Journal Articles

  1. Azgari C., Kilinc Z., Turhan B., Circi D., Adebali O.* (2021)
    The mutation profile of SARS-CoV-2 is primarily shaped by the host antiviral defense
    Viruses.

  2. Kose M.*, Canda E., Kagnici M., Aykut A., Adebali O., Durmaz A., Bircan A., Diniz G., Eraslan C., Kose E., Ünalp A., Yılmaz U., Ozyilmaz B., Özdemir T.R., Atik T., Uçar S.K., McFarland R., Taylor R.W., Brown G.K., Çoker M., Özkınay F. (2020)
    SURF1-related Leigh Syndrome: Clinical and molecular findings of 16 patients from Turkey
    Molecular Genetics and Metabolism Reports, 25.

  3. Piepoli S., Shamloo B., Bircan A., Adebali O., Erman B.* (2020)
    Molecular Biology of SARS-CoV-2
    Turkish Journal of Immunology, 2(8), 73-88.

  4. Adebali O.*, Bircan A., Circi D., Islek B., Kilinc Z., Selcuk B., Turhan B. (2020)
    Phylogenetic analysis of SARS-CoV-2 genomes in Turkey
    Turkish Journal of Biology, 44(3), 146-156.

  5. Gumerov V.M., Ortega D.R., Adebali O., Ulrich L.*, Zhulin I.B.* (2020)
    MiST 3.0: an updated microbial signal transduction database with an emphasis on chemosensory systems
    Nucleic Acids Research, 48(D1), D459–D464.

  6. Li W., Liu W., Kakoki A., Wang R., Adebali O., Sancar A.*, Jiang Y.* (2019)
    Nucleotide excision repair capacity increases during differentiation of human embryonic carcinoma cells into neurons and muscle cells
    Journal of Biological Chemistry, 15(294), 5914–5922.

  7. Yimit A., Adebali O., Sancar A.*, Jiang Y.* (2019)
    Differential damage and repair of anti-cancer drug cisplatin induced DNA-adducts across mouse organs
    Nature Communications, 10(1), 309.

  8. image from Genome-wide mapping of nucleotide excision repair with XR-seq.
    Hu J., Li W., Adebali O., Yang Y., Oztas O., Selby C.P., Sancar A.* (2019)
    Genome-wide mapping of nucleotide excision repair with XR-seq.
    Nature Protocols (Featured: From the Cover), 14(1), 248-282.

  9. Yang Y., Adebali O., Wu G., Selby C.P., Rashid N., Hogenesch J.B., Sancar A.* (2018)
    Cisplatin-DNA adduct repair of transcribed genes is controlled by two circadian programs in mouse tissues.
    PNAS, 21(115), E4777-E4785.

  10. Oztas O., Selby C.P., Sancar A.*, Adebali O.* (2018)
    Genome-wide Excision Repair in Arabidopsis is coupled to transcription and reflects circadian gene expression patterns.
    Nature Communications, 9(1), 1503.

  11. Li W., Adebali O., Yang Y., Selby C.P., Sancar A.* (2018)
    Single-nucleotide resolution dynamic repair maps of UV damage in Saccharomyces cerevisiae genome.
    PNAS, 115(15), E3408-E3415.

  12. Adebali O., Sancar A.*, Selby C.P.* (2017)
    Mfd translocase is necessary and sufficient for transcription-coupled repair in Escherichia coli.
    The Journal of Biological Chemistry, 292(45), 18386-18391.

  13. Hu J., Selby C.P., Adar S., Adebali O., Sancar A.* (2017)
    Molecular mechanism of DNA excision repair and excision repair maps of the human and E. coli genomes.
    The Journal of Biological Chemistry, 292(38), 15588-15597.

  14. Hu J.#, Adebali O.#, Adar S., Sancar A.* (2017)
    Dynamic maps of UV damage formation and repair.
    PNAS, 114(26), 6758-6763.

  15. Li W., Hu J., Adebali O., Adar S., Yang Y., Chiou Y., Sancar A.* (2017)
    Human genome-wide repair map of DNA damage caused by the cigarette smoke carcinogen benzo[a]pyrene.
    PNAS, 114(26), 6752-6757.

  16. Adebali O., Petukh M., Reznik A., Tishkov A., Upadhyay A., Zhulin I.B.* (2017)
    Class III histidine kinases: a recently accessorized kinase domain in putative modulators of type IV pili based motility.
    Journal of Bacteriology, 199(18), e00218-17.

  17. image from Genome-wide transcription-coupled repair in Escherichia coli is mediated by the Mfd translocase.
    Adebali O., Chiou Y., Hu J., Sancar A.*, Selby C.P.* (2017)
    Genome-wide transcription-coupled repair in Escherichia coli is mediated by the Mfd translocase.
    PNAS (Featured: From the Cover), 114(11), E2116-E2125.

  18. Upadhyay A.A., Fleetwood A.D., Adebali O., Finn R., Zhulin I.B.* (2016)
    Cache domains are dominant extracellular sensors for signal transduction in prokaryotes.
    PLOS Computational Biology , 12(4).

  19. Adebali O., Reznik A.O., Ory D.S., Zhulin, I.B.* (2016)
    Establishing the precise evolutionary history of a gene improves predicting disease-causing missense mutations.
    Genetics in Medicine, 18(10), 1029-1036.

  20. Adebali O.*, Ortega D.R., Zhulin I.B.* (2015)
    CDvist: a webserver for identification and visualization of conserved domains in protein sequences.
    Bioinformatics, 31(9), 1475–1477.

# Equal Contribution | * Corresponding Author