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1. Full Text Abstract 558: Computational analysis of clinically actionable genomic features: precision heuristics for interpreting the alteration landscape (PHIAL)
by Reardon, Brendan and Moore, Nathanael and VanAllen, Eliezer
Cancer research (Chicago, Ill.), ISSN 0008-5472, 07/2017, Volume 77, Issue 13 Supplement, pp. 558 - 558
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2. Full Text Clonal hematopoiesis is associated with adverse outcomes in multiple myeloma patients undergoing transplant
by Mouhieddine, Tarek H and Sperling, Adam S and Redd, Robert and Park, Jihye and Leventhal, Matthew and Gibson, Christopher J and Manier, Salomon and Nassar, Amin H and Capelletti, Marzia and Huynh, Daisy and Bustoros, Mark and Sklavenitis-Pistofidis, Romanos and Tahri, Sabrin and Hornburg, Kalvis and Dumke, Henry and Itani, Muhieddine M and Boehner, Cody J and Liu, Chia-Jen and AlDubayan, Saud H and Reardon, Brendan and Van Allen, Eliezer M and Keats, Jonathan J and Stewart, Chip and Mehr, Shaadi and Auclair, Daniel and Schlossman, Robert L and Munshi, Nikhil C and Anderson, Kenneth C and Steensma, David P and Laubach, Jacob P and Richardson, Paul G and Ritz, Jerome and Ebert, Benjamin L and Soiffer, Robert J and Trippa, Lorenzo and Getz, Gad and Neuberg, Donna S and Ghobrial, Irene M
Nature communications, ISSN 2041-1723, 06/2020, Volume 11, Issue 1, pp. 2996 - 2996
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Autografts | Immunomodulation | p53 Protein | Multiple myeloma | Maintenance | Survival | Hemopoiesis | Chemotherapy | Hematopoiesis | Stem cells | Peripheral blood | Mutation | Health risk assessment | Tumors | Index Medicus | Life Sciences | Human health and pathology | Hematology | Cancer
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3. Full Text Identification of cancer driver genes based on nucleotide context
by Dietlein, Felix and Weghorn, Donate and Taylor-Weiner, Amaro and Richters, Andre and Reardon, Brendan and Liu, David and Lander, Eric S and Van Allen, Eliezer M and Sunyaev, Shamil R
Nature genetics, ISSN 1061-4036, 02/2020, Volume 52, Issue 2, pp. 208 - 218
Life Sciences & Biomedicine | Genetics & Heredity | Science & Technology | Proteins - genetics | Computational Biology - methods | Neoplasms - genetics | Humans | Nucleotides - genetics | Mutation | Proteins - chemistry | Whole Exome Sequencing - methods | Cluster Analysis | Genomics | Genes | Oncology, Experimental | Genetic research | Genetic aspects | Research | Cancer | Sparsity | Passengers | Probability | Genomes | Nucleotides | Methods | Tumors | Gene sequencing | Index Medicus
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4. Full Text Abstract 2286: Feature-based clinical interpretation of whole exome and transcriptome data for precision cancer medicine
by Reardon, Brendan and Moore, Nathanael and Kofman, Eric and Allen, Eliezer Mendell Van
Cancer research (Chicago, Ill.), ISSN 0008-5472, 07/2018, Volume 78, Issue 13 Supplement, pp. 2286 - 2286
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5. Full Text Mutational patterns in chemotherapy resistant muscle-invasive bladder cancer
by Liu, David and Abbosh, Philip and Keliher, Daniel and Reardon, Brendan and Miao, Diana and Mouw, Kent and Weiner-Taylor, Amaro and Wankowicz, Stephanie and Han, Garam and Teo, Min Yuen and Cipolla, Catharine and Kim, Jaegil and Iyer, Gopa and Al-Ahmadie, Hikmat and Dulaimi, Essel and Chen, David Y. T and Alpaugh, R. Katherine and Hoffman-Censits, Jean and Garraway, Levi A and Getz, Gad and Carter, Scott L and Bellmunt, Joaquim and Plimack, Elizabeth R and Rosenberg, Jonathan E and Van Allen, Eliezer M
Nature communications, ISSN 2041-1723, 12/2017, Volume 8, Issue 1, pp. 2193 - 11
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Humans | Middle Aged | Carcinoma - mortality | Male | Urinary Bladder - pathology | Antineoplastic Combined Chemotherapy Protocols - pharmacology | Urinary Bladder Neoplasms - genetics | DNA Mutational Analysis | Aged, 80 and over | Adult | Female | Carcinoma - pathology | Urinary Bladder - surgery | Carcinoma - drug therapy | Urinary Bladder Neoplasms - mortality | Neoplasm Invasiveness | Clonal Evolution - drug effects | Survival Rate | Treatment Outcome | Transcriptome - genetics | Cisplatin - pharmacology | Urinary Bladder Neoplasms - drug therapy | Urinary Bladder Neoplasms - surgery | Whole Exome Sequencing | Cystectomy | Drug Resistance, Neoplasm - genetics | Cisplatin - therapeutic use | Antineoplastic Combined Chemotherapy Protocols - therapeutic use | Neoadjuvant Therapy - methods | Carcinoma - genetics | Aged | Biomarkers, Tumor - genetics | Mutation | Cohort Studies | Drug Resistance, Neoplasm - drug effects | Cell survival | Invasiveness | Gene regulation | Clinical trials | Muscles | Bladder | Gene expression | Bladder cancer | Cisplatin | Heterogeneity | Chemotherapy | Immune checkpoint | Urinary bladder | Spatial heterogeneity | Biomarkers | Tumors | Cancer | Index Medicus
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6. Full Text Smartphones, Studio-Based Learning, and Scaffolding
: Helping Novices Learn to Program
by Reardon, Susan and Tangney, Brendan
ACM transactions on computing education, ISSN 1946-6226, 02/2015, Volume 14, Issue 4, pp. 1 - 15
Smartphones | contextualized learning | Contextualized learning | Education & Educational Research | Education, Scientific Disciplines | Social Sciences
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7. Full Text The impact of tumor profiling approaches and genomic data strategies for cancer precision medicine
by Garofalo, Andrea and Sholl, Lynette and Reardon, Brendan and Taylor-Weiner, Amaro and Amin-Mansour, Ali and Miao, Diana and Liu, David and Oliver, Nelly and MacConaill, Laura and Ducar, Matthew and Rojas-Rudilla, Vanesa and Giannakis, Marios and Ghazani, Arezou and Gray, Stacy and Janne, Pasi and Garber, Judy and Joffe, Steve and Lindeman, Neal and Wagle, Nikhil and Garraway, Levi A and Van Allen, Eliezer M
Genome medicine, ISSN 1756-994X, 07/2016, Volume 8, Issue 1, pp. 79 - 79
Neoantigens | Disparities | Precision medicine | Immuno-oncology | Genomics | Panel testing | Life Sciences & Biomedicine | Genetics & Heredity | Science & Technology | Lung Neoplasms - genetics | Antigens, Neoplasm - genetics | Colonic Neoplasms - genetics | Adenocarcinoma - pathology | Adenocarcinoma of Lung | Humans | Colonic Neoplasms - diagnosis | Gene Expression Regulation, Neoplastic | Databases, Genetic | Lung Neoplasms - pathology | Mutation Rate | Gene Expression Profiling | False Positive Reactions | Sequence Analysis, DNA | Exome | Adenocarcinoma - diagnosis | Pedigree | Colonic Neoplasms - pathology | Germ-Line Mutation | Adenocarcinoma - genetics | Genomics - methods | Lung Neoplasms - diagnosis | Precision Medicine | Genetic aspects | Tumor antigens | Analysis | Cancer | Index Medicus
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8. Full Text CoMut: visualizing integrated molecular information with comutation plots
by Crowdis, Jett and He, Meng Xiao and Reardon, Brendan and Van Allen, Eliezer M
Bioinformatics, ISSN 1367-4803, 08/2020, Volume 36, Issue 15, pp. 4348 - 4349
Statistics & Probability | Biochemistry & Molecular Biology | Physical Sciences | Computer Science, Interdisciplinary Applications | Life Sciences & Biomedicine | Technology | Biochemical Research Methods | Computer Science | Mathematics | Biotechnology & Applied Microbiology | Science & Technology | Mathematical & Computational Biology | Index Medicus
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9. Full Text Integrated molecular drivers coordinate biological and clinical states in melanoma
by Conway, Jake R and Dietlein, Felix and Taylor-Weiner, Amaro and AlDubayan, Saud and Vokes, Natalie and Keenan, Tanya and Reardon, Brendan and He, Meng Xiao and Margolis, Claire A and Weirather, Jason L and Haq, Rizwan and Schilling, Bastian and Stephen Hodi, F and Schadendorf, Dirk and Liu, David and Van Allen, Eliezer M
Nature genetics, ISSN 1061-4036, 12/2020, Volume 52, Issue 12, pp. 1373 - 1383
Life Sciences & Biomedicine | Genetics & Heredity | Science & Technology | Transcription | Genes | Melanoma | Inactivation | Kinases | Patients | DNA repair | Immune checkpoint | Immunotherapy | SWI/SNF complex | Mutation | Repair | Growth factors | Deoxyribonucleic acid--DNA | Cancer | Tumors | Index Medicus
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10. Full Text Detection of Pathogenic Variants With Germline Genetic Testing Using Deep Learning vs Standard Methods in Patients With Prostate Cancer and Melanoma
by AlDubayan, Saud H and Conway, Jake R and Camp, Sabrina Y and Witkowski, Leora and Kofman, Eric and Reardon, Brendan and Han, Seunghun and Moore, Nicholas and Elmarakeby, Haitham and Salari, Keyan and Choudhry, Hani and Al-Rubaish, Abdullah M and Al-Sulaiman, Abdulsalam A and Al-Ali, Amein K and Taylor-Weiner, Amaro and Van Allen, Eliezer M
JAMA : the journal of the American Medical Association, ISSN 0098-7484, 11/2020, Volume 324, Issue 19, pp. 1957 - 1969
Medicine, General & Internal | Life Sciences & Biomedicine | General & Internal Medicine | Science & Technology | Genes | Genomics | Melanoma | Patients | Genetic screening | Deep learning | Learning | Sensitivity | Teaching methods | Data collection | Genetics | Diagnosis | Prostate cancer | Prostate | Cancer | Index Medicus | Abridged Index Medicus
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11. Full Text A phase 2 trial of buparlisib in patients with platinum‐resistant metastatic urothelial carcinoma
by McPherson, Victor and Reardon, Brendan and Bhayankara, Aravind and Scott, Sasinya N and Boyd, Mariel E and Garcia‐Grossman, Ilana R and Regazzi, Ashley M and McCoy, Asia S and Kim, Philip H and Al‐Ahmadie, Hikmat and Ostrovnaya, Irina and Roth, Andrew J and Farooki, Azeez and Berger, Michael F and Rosenberg, Jonathan E and Solit, David B and Van Allen, Eliezer and Milowsky, Matthew I and Bajorin, Dean F and Iyer, Gopa
Cancer, ISSN 0008-543X, 10/2020, Volume 126, Issue 20, pp. 4532 - 4544
phosphatidyl 3‐inositol kinase (PI3K)/Akt/mechanistic target of rapamycin (mTOR) pathway | targeted therapy | urothelial carcinoma | buparlisib | phosphatidyl 3-inositol kinase (PI3K)/Akt/mechanistic target of rapamycin (mTOR) pathway | Life Sciences & Biomedicine | Oncology | Science & Technology | TOR protein | Minimax technique | Inositol | Toxicity | Health services | Clinical trials | AKT protein | Rapamycin | Metastasis | Kinases | Disease control | Patients | Tuberous Sclerosis Complex 1 | Survival | 1-Phosphatidylinositol 3-kinase | Metastases | Signal transduction | Side effects | Alterations | Inhibitors | Platinum | Mutation | Urothelial carcinoma | Tumors | Index Medicus | Abridged Index Medicus
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12. Full Text Genomic evolution after chemoradiotherapy in anal squamous cell carcinoma
by Mouw, Kent W and Cleary, James M and Reardon, Brendan and Pike, Jonathan and Braunstein, Lior Z and Kim, Jaegil and Amin-Mansour, Ali and Miao, Diana and Damish, Alexis and Chin, Joanna and Ott, Patrick A and Fuchs, Charles S and Martin, Neil E and Getz, Gad and Carter, Scott and Mamon, Harvey J and Hornick, Jason L and Van Allen, Eliezer M and D'Andrea, Alan D
Clinical cancer research, ISSN 1078-0432, 06/2017, Volume 23, Issue 12, pp. 3214 - 3222
Life Sciences & Biomedicine | Oncology | Science & Technology | Squamous cell carcinoma | PD-1 protein | Radiation | Cdc4 protein | K-Ras protein | Chemotherapy | Experimental design | Immunotherapy | Evolution | Mutation | Tumors | Apoptosis | Cancer | Index Medicus | squamous cell cancer | chemoradiotherapy | genomics | tumor evolution | Anal cancer | human papilloma virus (HPV)
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