Deep learning for automated scoring of immunohistochemically stained tumour tissue sections – Validation across tumour types based on patient outcomes

Autor: Wanja Kildal, Karolina Cyll, Joakim Kalsnes, Rakibul Islam, Frida M. Julbø, Manohar Pradhan, Elin Ersvær, Neil Shepherd, Ljiljana Vlatkovic, Xavier Tekpli, Øystein Garred, Gunnar B. Kristensen, Hanne A. Askautrud, Tarjei S. Hveem, Håvard E. Danielsen, Tone F. Bathen, Elin Borgen, Anne-Lise Børresen-Dale, Olav Engebråten, Britt Fritzman, Olaf Johan Hartman-Johnsen, Jürgen Geisler, Gry Aarum Geitvik, Solveig Hofvind, Rolf Kåresen, Anita Langerød, Ole Christian Lingjærde, Gunhild M. Mælandsmo, Bjørn Naume, Hege G. Russnes, Kristine Kleivi Sahlberg, Torill Sauer, Helle Kristine Skjerven, Ellen Schlichting, Therese Sørlie

Publikováno v: Heliyon, Vol 10, Iss 13, Pp e32529- (2024)

We aimed to develop deep learning (DL) models to detect protein expression in immunohistochemically (IHC) stained tissue-sections, and to compare their accuracy and performance with manually scored clinically relevant proteins in common cancer types.

Externí odkaz: https://doaj.org/article/e0dc5fe8cfec49769db7555ff4402d86

Basal‐like breast cancer engages tumor‐supportive macrophages via secreted factors induced by extracellular S100A4

Autor: Lina Prasmickaite, Ellen M. Tenstad, Solveig Pettersen, Shakila Jabeen, Eivind V. Egeland, Silje Nord, Abhilash Pandya, Mads H. Haugen, Vessela N. Kristensen, Anne‐Lise Børresen‐Dale, Oslo Breast Cancer Research Consortium (OSBREAC), Olav Engebråten, Gunhild M. Mælandsmo

Publikováno v: Molecular Oncology, Vol 12, Iss 9, Pp 1540-1558 (2018)

The tumor microenvironment (TME) may influence both cancer progression and therapeutic response. In breast cancer, particularly in the aggressive triple‐negative/basal‐like subgroup, patient outcome is strongly associated with the tumor's inflamm

Externí odkaz: https://doaj.org/article/382c45859b2945768f322dd7ece1396d

LIMT is a novel metastasis inhibiting lncRNA suppressed by EGF and downregulated in aggressive breast cancer

Autor: Aldema Sas‐Chen, Miriam R Aure, Limor Leibovich, Silvia Carvalho, Yehoshua Enuka, Cindy Körner, Maria Polycarpou‐Schwarz, Sara Lavi, Nava Nevo, Yuri Kuznetsov, Justin Yuan, Francisco Azuaje, Oslo Breast Cancer Research Consortium (OSBREAC), Igor Ulitsky, Sven Diederichs, Stefan Wiemann, Zohar Yakhini, Vessela N Kristensen, Anne‐Lise Børresen‐Dale, Yosef Yarden, Torill Sauer, Jürgen Geisler, Solveig Hofvind, Tone F Bathen, Elin Borgen, Olav Engebråten, Øystein Fodstad, Øystein Garred, Gry Aarum Geitvik, Rolf Kåresen, Bjørn Naume, Gunhild Mari Mælandsmo, Hege G Russnes, Ellen Schlichting, Therese Sørlie, Ole Christian Lingjærde, Kristine Kleivi Sahlberg, Helle Kristine Skjerven, Britt Fritzman

Publikováno v: EMBO Molecular Medicine, Vol 8, Iss 9, Pp 1052-1064 (2016)

Abstract Long noncoding RNAs (lncRNAs) are emerging as regulators of gene expression in pathogenesis, including cancer. Recently, lncRNAs have been implicated in progression of specific subtypes of breast cancer. One aggressive, basal‐like subtype

Externí odkaz: https://doaj.org/article/4f7cfb1585b94dd5ac5eed26ab401081

The impact of coding germline variants on contralateral breast cancer risk and survival

Autor: Anna Morra, Nasim Mavaddat, Taru A. Muranen, Thomas U. Ahearn, Jamie Allen, Irene L. Andrulis, Päivi Auvinen, Heiko Becher, Sabine Behrens, Carl Blomqvist, Stig E. Bojesen, Manjeet K. Bolla, Hiltrud Brauch, Nicola J. Camp, Sara Carvalho, Jose E. Castelao, Melissa H. Cessna, Jenny Chang-Claude, Georgia Chenevix-Trench, Kamila Czene, Brennan Decker, Joe Dennis, Thilo Dörk, Leila Dorling, Alison M. Dunning, Arif B. Ekici, Mikael Eriksson, D. Gareth Evans, Peter A. Fasching, Jonine D. Figueroa, Henrik Flyger, Manuela Gago-Dominguez, Montserrat García-Closas, Willemina R.R. Geurts-Giele, Graham G. Giles, Pascal Guénel, Melanie Gündert, Eric Hahnen, Per Hall, Ute Hamann, Patricia A. Harrington, Wei He, Päivi Heikkilä, Maartje J. Hooning, Reiner Hoppe, Anthony Howell, Keith Humphreys, Anna Jakubowska, Audrey Y. Jung, Renske Keeman, Vessela N. Kristensen, Jan Lubiński, Arto Mannermaa, Mehdi Manoochehri, Siranoush Manoukian, Sara Margolin, Dimitrios Mavroudis, Roger L. Milne, Anna Marie Mulligan, William G. Newman, Tjoung-Won Park-Simon, Paolo Peterlongo, Paul D.P. Pharoah, Valerie Rhenius, Emmanouil Saloustros, Elinor J. Sawyer, Rita K. Schmutzler, Mitul Shah, Amanda B. Spurdle, Ian Tomlinson, Thérèse Truong, Elke M. van Veen, Maaike P.G. Vreeswijk, Qin Wang, Camilla Wendt, Xiaohong R. Yang, Heli Nevanlinna, Peter Devilee, Douglas F. Easton, Marjanka K. Schmidt, Kristine K. Sahlberg, Anne-Lise Børresen-Dale, Inger Torhild Gram, Karina Standahl Olsen, Olav Engebråten, Bjørn Naume, Jürgen Geisler, null OSBREAC, Grethe I. Grenaker Alnæs, David Amor, Lesley Andrews, Yoland Antill, Rosemary Balleine, Jonathan Beesley, Ian Bennett, Michael Bogwitz, Leon Botes, Meagan Brennan, Melissa Brown, Michael Buckley, Jo Burke, Phyllis Butow, Liz Caldon, Ian Campbell, Michelle Cao, Anannya Chakrabarti, Deepa Chauhan, Manisha Chauhan, Alice Christian, Paul Cohen, Alison Colley, Ashley Crook, James Cui, Eliza Courtney, Margaret Cummings, Sarah-Jane Dawson, Anna DeFazio, Martin Delatycki, Rebecca Dickson, Joanne Dixon, Ted Edkins, Stacey Edwards, Gelareh Farshid, Andrew Fellows, Georgina Fenton, Michael Field, James Flanagan, Peter Fong, Laura Forrest, Stephen Fox, Juliet French, Michael Friedlander, Clara Gaff, Mike Gattas, Peter George, Sian Greening, Marion Harris, Stewart Hart, Nick Hayward, John Hopper, Cass Hoskins, Clare Hunt, Paul James, Mark Jenkins, Alexa Kidd, Judy Kirk, Jessica Koehler, James Kollias, Sunil Lakhani, Mitchell Lawrence, Jason Lee, Shuai Li, Geoff Lindeman, Lara Lipton, Liz Lobb, Sherene Loi, Graham Mann, Deborah Marsh, Sue Anne McLachlan, Bettina Meiser, Roger Milne, Sophie Nightingale, Shona O'Connell, Sarah O'Sullivan, David Gallego Ortega, Nick Pachter, Jia-Min Pang, Gargi Pathak, Briony Patterson, Amy Pearn, Kelly Phillips, Ellen Pieper, Susan Ramus, Edwina Rickard, Bridget Robinson, Mona Saleh, Anita Skandarajah, Elizabeth Salisbury, Christobel Saunders, Jodi Saunus, Rodney Scott, Clare Scott, Adrienne Sexton, Andrew Shelling, Peter Simpson, Melissa Southey, Amanda Spurdle, Jessica Taylor, Renea Taylor, Heather Thorne, Alison Trainer, Kathy Tucker, Jane Visvader, Logan Walker, Rachael Williams, Ingrid Winship, Mary Ann Young, Milita Zaheed

Publikováno v: American Journal of Human Genetics
Morra, A, Mavaddat, N, Muranen, T A, Ahearn, T U, Allen, J, Andrulis, I L, Auvinen, P, Becher, H, Behrens, S, Blomqvist, C, Bojesen, S E, Bolla, M K, Brauch, H, Camp, N J, Carvalho, S, Castelao, J E, Cessna, M H, Chang-Claude, J, Chenevix-Trench, G, Czene, K, Decker, B, Dennis, J, Dörk, T, Dorling, L, Dunning, A M, Ekici, A B, Eriksson, M, Evans, D G, Fasching, P A, Figueroa, J D, Flyger, H, Gago-Dominguez, M, García-Closas, M, Geurts-Giele, W R R, Giles, G G, Guénel, P, Gündert, M, Hahnen, E, Hall, P, Hamann, U, Harrington, P A, He, W, Heikkilä, P, Hooning, M J, Hoppe, R, Howell, A, Humphreys, K, Jakubowska, A, Jung, A Y, Keeman, R, Kristensen, V N, Lubiński, J, Mannermaa, A, Manoochehri, M, Manoukian, S, Margolin, S, Mavroudis, D, Milne, R L, Mulligan, A M, Newman, W G, Park-Simon, T-W, Peterlongo, P, Pharoah, P D P, Rhenius, V, Saloustros, E, Sawyer, E J, Schmutzler, R K, Shah, M, Spurdle, A B, Tomlinson, I, Truong, T, van Veen, E M, Vreeswijk, M P G, Wang, Q, Wendt, C, Yang, X R, Nevanlinna, H & Devilee, P & Easton, D F & Schmidt, M K 2023, ' The impact of coding germline variants on contralateral breast cancer risk and survival ', American Journal of Human Genetics, vol. 110, no. 3, pp. 475-486 . https://doi.org/10.1016/j.ajhg.2023.02.003

Evidence linking coding germline variants in breast cancer (BC)-susceptibility genes other than BRCA1, BRCA2, and CHEK2 with contralateral breast cancer (CBC) risk and breast cancer-specific survival (BCSS) is scarce. The aim of this study was to ass

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f3606211c9deba682d78e97c763520f8
https://hdl.handle.net/11250/3079721

RAB5A expression is a predictive biomarker for trastuzumab emtansine in breast cancer

Autor: AM DeMichele, Anette Weyergang, Ane Sofie Viset Fremstedal, Olav Engebråten, Kristian Berg, Øystein Garred, Christina Yau, Elin Borgen, Maria Eb Berstad, L. vant`t Veer, LJ Esserman

PURPOSETargeted therapeutics strongly depends on validated biomarkers in order to select patients most likely to benefit from the treatment. HER2 serves as a predictive biomarker for HER2-targeted tyrosine kinase inhibitors and monoclonal antibodies.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::19a7feab317450548381f21392cd3aaa
https://doi.org/10.1101/2021.07.06.21255069