X-MATE: a flexible system for mapping short read data

por Wood, David L. A., Xu, Qinying, Pearson, John V., Cloonan, Nicole, Grimmond, Sean M.
Publicado 2011

Two cases of successful sirolimus treatment for patients with activated phosphoinositide 3-kinase δ syndrome 1

por Jiang, Lu, Hu, Xiaohan, Lin, Qiang, Chen, Ruyue, Shen, Yunyan, Zhu, Yun, Xu, Qinying, Li, Xiaozhong
Publicado 2023

Systematic Analysis of CXC Chemokine–Vascular Endothelial Growth Factor A Network in Colonic Adenocarcinoma from the Perspective of Angiogenesis

por Situ, Yongli, Lu, Xiaoyong, Cui, Yongshi, Xu, Qinying, Deng, Li, Lin, Hao, Shao, Zheng, Chen, Jv
Publicado 2022

RNA-MATE: a recursive mapping strategy for high-throughput RNA-sequencing data

por Cloonan, Nicole, Xu, Qinying, Faulkner, Geoffrey J., Taylor, Darrin F., Tang, Dave T. P., Kolle, Gabriel, Grimmond, Sean M.
Publicado 2009

Sintilimab treatment for chronic active Epstein–Barr virus infection and Epstein–Barr virus-associated hemophagocytic lymphohistiocytosis in children

por Chen, Ruyue, Lin, Qiang, Zhu, Yun, Shen, Yunyan, Xu, Qinying, Tang, Hanyun, Cui, Ningxun, Jiang, Lu, Dai, Xiaomei, Chen, Weiqing, Li, Xiaozhong
Publicado 2023

Systematic analysis of the BET family in adrenocortical carcinoma: The expression, prognosis, gene regulation network, and regulation targets

por Situ, Yongli, Liang, Quanyan, Zeng, Ziying, Chen, Jv, Shao, Zheng, Xu, Qinying, Lu, Xiaoyong, Cui, Yongshi, Zhang, Juying, Lu, Lingling, Deng, Li
Publicado 2023

Using whole-genome sequencing data to derive the homologous recombination deficiency scores

por de Luca, Xavier M., Newell, Felicity, Kazakoff, Stephen H., Hartel, Gunter, McCart Reed, Amy E., Holmes, Oliver, Xu, Qinying, Wood, Scott, Leonard, Conrad, Pearson, John V., Lakhani, Sunil R., Waddell, Nicola, Nones, Katia, Simpson, Peter T.
Publicado 2020

qmotif: determination of telomere content from whole-genome sequence data

por Holmes, Oliver, Nones, Katia, Tang, Yue Hang, Loffler, Kelly A, Lee, Michael, Patch, Ann-Marie, Dagg, Rebecca A, Lau, Loretta M S, Leonard, Conrad, Wood, Scott, Xu, Qinying, Pickett, Hilda A, Reddel, Roger R, Barbour, Andrew P, Grimmond, Sean M, Waddell, Nicola, Pearson, John V
Publicado 2022

Complex structural rearrangements are present in high-grade dysplastic Barrett’s oesophagus samples

por Newell, Felicity, Patel, Kalpana, Gartside, Michael, Krause, Lutz, Brosda, Sandra, Aoude, Lauren G., Loffler, Kelly A., Bonazzi, Vanessa F., Patch, Ann-Marie, Kazakoff, Stephen H., Holmes, Oliver, Xu, Qinying, Wood, Scott, Leonard, Conrad, Lampe, Guy, Lord, Reginald V., Whiteman, David C., Pearson, John V., Nones, Katia, Waddell, Nicola, Barbour, Andrew P.
Publicado 2019

qpure: A Tool to Estimate Tumor Cellularity from Genome-Wide Single-Nucleotide Polymorphism Profiles

por Song, Sarah, Nones, Katia, Miller, David, Harliwong, Ivon, Kassahn, Karin S., Pinese, Mark, Pajic, Marina, Gill, Anthony J., Johns, Amber L., Anderson, Matthew, Holmes, Oliver, Leonard, Conrad, Taylor, Darrin, Wood, Scott, Xu, Qinying, Newell, Felicity, Cowley, Mark J., Wu, Jianmin, Wilson, Peter, Fink, Lynn, Biankin, Andrew V., Waddell, Nic, Grimmond, Sean M., Pearson, John V.
Publicado 2012

MicroRNAs and their isomiRs function cooperatively to target common biological pathways

por Cloonan, Nicole, Wani, Shivangi, Xu, Qinying, Gu, Jian, Lea, Kristi, Heater, Sheila, Barbacioru, Catalin, Steptoe, Anita L, Martin, Hilary C, Nourbakhsh, Ehsan, Krishnan, Keerthana, Gardiner, Brooke, Wang, Xiaohui, Nones, Katia, Steen, Jason A, Matigian, Nicholas A, Wood, David L, Kassahn, Karin S, Waddell, Nic, Shepherd, Jill, Lee, Clarence, Ichikawa, Jeff, McKernan, Kevin, Bramlett, Kelli, Kuersten, Scott, Grimmond, Sean M
Publicado 2011

Germline and somatic variant identification using BGISEQ-500 and HiSeq X Ten whole genome sequencing

por Patch, Ann-Marie, Nones, Katia, Kazakoff, Stephen H., Newell, Felicity, Wood, Scott, Leonard, Conrad, Holmes, Oliver, Xu, Qinying, Addala, Venkateswar, Creaney, Jenette, Robinson, Bruce W., Fu, Shujin, Geng, Chunyu, Li, Tong, Zhang, Wenwei, Liang, Xinming, Rao, Junhua, Wang, Jiahao, Tian, Mingyu, Zhao, Yonggang, Teng, Fei, Gou, Honglan, Yang, Bicheng, Jiang, Hui, Mu, Feng, Pearson, John V., Waddell, Nicola
Publicado 2018

Comprehensive genomic and tumour immune profiling reveals potential therapeutic targets in malignant pleural mesothelioma

por Creaney, Jenette, Patch, Ann-Marie, Addala, Venkateswar, Sneddon, Sophie A., Nones, Katia, Dick, Ian M., Lee, Y. C. Gary, Newell, Felicity, Rouse, Ebony J., Naeini, Marjan M., Kondrashova, Olga, Lakis, Vanessa, Nakas, Apostolos, Waller, David, Sharkey, Annabel, Mukhopadhyay, Pamela, Kazakoff, Stephen H., Koufariotis, Lambros T., Davidson, Aimee L., Ramarao-Milne, Priya, Holmes, Oliver, Xu, Qinying, Leonard, Conrad, Wood, Scott, Grimmond, Sean M., Bueno, Raphael, Fennell, Dean A., Pearson, John V., Robinson, Bruce W., Waddell, Nicola
Publicado 2022

Somatic Point Mutation Calling in Low Cellularity Tumors

por Kassahn, Karin S., Holmes, Oliver, Nones, Katia, Patch, Ann-Marie, Miller, David K., Christ, Angelika N., Harliwong, Ivon, Bruxner, Timothy J., Xu, Qinying, Anderson, Matthew, Wood, Scott, Leonard, Conrad, Taylor, Darrin, Newell, Felicity, Song, Sarah, Idrisoglu, Senel, Nourse, Craig, Nourbakhsh, Ehsan, Manning, Suzanne, Wani, Shivangi, Steptoe, Anita, Pajic, Marina, Cowley, Mark J., Pinese, Mark, Chang, David K., Gill, Anthony J., Johns, Amber L., Wu, Jianmin, Wilson, Peter J., Fink, Lynn, Biankin, Andrew V., Waddell, Nicola, Grimmond, Sean M., Pearson, John V.
Publicado 2013

Multi-omic features of oesophageal adenocarcinoma in patients treated with preoperative neoadjuvant therapy

por M. Naeini, Marjan, Newell, Felicity, Aoude, Lauren G., Bonazzi, Vanessa F., Patel, Kalpana, Lampe, Guy, Koufariotis, Lambros T., Lakis, Vanessa, Addala, Venkateswar, Kondrashova, Olga, Johnston, Rebecca L., Sharma, Sowmya, Brosda, Sandra, Holmes, Oliver, Leonard, Conrad, Wood, Scott, Xu, Qinying, Thomas, Janine, Walpole, Euan, Tao Mai, G., Ackland, Stephen P., Martin, Jarad, Burge, Matthew, Finch, Robert, Karapetis, Christos S., Shannon, Jenny, Nott, Louise, Bohmer, Robert, Wilson, Kate, Barnes, Elizabeth, Zalcberg, John R., Mark Smithers, B., Simes, John, Price, Timothy, Gebski, Val, Nones, Katia, Watson, David I., Pearson, John V., Barbour, Andrew P., Waddell, Nicola
Publicado 2023

Whole-genome sequencing of acral melanoma reveals genomic complexity and diversity

por Newell, Felicity, Wilmott, James S., Johansson, Peter A., Nones, Katia, Addala, Venkateswar, Mukhopadhyay, Pamela, Broit, Natasa, Amato, Carol M., Van Gulick, Robert, Kazakoff, Stephen H., Patch, Ann-Marie, Koufariotis, Lambros T., Lakis, Vanessa, Leonard, Conrad, Wood, Scott, Holmes, Oliver, Xu, Qinying, Lewis, Karl, Medina, Theresa, Gonzalez, Rene, Saw, Robyn P. M., Spillane, Andrew J., Stretch, Jonathan R., Rawson, Robert V., Ferguson, Peter M., Dodds, Tristan J., Thompson, John F., Long, Georgina V., Levesque, Mitchell P., Robinson, William A., Pearson, John V., Mann, Graham J., Scolyer, Richard A., Waddell, Nicola, Hayward, Nicholas K.
Publicado 2020

Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesis

por Nones, Katia, Waddell, Nicola, Wayte, Nicci, Patch, Ann-Marie, Bailey, Peter, Newell, Felicity, Holmes, Oliver, Fink, J. Lynn, Quinn, Michael C.J., Tang, Yue Hang, Lampe, Guy, Quek, Kelly, Loffler, Kelly A., Manning, Suzanne, Idrisoglu, Senel, Miller, David, Xu, Qinying, Waddell, Nick, Wilson, Peter J., Bruxner, Timothy J.C., Christ, Angelika N., Harliwong, Ivon, Nourse, Craig, Nourbakhsh, Ehsan, Anderson, Matthew, Kazakoff, Stephen, Leonard, Conrad, Wood, Scott, Simpson, Peter T., Reid, Lynne E., Krause, Lutz, Hussey, Damian J., Watson, David I., Lord, Reginald V., Nancarrow, Derek, Phillips, Wayne A., Gotley, David, Smithers, B. Mark, Whiteman, David C., Hayward, Nicholas K., Campbell, Peter J., Pearson, John V., Grimmond, Sean M., Barbour, Andrew P.
Publicado 2014

Whole-genome landscape of mucosal melanoma reveals diverse drivers and therapeutic targets

por Newell, Felicity, Kong, Yan, Wilmott, James S., Johansson, Peter A., Ferguson, Peter M., Cui, Chuanliang, Li, Zhongwu, Kazakoff, Stephen H., Burke, Hazel, Dodds, Tristan J., Patch, Ann-Marie, Nones, Katia, Tembe, Varsha, Shang, Ping, van der Weyden, Louise, Wong, Kim, Holmes, Oliver, Lo, Serigne, Leonard, Conrad, Wood, Scott, Xu, Qinying, Rawson, Robert V., Mukhopadhyay, Pamela, Dummer, Reinhard, Levesque, Mitchell P., Jönsson, Göran, Wang, Xuan, Yeh, Iwei, Wu, Hong, Joseph, Nancy, Bastian, Boris C., Long, Georgina V., Spillane, Andrew J., Shannon, Kerwin F., Thompson, John F., Saw, Robyn P. M., Adams, David J., Si, Lu, Pearson, John V., Hayward, Nicholas K., Waddell, Nicola, Mann, Graham J., Guo, Jun, Scolyer, Richard A.
Publicado 2019

The clinical utility and costs of whole-genome sequencing to detect cancer susceptibility variants—a multi-site prospective cohort study

por Davidson, Aimee L., Dressel, Uwe, Norris, Sarah, Canson, Daffodil M., Glubb, Dylan M., Fortuno, Cristina, Hollway, Georgina E., Parsons, Michael T., Vidgen, Miranda E., Holmes, Oliver, Koufariotis, Lambros T., Lakis, Vanessa, Leonard, Conrad, Wood, Scott, Xu, Qinying, McCart Reed, Amy E., Pickett, Hilda A., Al-Shinnag, Mohammad K., Austin, Rachel L., Burke, Jo, Cops, Elisa J., Nichols, Cassandra B., Goodwin, Annabel, Harris, Marion T., Higgins, Megan J., Ip, Emilia L., Kiraly-Borri, Catherine, Lau, Chiyan, Mansour, Julia L., Millward, Michael W., Monnik, Melissa J., Pachter, Nicholas S., Ragunathan, Abiramy, Susman, Rachel D., Townshend, Sharron L., Trainer, Alison H., Troth, Simon L., Tucker, Katherine M., Wallis, Mathew J., Walsh, Maie, Williams, Rachel A., Winship, Ingrid M., Newell, Felicity, Tudini, Emma, Pearson, John V., Poplawski, Nicola K., Mar Fan, Helen G., James, Paul A., Spurdle, Amanda B., Waddell, Nicola, Ward, Robyn L.
Publicado 2023