NPJ precision oncology

Keyphrases

Publications

volume 8, number 1, 2024

Shi Fu, Zhiyong Tan, Hongjin Shi, Junhao Chen, Yawei Zhang, Chunming Guo, Wei Feng, Haole Xu, Jiansong Wang, Haifeng Wang
Development of a stemness-related prognostic index to provide therapeutic strategies for bladder cancer. NPJ precision oncology 8 (1) (2024)
Jakub R Kaczmarzyk, Alan O'Callaghan, Fiona Inglis, Swarad Gat, Tahsin Kurc, Rajarsi Gupta, Erich Bremer, Peter Bankhead, Joseph Saltz
Open and reusable deep learning for pathology with WSInfer and QuPath. NPJ precision oncology 8 (1) (2024)
Yan Qin Tan, Yi-Shiou Chiou, Hui Guo, Shuwei Zhang, Xiaoming Huang, Dukanya Dukanya, Arunkumar Mohan, Shreeja Basappa, Suling Liu, Tao Zhu, Nallur Basappa Ramachandra, Vijay Pandey, Peter E Lobie
Vertical pathway inhibition of receptor tyrosine kinases and BAD with synergistic efficacy in triple negative breast cancer. NPJ precision oncology 8 (1) (2024)
Jiyun Hong, Eunwoo Choi, Dahee Kim, Mi-Kyoung Seo, Hyundeok Kang, BeumJin Park, Sangwoo Kim
Immunological subtyping of salivary gland cancer identifies histological origin-specific tumor immune microenvironment. NPJ precision oncology 8 (1) (2024)
Muhammad Dawood, Quoc Dang Vu, Lawrence S Young, Kim Branson, Louise Jones, Nasir M Rajpoot, Fayyaz Ul Amir Afsar Minhas
Cancer drug sensitivity prediction from routine histology images. NPJ precision oncology 8 (1) (2024)
Yongjun Liu, Yuqing Xu, Xiaoxing Li, Mengke Chen, Xueqin Wang, Ning Zhang, Heping Zhang, Zhengjun Zhang
Towards precision oncology discovery: four less known genes and their unknown interactions as highest-performed biomarkers for colorectal cancer. NPJ precision oncology 8 (1) (2024)
Alberto Valdeolivas, Bettina Amberg, Nicolas Giroud, Marion Richardson, Eric J C Gálvez, Solveig Badillo, Alice Julien-Laferrière, Demeter Túrós, Lena Voith von Voithenberg, Isabelle Wells, Benedek Pesti, Amy A Lo, Emilio Yángüez, Meghna Das Thakur, Michael Bscheider, Marc Sultan, Nadine Kumpesa, Björn Jacobsen, Tobias Bergauer, Julio Saez-Rodriguez, Sven Rottenberg, Petra C Schwalie, Kerstin Hahn
Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. NPJ precision oncology 8 (1) (2024)
Jakub R Kaczmarzyk, Alan O'Callaghan, Fiona Inglis, Swarad Gat, Tahsin Kurc, Rajarsi Gupta, Erich Bremer, Peter Bankhead, Joseph Saltz
Open and reusable deep learning for pathology with WSInfer and QuPath. NPJ precision oncology 8 (1) (2024)
Muhammad Dawood, Quoc Dang Vu, Lawrence S Young, Kim Branson, Louise Jones, Nasir M Rajpoot, Fayyaz Ul Amir Afsar Minhas
Cancer drug sensitivity prediction from routine histology images. NPJ precision oncology 8 (1) (2024)
Lindong Jiang, Chao Xu, Yuntong Bai, Anqi Liu, Yun Gong, Yu-Ping Wang, Hong-Wen Deng
Autosurv: interpretable deep learning framework for cancer survival analysis incorporating clinical and multi-omics data. NPJ precision oncology 8 (1) (2024)
Kengo Kawaguchi, Kazuki Miyama, Makoto Endo, Ryoma Bise, Kenichi Kohashi, Takeshi Hirose, Akira Nabeshima, Toshifumi Fujiwara, Yoshihiro Matsumoto, Yoshinao Oda, Yasuharu Nakashima
Viable tumor cell density after neoadjuvant chemotherapy assessed using deep learning model reflects the prognosis of osteosarcoma. NPJ precision oncology 8 (1) (2024)
Joshua J Levy, Matthew J Davis, Rachael S Chacko, Michael J Davis, Lucy J Fu, Tarushii Goel, Akash Pamal, Irfan Nafi, Abhinav Angirekula, Anish Suvarna, Ram Vempati, Brock C Christensen, Matthew S Hayden, Louis J Vaickus, Matthew R LeBoeuf
Intraoperative margin assessment for basal cell carcinoma with deep learning and histologic tumor mapping to surgical site. NPJ precision oncology 8 (1) (2024)
Lishan Cai, Doenja M J Lambregts, Geerard L O Beets, Monique Mass, Eduardo H P Pooch, Corentin Guérendel, Regina G H Beets-Tan, Sean Benson
An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study. NPJ precision oncology 8 (1) (2024)
Minoru Koi, Brandie H Leach, Sarah McGee, Stephanie S Tseng-Rogenski, Carol A Burke, John M Carethers
Compound heterozygous MSH3 germline variants and associated tumor somatic DNA mismatch repair dysfunction. NPJ precision oncology 8 (1) (2024)
Shi Fu, Zhiyong Tan, Hongjin Shi, Junhao Chen, Yawei Zhang, Chunming Guo, Wei Feng, Haole Xu, Jiansong Wang, Haifeng Wang
Development of a stemness-related prognostic index to provide therapeutic strategies for bladder cancer. NPJ precision oncology 8 (1) (2024)
Qiong Wang, Bisheng Cheng, Sandeep Singh, Yiran Tao, Zhongqiu Xie, Fujun Qin, Xinrui Shi, Jingjing Xu, Chenxi Hu, Wanlong Tan, Hui Li, Hai Huang
A protein-encoding CCDC7 circular RNA inhibits the progression of prostate cancer by up-regulating FLRT3. NPJ precision oncology 8 (1) (2024)
Qiong Wang, Bisheng Cheng, Sandeep Singh, Yiran Tao, Zhongqiu Xie, Fujun Qin, Xinrui Shi, Jingjing Xu, Chenxi Hu, Wanlong Tan, Hui Li, Hai Huang
A protein-encoding CCDC7 circular RNA inhibits the progression of prostate cancer by up-regulating FLRT3. NPJ precision oncology 8 (1) (2024)
Jakub R Kaczmarzyk, Alan O'Callaghan, Fiona Inglis, Swarad Gat, Tahsin Kurc, Rajarsi Gupta, Erich Bremer, Peter Bankhead, Joseph Saltz
Open and reusable deep learning for pathology with WSInfer and QuPath. NPJ precision oncology 8 (1) (2024)
Yongjun Liu, Yuqing Xu, Xiaoxing Li, Mengke Chen, Xueqin Wang, Ning Zhang, Heping Zhang, Zhengjun Zhang
Towards precision oncology discovery: four less known genes and their unknown interactions as highest-performed biomarkers for colorectal cancer. NPJ precision oncology 8 (1) (2024)
Lindong Jiang, Chao Xu, Yuntong Bai, Anqi Liu, Yun Gong, Yu-Ping Wang, Hong-Wen Deng
Autosurv: interpretable deep learning framework for cancer survival analysis incorporating clinical and multi-omics data. NPJ precision oncology 8 (1) (2024)
Yiming Fang, Xue Xiao, Ji Wang, Subramanyam Dasari, David Pepin, Kenneth P Nephew, Dmitriy Zamarin, Anirban K Mitra
Cancer associated fibroblasts serve as an ovarian cancer stem cell niche through noncanonical Wnt5a signaling. NPJ precision oncology 8 (1) (2024)
Daniel S Lenchner, Zaritza O Petrova, Lisa Hunihan, Kumar D Ashtekar, Zenta Walther, Frederick H Wilson
A destabilizing Y891D mutation in activated EGFR impairs sensitivity to kinase inhibition. NPJ precision oncology 8 (1) (2024)
Yiming Fang, Xue Xiao, Ji Wang, Subramanyam Dasari, David Pepin, Kenneth P Nephew, Dmitriy Zamarin, Anirban K Mitra
Cancer associated fibroblasts serve as an ovarian cancer stem cell niche through noncanonical Wnt5a signaling. NPJ precision oncology 8 (1) (2024)
Daniel S Lenchner, Zaritza O Petrova, Lisa Hunihan, Kumar D Ashtekar, Zenta Walther, Frederick H Wilson
A destabilizing Y891D mutation in activated EGFR impairs sensitivity to kinase inhibition. NPJ precision oncology 8 (1) (2024)
Lindong Jiang, Chao Xu, Yuntong Bai, Anqi Liu, Yun Gong, Yu-Ping Wang, Hong-Wen Deng
Autosurv: interpretable deep learning framework for cancer survival analysis incorporating clinical and multi-omics data. NPJ precision oncology 8 (1) (2024)
Lishan Cai, Doenja M J Lambregts, Geerard L O Beets, Monique Mass, Eduardo H P Pooch, Corentin Guérendel, Regina G H Beets-Tan, Sean Benson
An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study. NPJ precision oncology 8 (1) (2024)
Joshua J Levy, Matthew J Davis, Rachael S Chacko, Michael J Davis, Lucy J Fu, Tarushii Goel, Akash Pamal, Irfan Nafi, Abhinav Angirekula, Anish Suvarna, Ram Vempati, Brock C Christensen, Matthew S Hayden, Louis J Vaickus, Matthew R LeBoeuf
Intraoperative margin assessment for basal cell carcinoma with deep learning and histologic tumor mapping to surgical site. NPJ precision oncology 8 (1) (2024)
Yuanfeng Zhang, Duo Wang, Zihong Zhao, Rongxue Peng, Yanxi Han, Jinming Li, Rui Zhang
Enhancing the quality of panel-based tumor mutation burden assessment: a comprehensive study of real-world and in-silico outcomes. NPJ precision oncology 8 (1) (2024)
Kengo Kawaguchi, Kazuki Miyama, Makoto Endo, Ryoma Bise, Kenichi Kohashi, Takeshi Hirose, Akira Nabeshima, Toshifumi Fujiwara, Yoshihiro Matsumoto, Yoshinao Oda, Yasuharu Nakashima
Viable tumor cell density after neoadjuvant chemotherapy assessed using deep learning model reflects the prognosis of osteosarcoma. NPJ precision oncology 8 (1) (2024)
Kengo Kawaguchi, Kazuki Miyama, Makoto Endo, Ryoma Bise, Kenichi Kohashi, Takeshi Hirose, Akira Nabeshima, Toshifumi Fujiwara, Yoshihiro Matsumoto, Yoshinao Oda, Yasuharu Nakashima
Viable tumor cell density after neoadjuvant chemotherapy assessed using deep learning model reflects the prognosis of osteosarcoma. NPJ precision oncology 8 (1) (2024)
Shi Fu, Zhiyong Tan, Hongjin Shi, Junhao Chen, Yawei Zhang, Chunming Guo, Wei Feng, Haole Xu, Jiansong Wang, Haifeng Wang
Development of a stemness-related prognostic index to provide therapeutic strategies for bladder cancer. NPJ precision oncology 8 (1) (2024)
Jiyun Hong, Eunwoo Choi, Dahee Kim, Mi-Kyoung Seo, Hyundeok Kang, BeumJin Park, Sangwoo Kim
Immunological subtyping of salivary gland cancer identifies histological origin-specific tumor immune microenvironment. NPJ precision oncology 8 (1) (2024)
Jiyun Hong, Eunwoo Choi, Dahee Kim, Mi-Kyoung Seo, Hyundeok Kang, BeumJin Park, Sangwoo Kim
Immunological subtyping of salivary gland cancer identifies histological origin-specific tumor immune microenvironment. NPJ precision oncology 8 (1) (2024)
Lishan Cai, Doenja M J Lambregts, Geerard L O Beets, Monique Mass, Eduardo H P Pooch, Corentin Guérendel, Regina G H Beets-Tan, Sean Benson
An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study. NPJ precision oncology 8 (1) (2024)
Qiong Wang, Bisheng Cheng, Sandeep Singh, Yiran Tao, Zhongqiu Xie, Fujun Qin, Xinrui Shi, Jingjing Xu, Chenxi Hu, Wanlong Tan, Hui Li, Hai Huang
A protein-encoding CCDC7 circular RNA inhibits the progression of prostate cancer by up-regulating FLRT3. NPJ precision oncology 8 (1) (2024)
Minoru Koi, Brandie H Leach, Sarah McGee, Stephanie S Tseng-Rogenski, Carol A Burke, John M Carethers
Compound heterozygous MSH3 germline variants and associated tumor somatic DNA mismatch repair dysfunction. NPJ precision oncology 8 (1) (2024)
Lindong Jiang, Chao Xu, Yuntong Bai, Anqi Liu, Yun Gong, Yu-Ping Wang, Hong-Wen Deng
Autosurv: interpretable deep learning framework for cancer survival analysis incorporating clinical and multi-omics data. NPJ precision oncology 8 (1) (2024)
Yongjun Liu, Yuqing Xu, Xiaoxing Li, Mengke Chen, Xueqin Wang, Ning Zhang, Heping Zhang, Zhengjun Zhang
Towards precision oncology discovery: four less known genes and their unknown interactions as highest-performed biomarkers for colorectal cancer. NPJ precision oncology 8 (1) (2024)
Alberto Valdeolivas, Bettina Amberg, Nicolas Giroud, Marion Richardson, Eric J C Gálvez, Solveig Badillo, Alice Julien-Laferrière, Demeter Túrós, Lena Voith von Voithenberg, Isabelle Wells, Benedek Pesti, Amy A Lo, Emilio Yángüez, Meghna Das Thakur, Michael Bscheider, Marc Sultan, Nadine Kumpesa, Björn Jacobsen, Tobias Bergauer, Julio Saez-Rodriguez, Sven Rottenberg, Petra C Schwalie, Kerstin Hahn
Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. NPJ precision oncology 8 (1) (2024)
Yan Qin Tan, Yi-Shiou Chiou, Hui Guo, Shuwei Zhang, Xiaoming Huang, Dukanya Dukanya, Arunkumar Mohan, Shreeja Basappa, Suling Liu, Tao Zhu, Nallur Basappa Ramachandra, Vijay Pandey, Peter E Lobie
Vertical pathway inhibition of receptor tyrosine kinases and BAD with synergistic efficacy in triple negative breast cancer. NPJ precision oncology 8 (1) (2024)
Alberto Valdeolivas, Bettina Amberg, Nicolas Giroud, Marion Richardson, Eric J C Gálvez, Solveig Badillo, Alice Julien-Laferrière, Demeter Túrós, Lena Voith von Voithenberg, Isabelle Wells, Benedek Pesti, Amy A Lo, Emilio Yángüez, Meghna Das Thakur, Michael Bscheider, Marc Sultan, Nadine Kumpesa, Björn Jacobsen, Tobias Bergauer, Julio Saez-Rodriguez, Sven Rottenberg, Petra C Schwalie, Kerstin Hahn
Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. NPJ precision oncology 8 (1) (2024)
Yuanfeng Zhang, Duo Wang, Zihong Zhao, Rongxue Peng, Yanxi Han, Jinming Li, Rui Zhang
Enhancing the quality of panel-based tumor mutation burden assessment: a comprehensive study of real-world and in-silico outcomes. NPJ precision oncology 8 (1) (2024)
Gagan Chhabra, Chandra K Singh, Mary Ann Ndiaye, Shengqin Su, Carl A Shirley, Nihal Ahmad
Role of PLK1/NUMB/NOTCH in epithelial-mesenchymal transition in human melanoma. NPJ precision oncology 8 (1) (2024)
Muhammad Dawood, Quoc Dang Vu, Lawrence S Young, Kim Branson, Louise Jones, Nasir M Rajpoot, Fayyaz Ul Amir Afsar Minhas
Cancer drug sensitivity prediction from routine histology images. NPJ precision oncology 8 (1) (2024)
Changwen Wang, Meng Sun, Chunxuan Shao, Lisa Schlicker, Yue Zhuo, Yassin Harim, Tianping Peng, Weili Tian, Nadja Stöffler, Martin Schneider, Dominic Helm, Youjun Chu, Beibei Fu, Xiaoliang Jin, Jan-Philipp Mallm, Moritz Mall, Yonghe Wu, Almut Schulze, Hai-Kun Liu
A multidimensional atlas of human glioblastoma-like organoids reveals highly coordinated molecular networks and effective drugs. NPJ precision oncology 8 (1) (2024)
Yuanfeng Zhang, Duo Wang, Zihong Zhao, Rongxue Peng, Yanxi Han, Jinming Li, Rui Zhang
Enhancing the quality of panel-based tumor mutation burden assessment: a comprehensive study of real-world and in-silico outcomes. NPJ precision oncology 8 (1) (2024)
Yan Qin Tan, Yi-Shiou Chiou, Hui Guo, Shuwei Zhang, Xiaoming Huang, Dukanya Dukanya, Arunkumar Mohan, Shreeja Basappa, Suling Liu, Tao Zhu, Nallur Basappa Ramachandra, Vijay Pandey, Peter E Lobie
Vertical pathway inhibition of receptor tyrosine kinases and BAD with synergistic efficacy in triple negative breast cancer. NPJ precision oncology 8 (1) (2024)
Gagan Chhabra, Chandra K Singh, Mary Ann Ndiaye, Shengqin Su, Carl A Shirley, Nihal Ahmad
Role of PLK1/NUMB/NOTCH in epithelial-mesenchymal transition in human melanoma. NPJ precision oncology 8 (1) (2024)
Liam F Spurr, Sean P Pitroda
Exploiting tumor aneuploidy as a biomarker and therapeutic target in patients treated with immune checkpoint blockade. NPJ precision oncology 8 (1) (2024)
Liam F Spurr, Sean P Pitroda
Exploiting tumor aneuploidy as a biomarker and therapeutic target in patients treated with immune checkpoint blockade. NPJ precision oncology 8 (1) (2024)