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Deep generative AI models analyzing circulating orphan non-coding RNAs enable detection of early-stage lung cancer Karimzadeh, Mehran; Momen-Roknabadi, Amir; Cavazos, Taylor B.; Fang, Yuqi; Chen, Nae-Chyun; Multhaup, Michael; Yen, Jennifer; Ku, Jeremy; Wang, Jieyang; Zhao, Xuan; Murzynowski, Philip; Wang, Kathleen; Hanna, Rose; Huang, Alice; Corti, Diana; Nguyen, Dang; Lam, Ti; Kilinc, Seda; Arensdorf, Patrick; Chau, Kimberly H.; Hartwig, Anna; Fish, Lisa; Li, Helen; Behsaz, Babak; Elemento, Olivier; Zou, James; Hormozdiari, Fereydoun; Alipanahi, Babak; Goodarzi, Hani Share Save
Predicting tumor ER and HER2 status using a cell-free RNA liquid biopsy assay Schwartzberg, L. S.; Yen, J.; Boyle, E.; Cavazos, T.; Karimzadeh, M.; Heydari, H.; Fish, L.; Trivedi, R.; Hormozdiari, F.; Lazar, A.; Alipanahi, B. Share Save
Integrative identification of non-coding regulatory regions driving metastatic prostate cancer Woo, Brian J.; Moussavi-Baygi, Ruhollah; Karner, Heather; Karimzadeh, Mehran; Yousefi, Hassan; Lee, Sean; Garcia, Kristle; Joshi, Tanvi; Yin, Keyi; Navickas, Albertas; Gilbert, Luke A.; Wang, Bo; Asgharian, Hosseinali; Feng, Felix Y.; Goodarzi, Hani Share Save
Cell-free orphan noncoding RNAs and AI enable early detection of invasive breast cancer and ductal carcinoma in-situ Tbeileh, Noura; Cavazos, Taylor; Karimzadeh, Mehran; Wang, Jeffrey; Huang, Alice; Dung Ngoc Lam; Kilinc, Seda; Wang, Jieyang; Zhao, Xuan; Pohl, Andy; Li, Helen; Fish, Lisa; Chau, Kimberly; Francis, Marra; Schwartzberg, Lee; Arensdorf, Patrick; Goodarzi, Hani; Hormozdiari, Fereydoun; Alipanahi, Babak Share Save
Beyond detection: AI-based classification of breast cancer invasiveness using cellfree orphan non-coding RNAs Karimzadeh, Mehran; Cavazos, Taylor B.; Chen, Nae-Chyun; Tbeileh, Noura K.; Siegel, David; Momen-Roknabadi, Amir; Yen, Jennifer; Ku, Jeremy; Chen, Selina; Corti, Diana; Huang, Alice; Nguyen, Dang; Hanna, Rose; Lam, Ti; Kilinc, Seda; Murzynowski, Philip; Wang, Jieyang; Zhao, Xuan; Pohl, Andy; Behsaz, Babak; Li, Helen; Fish, Lisa; Chau, Kim H.; Francis, Marra S.; Van't Veer, Laura J.; Esserman, Laura J.; Arensdorf, Patrick A.; Goodarzi, Hani; Hormozdiari, Fereydoun; Alipanahi, Babak Share Save
Orphan noncoding RNA (oncRNA) liquid biopsy assay is prognostic for survival in patients with triple-negative breast cancer (TNBC) and residual disease Yoder, Rachel; Yen, Jennifer; Karimzadeh, Mehran; Staley, Joshua M.; Fernandez, India; Heinrich, Adam C.; Hormozdiari, Fereydoun; Gregg, Jeffrey; Godwin, Andrew K.; Acerbi, Irene; Trivedi, Raaj; Alipanahi, Babak; Stecklein, Shane R.; Sharma, Priyanka Share Save
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Blood-based early detection of non-small cell lung cancer using orphan noncoding RNAs Karimzadeh, Mehran; Wang, Jeffrey; Sababi, Aiden; Afolabi, Oluwadamilare I.; Lam, Dung Ngoc; Huang, Alice; Corti, Diana R.; Garcia, Kristle C.; Kilinc, Seda; Zhao, Xuan; Wang, Jieyang; Cavazos, Taylor B.; Arensdorf, Patrick; Chau, Kimberly H.; Li, Helen; Goodarzi, Hani; Fish, Lisa; Hormozdiari, Fereydoun; Alipanahi, Babak Share Save
The molecular consequences of androgen activity in the human breast Raths, Florian; Karimzadeh, Mehran; Ing, Nathan; Martinez, Andrew; Yang, Yoona; Qu, Ying; Lee, Tian -Yu; Mulligan, Brianna; Devkota, Suzanne; Tilley, Wayne T.; Hickey, Theresa E.; Wang, Bo; Giuliano, Armando E.; Bose, Shikha; Goodarzi, Hani; Ray, Edward C.; Cui, Xiaojiang; Knott, Simon R. V. Share Save
Single-cell profiling of healthy human kidney reveals features of sex-based transcriptional programs and tissue-specific immunity McEvoy, Caitriona M.; Murphy, Julia M.; Zhang, Lin; Clotet-Freixas, Sergi; Mathews, Jessica A.; An, James; Karimzadeh, Mehran; Pouyabahar, Delaram; Su, Shenghui; Zaslaver, Olga; Roest, Hannes; Arambewela, Rangi; Liu, Lewis Y.; Zhang, Sally; Lawson, Keith A.; Finelli, Antonio; Wang, Bo; MacParland, Sonya A.; Bader, Gary D.; Konvalinka, Ana; Crome, Sarah Q. Share Save
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Multiscale interactome analysis coupled with off-target drug predictions reveals drug repurposing candidates for human coronavirus disease Sugiyama, Michael G.; Cui, Haotian; Redka, Dar'ya S.; Karimzadeh, Mehran; Rujas, Edurne; Maan, Hassaan; Hayat, Sikander; Cheung, Kyle; Misra, Rahul; McPhee, Joseph B.; Viirre, Russell D.; Haller, Andrew; Botelho, Roberto J.; Karshafian, Raffi; Sabatinos, Sarah A.; Fairn, Gregory D.; Madani Tonekaboni, Seyed Ali; Windemuth, Andreas; Julien, Jean-Philippe; Shahani, Vijay; MacKinnon, Stephen S.; Wang, Bo; Antonescu, Costin N. Share Save
Massively multiplex single-molecule oligonucleosome footprinting Abdulhay, Nour J.; McNally, Colin P.; Hsieh, Laura J.; Kasinathan, Sivakanthan; Keith, Aidan; Estes, Laurel S.; Karimzadeh, Mehran; Underwood, Jason G.; Goodarzi, Hani; Narlikar, Geeta J.; Ramani, Vijay Share Save
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A General Framework for Interrogation of mRNA Stability Programs Identifies RNA-Binding Proteins that Govern Cancer Transcriptomes Perron, Gabrielle; Jandaghi, Pouria; Solanki, Shraddha; Safisamghabadi, Maryam; Storoz, Cristina; Karimzadeh, Mehran; Papadakis, Andreas I.; Arseneault, Madeleine; Scelo, Ghislaine; Banks, Rosamonde E.; Tost, Jorg; Lathrop, Mark; Tanguay, Simon; Brazma, Alvis; Huang, Sidong; Brimo, Fadi; Najafabadi, Hamed S.; Riazalhosseini, Yasser Share Save
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