Wittbrodt J, Mateo JL. MEPD: medaka expression pattern database, genes and more. Nucleic Acids Res. 2016 Jan 04; 44(D1):D819-21. PMID: 26450962; PMCID: PMC4702773.
    Citations: 4     Fields:    Translation:Animals
  16. Capece V, Garcia Vizcaino JC, Vidal R, Rahman RU, Pena Centeno T, Shomroni O, Suberviola I, Fischer A, Bonn S. Oasis: online analysis of small RNA deep sequencing data. Bioinformatics. 2015 Jul 01; 31(13):2205-7. PMID: 25701573.
    Citations: 37     Fields:    Translation:Humans
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.