ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking

por Wilkerson, Matthew D., Hayes, D. Neil
Publicado 2010

ABRA: improved coding indel detection via assembly-based realignment

por Mose, Lisle E., Wilkerson, Matthew D., Hayes, D. Neil, Perou, Charles M., Parker, Joel S.
Publicado 2014

DiNAMIC.Duo: detecting somatic DNA copy number differences without a normal reference

por Walter, Vonn, Choi, Hyo Young, Zhao, Xiaobei, Gao, Yan, Holt, Jeremiah, Hayes, D Neil
Publicado 2022

Salivary Duct Carcinoma with Rhabdoid Features of the Parotid Gland with No E-Cadherin Expression: A Report with Anti-HER2 Therapy and Review of the Literature

por Jain, Richa, Sansoni, E. Ritter, Angel, Jacqueline, Gleysteen, John P., Hayes, D. Neil, Owosho, Adepitan A.
Publicado 2023

Autologous reconstitution of human cancer and immune system in vivo

por Fu, Juan, Sen, Rupashree, Masica, David L., Karchin, Rachel, Pardoll, Drew, Walter, Vonn, Hayes, D. Neil, Chung, Christine H., Kim, Young J.
Publicado 2016

ReQON: a Bioconductor package for recalibrating quality scores from next-generation sequencing data

por Cabanski, Christopher R, Cavin, Keary, Bizon, Chris, Wilkerson, Matthew D, Parker, Joel S, Wilhelmsen, Kirk C, Perou, Charles M, Marron, JS, Hayes, D Neil
Publicado 2012

BlackOPs: increasing confidence in variant detection through mappability filtering

por Cabanski, Christopher R., Wilkerson, Matthew D., Soloway, Matthew, Parker, Joel S., Liu, Jinze, Prins, Jan F., Marron, J. S., Perou, Charles M., Hayes, D. Neil
Publicado 2013

Concomitant Radiotherapy and Chemotherapy for High-Risk Nonmelanoma Skin Carcinomas of the Head and Neck

por Apisarnthanarax, Smith, Dhruva, Nirav, Ardeshirpour, Farhad, Tepper, Joel E., Shores, Carol G., Rosenman, Julian G., Shockley, William W., Hayward, Michele C., Hayes, D. Neil
Publicado 2011

Unsupervised Hierarchical Clustering of Head and Neck Cancer Patients by Pre-Treatment Plasma Metabolomics Creates Prognostic Metabolic Subtypes

por Eldridge, Ronald C., Qin, Zhaohui S., Saba, Nabil F., Houser, Madelyn C., Hayes, D. Neil, Miller, Andrew H., Bruner, Deborah W., Jones, Dean P., Xiao, Canhua
Publicado 2023

SCISSOR: a framework for identifying structural changes in RNA transcripts

por Choi, Hyo Young, Jo, Heejoon, Zhao, Xiaobei, Hoadley, Katherine A., Newman, Scott, Holt, Jeremiah, Hayward, Michele C., Love, Michael I., Marron, J. S., Hayes, D. Neil
Publicado 2021

The LKB1 Tumor Suppressor as a Biomarker in Mouse and Human Tissues

por Nakada, Yuji, Stewart, Thomas G., Peña, Christopher G., Zhang, Song, Zhao, Ni, Bardeesy, Nabeel, Sharpless, Norman E., Wong, Kwok-Kin, Hayes, D. Neil, Castrillon, Diego H.
Publicado 2013

SWISS MADE: Standardized WithIn Class Sum of Squares to Evaluate Methodologies and Dataset Elements

por Cabanski, Christopher R., Qi, Yuan, Yin, Xiaoying, Bair, Eric, Hayward, Michele C., Fan, Cheng, Li, Jianying, Wilkerson, Matthew D., Marron, J. S., Perou, Charles M., Hayes, D. Neil
Publicado 2010

Racial Differences in Androgen Receptor (AR) and AR Splice Variants (AR-SVs) Expression in Treatment-Naïve Androgen-Dependent Prostate Cancer

por Khan, Farhan, Anelo, Obianuju Mercy, Sadiq, Qandeel, Effah, Wendy, Price, Gary, Johnson, Daniel L., Ponnusamy, Suriyan, Grimes, Brandy, Morrison, Michelle L., Fowke, Jay H., Hayes, D. Neil, Narayanan, Ramesh
Publicado 2023

TSC1 loss synergizes with KRAS activation in lung cancer development in the mouse and confers rapamycin sensitivity

por Liang, Mei-Chih, Ma, Jian, Chen, Liang, Kozlowski, Piotr, Qin, Wei, Li, Danan, Shimamura, Takeshi, Thomas, Roman K., Hayes, D. Neil, Meyerson, Matthew, Kwiatkowski, David J., Wong, Kwok-Kin
Publicado 2009

Integrated RNA and DNA sequencing improves mutation detection in low purity tumors

por Wilkerson, Matthew D., Cabanski, Christopher R., Sun, Wei, Hoadley, Katherine A., Walter, Vonn, Mose, Lisle E., Troester, Melissa A., Hammerman, Peter S., Parker, Joel S., Perou, Charles M., Hayes, D. Neil
Publicado 2014

SigFuge: single gene clustering of RNA-seq reveals differential isoform usage among cancer samples

por Kimes, Patrick K., Cabanski, Christopher R., Wilkerson, Matthew D., Zhao, Ni, Johnson, Amy R., Perou, Charles M., Makowski, Liza, Maher, Christopher A., Liu, Yufeng, Marron, J.S., Hayes, D. Neil
Publicado 2014

Nonpromoter methylation of the CDKN2A gene with active transcription is associated with improved locoregional control in laryngeal squamous cell carcinoma

por Ben‐Dayan, Miriam M., Ow, Thomas J., Belbin, Thomas J., Wetzler, Joshua, Smith, Richard V., Childs, Geoffrey, Diergaarde, Brenda, Hayes, D. Neil, Grandis, Jennifer R., Prystowsky, Michael B., Schlecht, Nicolas F.
Publicado 2017

Correlation of alterations in the KEAP1/CUL3/NFE2L2 pathway with radiation failure in larynx squamous cell carcinoma

por Sheth, Siddharth, Farquhar, Douglas R., Schrank, Travis P., Stepp, Wesley, Mazul, Angela, Hayward, Michele, Lenze, Nicholas, Little, Paul, Jo, Heejoon, Major, M. Ben, Chera, Bhishamjit S., Zevallos, Jose P., Hayes, D. Neil
Publicado 2021

UNMASC: tumor-only variant calling with unmatched normal controls

por Little, Paul, Jo, Heejoon, Hoyle, Alan, Mazul, Angela, Zhao, Xiaobei, Salazar, Ashley H, Farquhar, Douglas, Sheth, Siddharth, Masood, Maheer, Hayward, Michele C, Parker, Joel S, Hoadley, Katherine A, Zevallos, Jose, Hayes, D Neil
Publicado 2021

Fbxw7 is a driver of uterine carcinosarcoma by promoting epithelial-mesenchymal transition

por Cuevas, Ileana C., Sahoo, Subhransu S., Kumar, Ashwani, Zhang, He, Westcott, Jill, Aguilar, Mitzi, Cortez, Jeremy D., Sullivan, Stephanie A., Xing, Chao, Hayes, D. Neil, Brekken, Rolf A., Bae-Jump, Victoria L., Castrillon, Diego H.
Publicado 2019