URochester Medicine / Labs / O'Connell Lab / Publications

Publications from the O'Connell Lab

1. Park BJ
2. Hua S
3. Casler KD
4. Cefaloni E
5. Ayers MC
6. Lake RF
7. Murphy KE
8. Vertino PM
9. O'Connell MR
10. Murphy PJ
CUT&Tag overcomes biases of ChIP and establishes chromatin patterns for repetitive genomic loci.; iScience; Vol 28(11), pp. 113757. 2025 Oct 13.
1. Thalalla Gamage S
2. Khoogar R
3. Howpay Manage S
4. DaRos JT
5. Crawford MC
6. Georgeson J
7. Polevoda BV
8. Sanders C
9. Lee KA
10. Nance KD
11. Iyer V
12. Kustanovich A
13. Perez M
14. Thu CT
15. Nance SR
16. Amin R
17. Miller CN
18. Holewinski RJ
19. Das S
20. Meyer TJ
21. Koparde V
22. Yang A
23. Jailwala P
24. Nguyen JT
25. Andresson T
26. Hunter K
27. Gu S
28. Mock BA
29. Edmondson EF
30. Difilippantonio S
31. Chari R
32. Schwartz S
33. O'Connell MR
34. Wu CC
35. Meier JL
Transfer RNA acetylation regulates in vivo mammalian stress signaling.; Science advances; Vol 11(12), pp. eads2923. 2025 Mar 19.
1. Park BJ
2. Hua S
3. Casler KD
4. Cefaloni E
5. Ayers MC
6. Lake RF
7. Murphy KE
8. Vertino PM
9. O'Connell MR
10. Murphy PJ
CUT&Tag Identifies Repetitive Genomic Loci that are Excluded from ChIP Assays.; bioRxiv : the preprint server for biology. 2025 Feb 05.
1. Thalalla Gamage S
2. Khoogar R
3. Howpay Manage S
4. Crawford MC
5. Georgeson J
6. Polevoda BV
7. Sanders C
8. Lee KA
9. Nance KD
10. Iyer V
11. Kustanovich A
12. Perez M
13. Thu CT
14. Nance SR
15. Amin R
16. Miller CN
17. Holewinski RJ
18. Meyer T
19. Koparde V
20. Yang A
21. Jailwala P
22. Nguyen JT
23. Andresson T
24. Hunter K
25. Gu S
26. Mock BA
27. Edmondson EF
28. Difilippantonio S
29. Chari R
30. Schwartz S
31. O'Connell MR
32. Wu CC
33. Meier JL
Transfer RNA acetylation regulates in vivo mammalian stress signaling.; bioRxiv : the preprint server for biology. 2024 Jul 28.
1. Liu L
2. Xu Z
3. Molina Vargas AM
4. Dollery SJ
5. Schrlau MG
6. Cormier D
7. O'Connell MR
8. Tobin GJ
9. Du K
Aerosol Jet Printing-Enabled Dual-Function Electrochemical and Colorimetric Biosensor for SARS-CoV-2 Detection.; Analytical chemistry. 2023 Jul 28.
1. Hollinger J
2. Wu J
3. Awayda KM
4. O'Connell MR
5. Yao P
Expression and purification of the mitochondrial transmembrane protein FAM210A in Escherichia coli.; Protein expression and purification; Vol 210, pp. 106322. 2023 Jun 15.
1. VanderWal AR
2. Park JU
3. Polevoda B
4. Nicosia JK
5. Molina Vargas AM
6. Kellogg EH
7. O'Connell MR
Csx28 is a membrane pore that enhances CRISPR-Cas13b-dependent antiphage defense.; Science (New York, N.Y.); Vol 380(6643), pp. 410-415. 2023 Apr 27.
1. Knott GJ
2. Lapinaite A
3. O'Connell MR
Methods special issue: RNA-targeting technologies.; Methods (San Diego, Calif.); Vol 212, pp. 10-11. 2023 Feb 13.
1. Molina Vargas AM
2. Sinha S
3. Osborn R
4. Arantes PR
5. Patel A
6. Dewhurst S
7. Hardy DJ
8. Cameron A
9. Palermo G
10. O'Connell MR
New design strategies for ultra-specific CRISPR-Cas13a-based RNA detection with single-nucleotide mismatch sensitivity.; Nucleic acids research. 2023 Jan 30.
1. Sinha S
2. Molina Vargas AM
3. Arantes PR
4. Patel A
5. O'Connell MR
6. Palermo G
Unveiling the RNA-mediated allosteric activation discloses functional hotspots in CRISPR-Cas13a.; Nucleic acids research. 2023 Jan 30.
1. Joseph Davis Burris B
2. Moises Molina Vargas A
3. Park BJ
4. O'Connell MR
Optimization of specific RNA knockdown in mammalian cells with CRISPR-Cas13.; Methods (San Diego, Calif.). 2022 Aug 17.
1. Walker EJ
2. Bettinger JQ
3. Welle KA
4. Hryhorenko JR
5. Molina Vargas AM
6. O'Connell MR
7. Ghaemmaghami S
Protein folding stabilities are a major determinant of oxidation rates for buried methionine residues.; The Journal of biological chemistry. 2022 Mar 25.
1. Broly M
2. Polevoda BV
3. Awayda KM
4. Tong N
5. Lentini J
6. Besnard T
7. Deb W
8. O'Rourke D
9. Baptista J
10. Ellard S
11. Almannai M
12. Hashem M
13. Abdulwahab F
14. Shamseldin H
15. Al-Tala S
16. Alkuraya FS
17. Leon A
18. van Loon RLE
19. Ferlini A
20. Sanchini M
21. Bigoni S
22. Ciorba A
23. van Bokhoven H
24. Iqbal Z
25. Al-Maawali A
26. Al-Murshedi F
27. Ganesh A
28. Al-Mamari W
29. Lim SC
30. Pais LS
31. Brown N
32. Riazuddin S
33. Bézieau S
34. Fu D
35. Isidor B
36. Cogné B
37. O'Connell MR
THUMPD1 bi-allelic variants cause loss of tRNA acetylation and a syndromic neurodevelopmental disorder.; American journal of human genetics. 2022 Feb 11.
1. Waitkus J
2. Chang Y
3. Liu L
4. Puttaswamy SV
5. Chung T
6. Vargas AMM
7. Dollery SJ
8. O'Connell MR
9. Cai H
10. Tobin GJ
11. Bhalla N
12. Du K
Gold Nanoparticle Enabled Localized Surface Plasmon Resonance on Unique Gold Nanomushroom Structures for On-Chip CRISPR-Cas13a Sensing.; Advanced materials interfaces; Vol 10(1). 2022 Jan 27.
1. Liu L
2. Xu Z
3. Awayda K
4. Dollery SJ
5. Bao M
6. Fan J
7. Cormier D
8. O'Connell M
9. Tobin GJ
10. Du K
Gold Nanoparticle-Labeled CRISPR-Cas13a Assay for the Sensitive Solid-State Nanopore Molecular Counting.; Advanced materials technologies; Vol 7(3). 2022 Jan 22.
1. Davis BJ
2. O'Connell MR
Put on Your Para-spectacles: The Development of Optimized CRISPR-Cas13-Based Approaches to Image RNA Dynamics in Real Time.; Molecular cell; Vol 77(2). 2020 Jan 16.
1. Tambe A
2. East-Seletsky A
3. Knott GJ
4. Doudna JA
5. O'Connell MR
RNA Binding and HEPN-Nuclease Activation Are Decoupled in CRISPR-Cas13a.; Cell reports; Vol 24(4). 2018 Jul 24.
1. O'Connell M
Molecular Mechanisms of RNA-Targeting by Cas13-containing Type VI CRISPR-Cas Systems.; Journal of molecular biology. 2018 Jun 22.
1. De Franco S
2. O'Connell MR
3. Vandevenne M
Engineering RNA-Binding Proteins by Modular Assembly of RanBP2-Type Zinc Fingers.; Methods in molecular biology (Clifton, N.J.); Vol 1867. 2018.
1. Knott GJ
2. East-Seletsky A
3. Cofsky JC
4. Holton JM
5. Charles E
6. O'Connell MR
7. Doudna JA
Guide-bound structures of an RNA-targeting A-cleaving CRISPR-Cas13a enzyme.; Nature structural & molecular biology; Vol 24(10). 2017 Oct.
1. East-Seletsky A
2. O'Connell MR
3. Burstein D
4. Knott GJ
5. Doudna JA
RNA Targeting by Functionally Orthogonal Type VI-A CRISPR-Cas Enzymes.; Molecular cell; Vol 66(3). 2017 May 04.
1. East-Seletsky A
2. O'Connell MR
3. Knight SC
4. Burstein D
5. Cate JH
6. Tjian R
7. Doudna JA
Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection.; Nature; Vol 538(7624). 2016 Oct 13.
1. Nelles DA
2. Fang MY
3. O'Connell MR
4. Xu JL
5. Markmiller SJ
6. Doudna JA
7. Yeo GW
Programmable RNA Tracking in Live Cells with CRISPR/Cas9.; Cell; Vol 165(2). 2016 Apr 07.
1. Ma E
2. Harrington LB
3. O'Connell MR
4. Zhou K
5. Doudna JA
Single-Stranded DNA Cleavage by Divergent CRISPR-Cas9 Enzymes.; Molecular cell; Vol 60(3). 2015 Nov 05.
1. O'Connell MR
2. Oakes BL
3. Sternberg SH
4. East-Seletsky A
5. Kaplan M
6. Doudna JA
Programmable RNA recognition and cleavage by CRISPR/Cas9.; Nature; Vol 516(7530). 2014 Dec 11.
1. Vandevenne M
2. O'Connell MR
3. Helder S
4. Shepherd NE
5. Matthews JM
6. Kwan AH
7. Segal DJ
8. Mackay JP
Engineering specificity changes on a RanBP2 zinc finger that binds single-stranded RNA.; Angewandte Chemie (International ed. in English); Vol 53(30). 2014 Jul 21.
1. Clifton MK
2. Westman BJ
3. Thong SY
4. O'Connell MR
5. Webster MW
6. Shepherd NE
7. Quinlan KG
8. Crossley M
9. Blobel GA
10. Mackay JP
The identification and structure of an N-terminal PR domain show that FOG1 is a member of the PRDM family of proteins.; PloS one; Vol 9(8). 2014.
1. Gamsjaeger R
2. O'Connell MR
3. Cubeddu L
4. Shepherd NE
5. Lowry JA
6. Kwan AH
7. Vandevenne M
8. Swanton MK
9. Matthews JM
10. Mackay JP
A structural analysis of DNA binding by myelin transcription factor 1 double zinc fingers.; The Journal of biological chemistry; Vol 288(49). 2013 Dec 06.
1. Bendak K
2. Loughlin FE
3. Cheung V
4. O'Connell MR
5. Crossley M
6. Mackay JP
A rapid method for assessing the RNA-binding potential of a protein.; Nucleic acids research; Vol 40(14). 2012 Aug.
1. O'Connell MR
2. Vandevenne M
3. Nguyen CD
4. Matthews JM
5. Gamsjaeger R
6. Segal DJ
7. Mackay JP
Modular assembly of RanBP2-type zinc finger domains to target single-stranded RNA.; Angewandte Chemie (International ed. in English); Vol 51(22). 2012 May 29.
1. Burdach J
2. O'Connell MR
3. Mackay JP
4. Crossley M
Two-timing zinc finger transcription factors liaising with RNA.; Trends in biochemical sciences; Vol 37(5). 2012 May.
1. Hsieh YS
2. Wilkinson BL
3. O'Connell MR
4. Mackay JP
5. Matthews JM
6. Payne RJ
Synthesis of the bacteriocin glycopeptide sublancin 168 and S-glycosylated variants.; Organic letters; Vol 14(7). 2012 Apr 06.
1. O'Connell MR
2. Gamsjaeger R
3. Mackay JP
The structural analysis of protein-protein interactions by NMR spectroscopy.; Proteomics; Vol 9(23). 2009 Dec.