Dr Maria Doyle

Project Leader
Bioconductor
Community Manager
Bioconductor Community Manager, University of Limerick
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Dr Maria Doyle

Publications

Full list of publications see Google Scholar

Recent publications include

[1] O. Ahmed, M. B. M. Doyle, M. S. Abouljoud, et al. "Liver Transplant
Costs and Activity After United Network for Organ Sharing Allocation
Policy Changes". Eng. In: _JAMA surgery_ 159.8 (Aug. 2024), pp.
939-947. ISSN: 2168-6262. DOI: 10.1001/jamasurg.2024.1208. PMID:
38809546.
[2] A. Armstrong, F. Boulos, S. Kulkarni, et al. "Sclerosing
Epithelioid Fibrosarcoma of the Liver in a Pediatric Patient". Eng. In:
_Pediatric and developmental pathology : the official journal of the
Society for Pediatric Pathology and the Paediatric Pathology Society_
26.2 (Feb. 2023), pp. 153-160. ISSN: 1615-5742. DOI:
10.1177/10935266221146378. PMID: 36748108.
[3] W. C. Chapman, A. S. Barbas, A. M. D'Alessandro, et al.
"Normothermic Machine Perfusion of Donor Livers for Transplantation in
the United States: A Randomized Controlled Trial". Eng. In: _Annals of
surgery_ 278.5 (Nov. 2023), pp. e912-e921. ISSN: 1528-1140. DOI:
10.1097/SLA.0000000000005934. PMID: 37389552.
[4] J. T. Davidson, J. M. Clanahan, A. Kiani, et al. "Robotic
performance metrics model fellow proficiency in living donor
nephrectomy". Eng. In: _Journal of robotic surgery_ 18.1 (Jun. 2024),
p. 271. ISSN: 1863-2491. DOI: 10.1007/s11701-024-02032-3. PMID:
38937307.
[5] M. B. M. Doyle, O. Ahmed, and S. L. Orloff. "Issues With the New
Liver Allocation System". Eng. In: _JAMA surgery_ 160.2 (Feb. 2025),
pp. 229-230. ISSN: 2168-6262. DOI: 10.1001/jamasurg.2024.4949. PMID:
39602141.
[6] M. B. M. Doyle, O. Ahmed, and S. L. Orloff. "Limitations in Gauging
the Effects of Allocation Policy Changes on Liver Transplant-Reply".
Eng. In: _JAMA surgery_ 160.1 (Jan. 2025), pp. 113-114. ISSN:
2168-6262. DOI: 10.1001/jamasurg.2024.4362. PMID: 39441569.
[7] J. Drnevich, F. J. Tan, F. Almeida-Silva, et al. "Learning and
teaching biological data science in the Bioconductor community". Eng.
In: _ArXiv_ (Mar. 2025). ISSN: 2331-8422. PMID: 40160449.
[8] Y. Feng, T. Yang, J. Zhu, et al. "Spatial analysis with SPIAT and
spaSim to characterize and simulate tissue microenvironments". Eng. In:
_Nature communications_ 14.1 (May. 2023), p. 2697. ISSN: 2041-1723.
DOI: 10.1038/s41467-023-37822-0. PMID: 37188662.
[9] Galaxy Community . "The Galaxy platform for accessible,
reproducible, and collaborative data analyses: 2024 update". Eng. In:
_Nucleic acids research_ 52.W1 (Jul. 2024), pp. W83-W94. ISSN:
1362-4962. DOI: 10.1093/nar/gkae410. PMID: 38769056.
[10] A. L. Hill, D. R. Cullinan, R. Z. Panni, et al. "Cross-fellowship
Inter-institutional Exchange: Answering the Call for
Hepatopancreatobiliary Training Standardization". Eng. In: _Journal of
surgical education_ 81.8 (Aug. 2024), pp. 1094-1098. ISSN: 1878-7452.
DOI: 10.1016/j.jsurg.2024.05.009. PMID: 38824089.
[11] S. Hiltemann, H. Rasche, S. Gladman, et al. "Galaxy Training: A
powerful framework for teaching!" Eng. In: _PLoS computational biology_
19.1 (Jan. 2023), p. e1010752. ISSN: 1553-7358. DOI:
10.1371/journal.pcbi.1010752. PMID: 36622853.
[12] B. Kalaghchi, S. Ince, J. Barnes, et al. "Arterial hypoperfusion
as a negative predictive marker for primary hepatic malignancies
treated with Y-90 glass microsphere transarterial radioembolization".
Eng. In: _Frontiers in oncology_ 14 (Aug. 2024), p. 1433480. ISSN:
2234-943X. DOI: 10.3389/fonc.2024.1433480. PMID: 39169947.
[13] S. S. Kulkarni, N. A. Vachharajani, A. L. Hill, et al.
"Utilization of older deceased donors for pediatric liver transplant
may negatively impact long-term survival". Eng. In: _Journal of
pediatric gastroenterology and nutrition_ 78.4 (Apr. 2024), pp.
898-908. ISSN: 1536-4801. DOI: 10.1002/jpn3.12106. PMID: 38591666.
[14] B. S. Kushner, M. B. Doyle, A. S. Khan, et al. "COVID-19
Vaccination Status and Operative Outcomes after Kidney
Transplantation". Eng. In: _Journal of the American College of
Surgeons_ 237.1 (Jul. 2023), pp. 139-145. ISSN: 1879-1190. DOI:
10.1097/XCS.0000000000000657. PMID: 36799500.
[15] A. Lidor, B. Matthews, E. Lin, et al. "Letter to editor: Reframing
the Fellowship Council requirements for an abdominal wall
reconstruction designation". Eng. In: _Surgery_ (Jan. 2025), p. 109111.
ISSN: 1532-7361. DOI: 10.1016/j.surg.2024.109111. PMID: 39890511.
[16] J. Lindemann and M. B. M. Doyle. "Expanding the Boundaries for
Liver Transplantation for Hepatocellular Carcinoma". Eng. In: _The
Surgical clinics of North America_ 104.1 (Feb. 2024), pp. 129-143.
ISSN: 1558-3171. DOI: 10.1016/j.suc.2023.08.006. PMID: 37953032.
[17] J. Lindemann, J. Yu, and M. B. M. Doyle. "Downstaging
Hepatocellular Carcinoma before Transplantation: Role of Immunotherapy
Versus Locoregional Approaches". Eng. In: _Surgical oncology clinics of
North America_ 33.1 (Jan. 2024), pp. 143-158. ISSN: 1558-5042. DOI:
10.1016/j.soc.2023.07.001. PMID: 37945140.
[18] M. Thakkar, S. Saini, J. Stoll, et al. "Recovery of factor V
activity is delayed with reperfusion injury after liver transplant".
Eng. In: _Pediatric blood & cancer_ 71.3 (Mar. 2024), p. e30805. ISSN:
1545-5017. DOI: 10.1002/pbc.30805. PMID: 38073019.
[19] J. J. Williams, R. E. Tractenberg, B. Batut, et al. "An
international consensus on effective, inclusive, and career-spanning
short-format training in the life sciences and beyond". Eng. In: _PloS
one_ 18.11 (Nov. 2023), p. e0293879. ISSN: 1932-6203. DOI:
10.1371/journal.pone.0293879. PMID: 37943810.
[20] J. J. Williams, R. E. Tractenberg, B. Batut, et al. "Correction:
An international consensus on effective, inclusive, and career-spanning
short-format training in the life sciences and beyond". Eng. In: _PloS
one_ 20.2 (Feb. 2025), p. e0319613. ISSN: 1932-6203. DOI:
10.1371/journal.pone.0319613. PMID: 39977432.