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Recent Advances in Pathology: the 2022 Annual Review Issue of The Journal of Pathology.
Published in:
Journal of Pathology, 2022, v. 257, n. 4, p. 379, doi. 10.1002/path.5972
By:
- Herrington, C Simon;
- Poulsom, Richard;
- Pillay, Nischalan;
- Bankhead, Peter;
- Coates, Philip J
Publication type:
Article
QUADrATiC: scalable gene expression connectivity mapping for repurposing FDA-approved therapeutics.
Published in:
BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-1062-1
By:
- O'Reilly, Paul G.;
- Qing Wen;
- Bankhead, Peter;
- Dunne, Philip D.;
- McArt, Darragh G.;
- McPherson, Suzanne;
- Hamilton, Peter W.;
- Mills, Ken I.;
- Shu-Dong Zhang
Publication type:
Article
The RNA processing factors THRAP3 and BCLAF1 promote the DNA damage response through selective mRNA splicing and nuclear export.
Published in:
Nucleic Acids Research, 2017, v. 45, n. 22, p. 12816, doi. 10.1093/nar/gkx1046
By:
- Vohhodina, Jekaterina;
- Barros, Eliana M.;
- Savage, Abigail L.;
- Liberante, Fabio G.;
- Manti, Lorenzo;
- Bankhead, Peter;
- Cosgrove, Nicola;
- Madden, Angelina F.;
- Harkin, D. Paul;
- Savage, Kienan I.
Publication type:
Article
Automated Detection and Measurement of Isolated Retinal Arterioles by a Combination of Edge Enhancement and Cost Analysis.
Published in:
PLoS ONE, 2014, v. 9, n. 3, p. 1, doi. 10.1371/journal.pone.0091791
By:
- Fernández, José A.;
- Bankhead, Peter;
- Zhou, Huiyu;
- McGeown, J. Graham;
- Curtis, Tim M.
Publication type:
Article
Fast Retinal Vessel Detection and Measurement Using Wavelets and Edge Location Refinement.
Published in:
PLoS ONE, 2012, v. 7, n. 3, p. 1, doi. 10.1371/journal.pone.0032435
By:
- Bankhead, Peter;
- Scholfield, C. Norman;
- McGeown, J. Graham;
- Curtis, Tim M.
Publication type:
Article
Using the R Package Spatstat to Assess Inhibitory Effects of Microregional Hypoxia on the Infiltration of Cancers of the Head and Neck Region by Cytotoxic T Lymphocytes.
Published in:
Cancers, 2021, v. 13, n. 8, p. 1924, doi. 10.3390/cancers13081924
By:
- Kaufmann, Justus;
- Biscio, Christophe A. N.;
- Bankhead, Peter;
- Zimmer, Stefanie;
- Schmidberger, Heinz;
- Rubak, Ege;
- Mayer, Arnulf;
- Costa, José Luís
Publication type:
Article
OPTIMAL: An OPTimized Imaging Mass cytometry AnaLysis framework for benchmarking segmentation and data exploration.
Published in:
Cytometry. Part A, 2024, v. 105, n. 1, p. 36, doi. 10.1002/cyto.a.24803
By:
- Hunter, Bethany;
- Nicorescu, Ioana;
- Foster, Emma;
- McDonald, David;
- Hulme, Gillian;
- Fuller, Andrew;
- Thomson, Amanda;
- Goldsborough, Thibaut;
- Hilkens, Catharien M. U.;
- Majo, Joaquim;
- Milross, Luke;
- Fisher, Andrew;
- Bankhead, Peter;
- Wills, John;
- Rees, Paul;
- Filby, Andrew;
- Merces, George
Publication type:
Article
Characterization of a murine mixed neuron-glia model and cellular responses to regulatory T cell-derived factors.
Published in:
Molecular Brain, 2018, v. 11, n. 1, p. N.PAG, doi. 10.1186/s13041-018-0367-6
By:
- Dittmer, Marie;
- Young, Andrew;
- O'Hagan, Thomas;
- Eleftheriadis, George;
- Bankhead, Peter;
- Dombrowski, Yvonne;
- Medina, Reinhold J.;
- Fitzgerald, Denise C.
Publication type:
Article
cudaMap: a GPU accelerated program for gene expression connectivity mapping.
Published in:
BMC Bioinformatics, 2013, v. 14, n. 1, p. 2, doi. 10.1186/1471-2105-14-305
By:
- McArt, Darragh G.;
- Bankhead, Peter;
- Dunne, Philip D.;
- Salto-Tellez, Manuel;
- Hamilton, Peter;
- Shu-Dong Zhang
Publication type:
Article
Open and reusable deep learning for pathology with WSInfer and QuPath.
Published in:
NPJ Precision Oncology, 2024, v. 8, n. 1, p. 1, doi. 10.1038/s41698-024-00499-9
By:
- Kaczmarzyk, Jakub R.;
- O'Callaghan, Alan;
- Inglis, Fiona;
- Gat, Swarad;
- Kurc, Tahsin;
- Gupta, Rajarsi;
- Bremer, Erich;
- Bankhead, Peter;
- Saltz, Joel H.
Publication type:
Article
Embracing an integromic approach to tissue biomarker research in cancer: Perspectives and lessons learned.
Published in:
Briefings in Bioinformatics, 2017, v. 18, n. 4, p. 634, doi. 10.1093/bib/bbw044
By:
- Li, Gerald;
- Bankhead, Peter;
- O'Reilly, Paul G.;
- Dunne, Philip D.;
- James, Jacqueline A.;
- Salto-Tellez, Manuel;
- Hamilton, Peter W.;
- McArt, Darragh G.
Publication type:
Article
Cover Image.
Published in:
Histopathology, 2022, v. 80, n. 3, p. i, doi. 10.1111/his.14614
By:
- Fisher, Natalie C;
- Loughrey, Maurice B;
- Coleman, Helen G;
- Gelbard, Melvin D;
- Bankhead, Peter;
- Dunne, Philip D
Publication type:
Article
Development of a semi‐automated method for tumour budding assessment in colorectal cancer and comparison with manual methods.
Published in:
Histopathology, 2022, v. 80, n. 3, p. 485, doi. 10.1111/his.14574
By:
- Fisher, Natalie C;
- Loughrey, Maurice B;
- Coleman, Helen G;
- Gelbard, Melvin D;
- Bankhead, Peter;
- Dunne, Philip D
Publication type:
Article
Identifying mismatch repair‐deficient colon cancer: near‐perfect concordance between immunohistochemistry and microsatellite instability testing in a large, population‐based series.
Published in:
Histopathology, 2021, v. 78, n. 3, p. 401, doi. 10.1111/his.14233
By:
- Loughrey, Maurice B;
- McGrath, Jason;
- Coleman, Helen G;
- Bankhead, Peter;
- Maxwell, Perry;
- McGready, Claire;
- Bingham, Victoria;
- Humphries, Matthew P;
- Craig, Stephanie G;
- McQuaid, Stephen;
- Salto‐Tellez, Manuel;
- James, Jacqueline A
Publication type:
Article
Validation of the systematic scoring of immunohistochemically stained tumour tissue microarrays using QuPath digital image analysis.
Published in:
Histopathology, 2018, v. 73, n. 2, p. 327, doi. 10.1111/his.13516
By:
- Loughrey, Maurice B.;
- Bankhead, Peter;
- Coleman, Helen G.;
- Hagan, Ryan S.;
- Craig, Stephanie;
- McCorry, Amy M. B.;
- Gray, Ronan T.;
- McQuaid, Stephen;
- Dunne, Philip D.;
- Hamilton, Peter W.;
- James, Jacqueline A.;
- Salto‐Tellez, Manuel
Publication type:
Article
Statin use, candidate mevalonate pathway biomarkers, and colon cancer survival in a population-based cohort study.
Published in:
2017
By:
- Gray, Ronan T;
- Loughrey, Maurice B;
- Bankhead, Peter;
- Cardwell, Chris R;
- McQuaid, Stephen;
- O'Neill, Roisin F;
- Arthur, Kenneth;
- Bingham, Victoria;
- McGready, Claire;
- Gavin, Anna T;
- James, Jacqueline A;
- Hamilton, Peter W;
- Salto-Tellez, Manuel;
- Murray, Liam J;
- Coleman, Helen G
Publication type:
journal article
A biologist's guide to planning and performing quantitative bioimaging experiments.
Published in:
PLoS Biology, 2023, v. 21, n. 6, p. 1, doi. 10.1371/journal.pbio.3002167
By:
- Senft, Rebecca A.;
- Diaz-Rohrer, Barbara;
- Colarusso, Pina;
- Swift, Lucy;
- Jamali, Nasim;
- Jambor, Helena;
- Pengo, Thomas;
- Brideau, Craig;
- Llopis, Paula Montero;
- Uhlmann, Virginie;
- Kirk, Jason;
- Gonzales, Kevin Andrew;
- Bankhead, Peter;
- Evans III, Edward L.;
- Eliceiri, Kevin W.;
- Cimini, Beth A.
Publication type:
Article
Immune status is prognostic for poor survival in colorectal cancer patients and is associated with tumour hypoxia.
Published in:
2020
By:
- Craig, Stephanie G.;
- Humphries, Matthew P.;
- Alderdice, Matthew;
- Bingham, Victoria;
- Richman, Susan D.;
- Loughrey, Maurice B.;
- Coleman, Helen G.;
- Viratham-Pulsawatdi, Amelie;
- McCombe, Kris;
- Murray, Graeme I.;
- Blake, Andrew;
- Domingo, Enric;
- Robineau, James;
- Brown, Louise;
- Fisher, David;
- Seymour, Matthew T.;
- Quirke, Phil;
- Bankhead, Peter;
- McQuaid, Stephen;
- Lawler, Mark
Publication type:
journal article
AimSeg: A machine-learning-aided tool for axon, inner tongue and myelin segmentation.
Published in:
PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1010845
By:
- Carrillo-Barberà, Pau;
- Rondelli, Ana Maria;
- Morante-Redolat, Jose Manuel;
- Vernay, Bertrand;
- Williams, Anna;
- Bankhead, Peter
Publication type:
Article
QuPath Algorithm Accurately Identifies MLH1-Deficient Inflammatory Bowel Disease-Associated Colorectal Cancers in a Tissue Microarray.
Published in:
Diagnostics (2075-4418), 2023, v. 13, n. 11, p. 1890, doi. 10.3390/diagnostics13111890
By:
- Porter, Ross J.;
- Din, Shahida;
- Bankhead, Peter;
- Oniscu, Anca;
- Arends, Mark J.
Publication type:
Article
The ventral habenulae of zebrafish develop in prosomere 2 dependent on Tcf7l2 function.
Published in:
Neural Development, 2013, v. 8, n. 1, p. 1, doi. 10.1186/1749-8104-8-19
By:
- Beretta, Carlo A.;
- Dross, Nicolas;
- Bankhead, Peter;
- Carl, Matthias
Publication type:
Article
PICan: An integromics framework for dynamic cancer biomarker discovery.
Published in:
Molecular Oncology, 2015, v. 9, n. 6, p. 1234, doi. 10.1016/j.molonc.2015.02.002
By:
- McArt, Darragh G.;
- Blayney, Jaine K.;
- Boyle, David P.;
- Irwin, Gareth W.;
- Moran, Michael;
- Hutchinson, Ryan A.;
- Bankhead, Peter;
- Kieran, Declan;
- Wang, Yinhai;
- Dunne, Philip D.;
- Kennedy, Richard D.;
- Mullan, Paul B.;
- Harkin, D. Paul;
- Catherwood, Mark A.;
- James, Jacqueline A.;
- Salto-Tellez, Manuel;
- Hamilton, Peter W.
Publication type:
Article

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