Tavakoli S - Search Results

1

Probing enzyme-dependent pseudouridylation using direct RNA sequencing to assess neuronal epitranscriptome plasticity.

Fanari O, Tavakoli S, Qiu Y, Makhamreh A, Nian K, Akeson S, Meseonznik M, McCormick CA, Bloch D, Gamper H, Jain M, Hou YM, Wanunu M, Rouhanifard SH. Fanari O, et al. Among authors: tavakoli s. bioRxiv [Preprint]. 2024 Nov 26:2024.03.26.586895. doi: 10.1101/2024.03.26.586895. bioRxiv. 2024. PMID: 38585714 Free PMC article. Preprint.

2

Click chemistry-based amplification and detection of endogenous RNA and DNA molecules in situ using clampFISH probes.

Tavakoli S, Liu Y, Potts JL, Rouhanifard SH. Tavakoli S, et al. Methods Enzymol. 2020;641:459-476. doi: 10.1016/bs.mie.2020.04.049. Epub 2020 Jun 15. Methods Enzymol. 2020. PMID: 32713535

3

Semi-quantitative detection of pseudouridine modifications and type I/II hypermodifications in human mRNAs using direct long-read sequencing.

Tavakoli S, Nabizadeh M, Makhamreh A, Gamper H, McCormick CA, Rezapour NK, Hou YM, Wanunu M, Rouhanifard SH. Tavakoli S, et al. Nat Commun. 2023 Jan 19;14(1):334. doi: 10.1038/s41467-023-35858-w. Nat Commun. 2023. PMID: 36658122 Free PMC article.

4

Multicellular, IVT-derived, unmodified human transcriptome for nanopore-direct RNA analysis.

McCormick CA, Akeson S, Tavakoli S, Bloch D, Klink IN, Jain M, Rouhanifard SH. McCormick CA, et al. Among authors: tavakoli s. bioRxiv [Preprint]. 2024 May 28:2023.04.06.535889. doi: 10.1101/2023.04.06.535889. bioRxiv. 2024. Update in: GigaByte. 2024 Jun 17;2024:gigabyte129. doi: 10.46471/gigabyte.129 PMID: 37066160 Free PMC article. Updated. Preprint.

5

Multicellular, IVT-derived, unmodified human transcriptome for nanopore-direct RNA analysis.

McCormick CA, Akeson S, Tavakoli S, Bloch D, Klink IN, Jain M, Rouhanifard SH. McCormick CA, et al. Among authors: tavakoli s. GigaByte. 2024 Jun 17;2024:gigabyte129. doi: 10.46471/gigabyte.129. eCollection 2024. GigaByte. 2024. PMID: 38962390 Free PMC article.

6

Nanopore signal deviations from pseudouridine modifications in RNA are sequence-specific: quantification requires dedicated synthetic controls.

Makhamreh A, Tavakoli S, Fallahi A, Kang X, Gamper H, Nabizadehmashhadtoroghi M, Jain M, Hou YM, Rouhanifard SH, Wanunu M. Makhamreh A, et al. Among authors: tavakoli s. Sci Rep. 2024 Sep 28;14(1):22457. doi: 10.1038/s41598-024-72994-9. Sci Rep. 2024. PMID: 39341872 Free PMC article.

7

Ubiquitin-specific peptidases in lymphoma: a path to novel therapeutics.

Samareh Salavatipour M, Tavakoli S, Halimi A, Tavoosi S, Baghsheikhi AH, Talebi-Taheri A, Niloufari M, Salehi Z, Verdi J, Rahgozar S, Mosavi-Jarrahi A, Ahmadvand M. Samareh Salavatipour M, et al. Among authors: tavakoli s. Front Pharmacol. 2024 Nov 27;15:1356634. doi: 10.3389/fphar.2024.1356634. eCollection 2024. Front Pharmacol. 2024. PMID: 39664521 Free PMC article.

8

Automatic classification of fungal-fungal interactions using deep leaning models.

Mansourvar M, Funk J, Petersen SD, Tavakoli S, Hoof JB, Corcoles DL, Pittroff SM, Jelsbak L, Jensen NB, Ding L, Frandsen RJN. Mansourvar M, et al. Among authors: tavakoli s. Comput Struct Biotechnol J. 2024 Nov 14;23:4222-4231. doi: 10.1016/j.csbj.2024.11.027. eCollection 2024 Dec. Comput Struct Biotechnol J. 2024. PMID: 39655263 Free PMC article.

9

Functional regression clustering with multiple functional gene expressions.

Conde S, Tavakoli S, Ezer D. Conde S, et al. Among authors: tavakoli s. PLoS One. 2024 Nov 25;19(11):e0310991. doi: 10.1371/journal.pone.0310991. eCollection 2024. PLoS One. 2024. PMID: 39585813 Free PMC article.

10

Discovery of (2R,4R)-4-((S)-2-Amino-3-methylbutanamido)-2-(4-boronobutyl)pyrrolidine-2-carboxylic Acid (AZD0011), an Actively Transported Prodrug of a Potent Arginase Inhibitor to Treat Cancer.

Mlynarski SN, Aquila BM, Cantin S, Cook S, Doshi A, Finlay MRV, Gangl ET, Grebe T, Gu C, Kawatkar SP, Petersen J, Pop-Damkov P, Schuller AG, Shao W, Shields JD, Simpson I, Tavakoli S, Tentarelli S, Throner S, Wang H, Wang J, Wu D, Ye Q. Mlynarski SN, et al. Among authors: tavakoli s. J Med Chem. 2024 Dec 12;67(23):20827-20841. doi: 10.1021/acs.jmedchem.4c02309. Epub 2024 Nov 21. J Med Chem. 2024. PMID: 39572889

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