RNA-Seq Presentations this Week at AACR Meeting

Sun, Apr 17, 1:00 – 5:00 PM
84/24 – A discovery on splicing variant patterns of leucine-tRNA synthetase gene based on targeted RNA sequencing
HyoJin Song1, Daeyoon Kim1, Hyejoo Park1, Hyun Sub Cheong2, Sunghoon Kim3, Youngil Koh4, Sung-Soo Yoon4. 1Seoul National Univ. College of Medicine, Seoul, Korea, Republic of; 2Department of Genetic Epidemiology, SNP Genetics, Inc., Seoul, Korea, Republic of; 3Medical Bioconvergence Research Center, Seoul National University, Seoul, Korea, Republic of; 4Department of Internal Medicine, Seoul National University Hospital, Seoul, Korea, Republic of Poster Session
PO.MCB09.05. Functional Genomics and Genomics of Model Systems
Sun, Apr 17, 1:00 – 5:00 PM
Sun, Apr 17, 1:00 – 5:00 PM
161/15 – Single-cell RNA sequencing presents explicit expression signatures in primary breast cancer
Hye Hyeon Eum1, Hae-Ock Lee1, Woosung Chung1, Kyu-Tae Kim1, Kyung-Min Lee2, Arum Jo1, WonShik Han2, Woong-Yang Park1. 1Samsung Genome Institute, Seoul, Korea, Republic of; 2Cancer Research Institute, Seoul National University College of Medicine, Seoul, Korea, Republic of Poster Session
PO.MCB09.03. Intratumor Heterogeneity and Resistance
Sun, Apr 17, 1:00 – 5:00 PM
Sun, Apr 17, 1:00 – 5:00 PM
160/14 – Identification of the carcinoma and immune cells in the breast cancer by single-cell RNA sequencing
Woosung Chung1, Hye Hyeon Eum1, Kyu-Tae Kim1, Kyung-Min Lee2, Arum Jo1, WonShik Han2, Hae-Ock Lee1, Woong-Yang Park1. 1Samsung Genome Institute, Seoul, Korea, Republic of; 2Seoul National University, Seoul, Korea, Republic of Poster Session
PO.MCB09.03. Intratumor Heterogeneity and Resistance
Sun, Apr 17, 1:00 – 5:00 PM
Mon, Apr 18, 1:00 – 5:00 PM
2383/13 – Multiregional RNA sequencing identifies intratumor transcriptomic heterogeneity in a subset of early-stage hepatocellular carcinoma
Amanda Craig1, Mehmet E. Ahsen2, Ismail Labgaa1, Ashley Stueck3, Delia D’Avola1, Stephen C. Ward3, Maria Isabel Fiel3, Ganesh Gunasekaran4, Josep Llovet1, Swan Thung3, Myron Schwartz4, Bojan Losic5, Gustavo Stolovitzky5, Augusto Villanueva1. 1Division of Liver Diseases, Liver Cancer Program, Department of Medicine, Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai, New York, NY; 2T.J. Watson Research Center, IBM, Yorktown Heights, NY; 3Department of Pathology, Liver Cancer Program, Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai, New York, NY; 4Department of Surgery, Liver Cancer Program, Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai, New York, NY; 5Division of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY Poster Session
PO.TB11.01. Clonal Heterogeneity and Evolution
Mon, Apr 18, 1:00 – 5:00 PM
Tue, Apr 19, 8:00 AM – 12:00 PM
2800/11 – Target RNA sequencing analysis of hypoxia induced expression of stem cell genes in primary cultures of prostate cancer cells
Hong Yin, Adam H. Greer, Glenn Mills. Louisiana State University Health Sciences Center, Shreveport, LA Poster Session
PO.MCB11.01. Hypoxia and Oxidative Stress
Tue, Apr 19, 8:00 AM – 12:00 PM
Tue, Apr 19, 1:00 – 5:00 PM
3631/1 – Whole transcriptome and exome targeted RNA sequencing for FFPE tumor samples from clinical trials
Erica B. Schleifman1, Anna Kiialainen2, Andreas Roller3, Sabine Bader3, Maipelo Motlhabi1, Priti Hegde1, Ian McCaffery1, Garret Hampton1, Michael Cannarile4, Craig Cummings1, Olivia Spleiss2, Eric Peters1. 1Genentech, South San Francisco, CA; 2Roche, Basel, Switzerland; 3Roche, Penzburg, Germany; 4Roche, Penzburg, Georgia Poster Session
PO.MCB09.06. Genomic Technologies and Analyses
Tue, Apr 19, 1:00 – 5:00 PM
Tue, Apr 19, 1:00 – 5:00 PM
3946/6 – Stratification of metastatic colorectal cancer patients using DNA and RNA sequencing and in-silico prediction of tumor antigens for consideration in immunotherapy
FangYin Lo1, Sharon Austin1, Kellie Howard1, Mollie McWhorter1, Heather Collins1, Amanda Leonti1, Lindsey Maassel1, Christopher Subia1, Tuuli Saloranta1, Nicole Christopherson1, Kathryn Shiji1, Shradha Patil1, Saman Tahir1, Sally Dow1, Evan Anderson1, Jon Oblad1, Kerry Deutsch1, Timothy Yeatman2, Steven Anderson3, Anup Madan1. 1Covance, Seattle, WA; 2Gibbs Cancer Center, Spartanburg, SC; 3Covance, Durham, NC Poster Session
PO.CL10.02. Circulating Biomarkers 3 / Immune Biomarkers
Tue, Apr 19, 1:00 – 5:00 PM
Wed, Apr 20, 7:30 – 11:00 AM
4499/13 – Integration of targeted RNA sequencing to targeted DNA sequencing for the characterization of clinically relevant variants in a population of thousands of patients treated on clinical trial
Woochang Lee, Heejoon Jo, Xiaoying Yin, David A. Eberhard, Nirali M. Patel, Michele C. Hayward, Ashley H. Salazar, Joel S. Parker, William Y. Kim, Henry S. Earp, III, Norman E. Sharpless, David N. Hayes. University of North Carolina at Chapel Hill, Chapel Hill, NC Poster Session
PO.MCB09.07. Germline/Somatic Genomics and Personalized Medicine
Wed, Apr 20, 7:30 – 11:00 AM
Wed, Apr 20, 7:30 – 11:00 AM
LB-332/27 – Aberrant splicing network delineated from next-gen RNA sequencing analyses identifies activated oncogenes and pathways in gastric cancer
Debleena Ray. Duke-NUS Medical School, Singapore, Singapore Late-Breaking Poster Session
LBPO.MCB03. Late-Breaking Research: Molecular and Cellular Biology 3
Wed, Apr 20, 7:30 – 11:00 AM
Wed, Apr 20, 7:30 – 11:00 AM
LB-329/24 – Enhancing the resolution and accelerating the pace of translational fusion characterization in oncology by RNA sequencing
Lisa C. Watson1, Stephen M. Gross1, Felix Schlesinger1, Anthony Mai1, Mariko Kellogg1, Steve Lee1, Claire Attwooll1, Monica Brenca2, David Swanson3, Andrew Wong3, Angelo P. Dei Tos4, Claudia Haferlach5, Torsten Haferlach5, Wolfgang Kern5, Roberta Maestro2, Manja Meggendorfer5, Niroshan Nadarajah5, Maurizio Polano2, Sabrina Rossi4, Marta Sbaraglia4, George S. Charames3, Gary P. Schroth1, Grace DeSantis1. 1Illumina, San Diego, CA; 2CRO Aviano National Cancer Institute, Aviano, Italy; 3Department of Pathology and Lab Medicine, Mount Sinai Hospital, Toronto, ON, Canada; 4Treviso General Hospital, Treviso, Italy; 5MLL Munich Leukemia Laboratory, Munich, Germany Late-Breaking Poster Session
LBPO.MCB03. Late-Breaking Research: Molecular and Cellular Biology 3
Wed, Apr 20, 7:30 – 11:00 AM
Sun, Apr 17, 1:00 – 5:00 PM
81/21 – RNA-seq, exome-seq, functional RNAi screening and bioinformatics analyses identify molecules promoting aberrant activation of classical and alternative NF-kB pathways in head and neck cell lines
Hui Cheng1, Xinping Yang1, Anthony Saleh1, Shaleeka Cornelius1, Carter Van Waes1, Zhong Chen1, Emine Guven-Maiorov2, Ozlem Keskin3, Attila Gursoy4, Ruth Nussinov2. 1NIH/NIDCD, Bethesda, MD; 2Cancer and Inflammation Program, Leidos Biomedical Research, Inc. Frederick National Laboratory for Cancer Research, National Cancer Institute, Frederick, MD; 3Department of Chemical and Biological Engineering; Center for Computational Biology and Bioinformatics, Koc University, Istanbul, Turkey; 4Center for Computational Biology and Bioinformatics; Department of Computer Engineering, Koc University, Istanbul, Turkey Poster Session
PO.MCB09.05. Functional Genomics and Genomics of Model Systems
Sun, Apr 17, 1:00 – 5:00 PM
 
Sun, Apr 17, 1:00 – 5:00 PM
105/19 – Bioinformatic analysis of RNA-Seq data to search for novel diagnostic/prognostic biomarkers of pancreatic ductal adenocarcinoma
Omar J. Sosa, Vinícius F. Paixão, João C. Setubal, Eduardo M. Reis. University of Sao Paulo, Sao Paulo, Brazil Poster Session
PO.MCB09.02. Genomic Analysis of Cancers
Sun, Apr 17, 1:00 – 5:00 PM
 
Sun, Apr 17, 1:00 – 5:00 PM
412/18 – RNA-Seq provides cost-effective alternative for typing self-identifying antigens in immunotherapy patients
Kimberly Robasky, Jason Powers, Donald Trapolsi, Jeff Jasper, Chad Brown. Q2 Solutions|EA, Chapel Hill, NC Poster Session
PO.CL10.11. Biomarkers
Sun, Apr 17, 1:00 – 5:00 PM
 
Mon, Apr 18, 8:00 AM – 12:00 PM
1511/13 – Mutational signatures from RNA-seq data distinguish HPV(+) and HPV(-) HNSCC
Pelle Hall, Shama Virani, Charles Warden, Yanxiao Zhang, Lada Koneva, Katie M. Rentschler, Alisha Virani, Laura S. Rozek, Maureen A. Sartor, The UM Head and Neck SPORE Investigators. University of Michigan, Ann Arbor, MI Poster Session
PO.BSB01.01. Applications of Bioinformatic Tools to Analyze Cancer Data
Mon, Apr 18, 8:00 AM – 12:00 PM
 
Mon, Apr 18, 8:00 AM – 12:00 PM
1518/20 – Lung adenocarcinoma differential expression analysis using the Maverix RNA-Seq pipeline
Michael S. Fitzsimons, Mei-Chong Wendy Lee, Byung-In Lee, Lenin Subramanian. Maverix Biomics, San Mateo, CA Poster Session
PO.BSB01.01. Applications of Bioinformatic Tools to Analyze Cancer Data
Mon, Apr 18, 8:00 AM – 12:00 PM
 
Mon, Apr 18, 8:00 AM – 12:00 PM
1517/19 – Impact of poly-A and ribo-depletion RNA-seq library construction protocols on transcriptomic analysis of samples from patients with haematological malignancies
Ashwini Kumar, Matti Kankainen, Alun Parsons, Olli Kallioniemi, Pirkko Mattila, Caroline Heckman. Institute for Molecular Medicine Finland, Helsinki, Finland Poster Session
PO.BSB01.01. Applications of Bioinformatic Tools to Analyze Cancer Data
Mon, Apr 18, 8:00 AM – 12:00 PM
 
Mon, Apr 18, 1:00 – 5:00 PM
2386/16 – Microfluidic single cell exome-seq and RNA-seq analysis of tumor composition
Ioannis Ragoussis1, Paul Savage2, Yu-Chang Wang1, Timothee Revil1, Dunarel Badescu1, Sadiq Saleh2, Ernesto Iacucci1, Nicolas Bertos2, Anie Monast2, Attila Omeroglou3, Dongmei Zuo2, Morag Park2. 1McGill University, Montreal, QC, Canada; 2The Rosalind and Morris Goodman Cancer Research Centre, McGill University, Montreal, QC, Canada; 3Department of Pathology, McGill University, Montreal, QC, Canada Poster Session
PO.TB11.01. Clonal Heterogeneity and Evolution
Mon, Apr 18, 1:00 – 5:00 PM
 
Mon, Apr 18, 1:00 – 5:00 PM
1938/26 – The identification of p53 target genes and noncoding RNAs through the combined analysis of RNA-seq and ChIP-seq data
Masashi Idogawa, Tomoko Ohashi, Yasushi Sasaki, Takashi Tokino. Sapporo Medical Univ., Sapporo, Japan Poster Session
PO.MCB10.05. Non-coding RNAs and Mechanisms in Cancer
Mon, Apr 18, 1:00 – 5:00 PM
 
Mon, Apr 18, 1:00 – 5:00 PM
1837/5 – Comprehensive RNA-seq transcriptome interrogation of paired hepatocellular carcinoma and cirrhosis tissues revealed significant molecular features of disease evolution and modulation of tumor immunity
Bonnie P. Liu1, Kwame Okrah1, Jeff Cheng2, Maipelo Motlhabi1, Charlie Sun2, Teiko Sumiyoshi1, Shoji Ikeda1, Hartmut Koeppen1, Zineb Mounir1, Craig Cummings1, Nadia Haque1, Garret Hampton1, Lukas Amler1, Mark Lackner1, Shih-Min A. Huang1. 1Genentech, South San Francisco, CA; 2Genentech, China Poster Session
PO.MCB04.03. Assessment of Gene Regulation in the Malignant Context
Mon, Apr 18, 1:00 – 5:00 PM
 
Mon, Apr 18, 1:00 – 5:00 PM
1845/13 – Development of a quantitative targeted RNA-Seq methodology for use in differential gene expression analysis
Eric Lader, Melanie Hussong, Matthew Fosbrink. QIAGEN, Frederick, MD Poster Session
PO.MCB04.03. Assessment of Gene Regulation in the Malignant Context
Mon, Apr 18, 1:00 – 5:00 PM
 
Tue, Apr 19, 8:00 AM – 12:00 PM
2701/5 – Combining whole-exome and RNA-Seq data improves the quality of PDX mutation profiles
Manuel Landesfeind, Bruno Zeitouni, Anne-Lise Peille, Vincent Vuaroqueaux. Oncotest GmbH, Freiburg, Germany Poster Session
PO.BSB01.03. Bioinformatic Tools for Analysis and Mathematical Modeling of Clinical Samples
Tue, Apr 19, 8:00 AM – 12:00 PM
 
Tue, Apr 19, 9:15 – 9:45 AM
Dissecting the complex ecosystem of malignant tumors with single cell RNA-Seq
Aviv Regev. Massachusetts Institute of Technology, Cambridge, MA Plenary Session
PL03. Tumor Heterogeneity, Clonal Evolution, and Therapeutic Response
Tue, Apr 19, 8:15 – 10:15 AM
 
Tue, Apr 19, 1:00 – 5:00 PM
3489/10 – Elucidation of taxane resistance in prostate cancer through RNA-Seq analysis of circulating tumor cells
Jiaren Zhang, Ada Gjyrezi, Prashant Thakkar, Giuseppe Galletti, Akanksha Verma, Olivier Elemento, Paraskevi Giannakakou. Weill Cornell Medicine, New York, NY Poster Session
PO.EN02.01. Clinical Endocrinology
Tue, Apr 19, 1:00 – 5:00 PM
 
Wed, Apr 20, 7:30 – 11:00 AM
4498/12 – RNA-Seq in the NYGC GBM Clinical Outcomes Pilot Study
Bo-Juen R. Chen, Nicolas Robine, Kazimierz Wrzeszczynski, Vladimir Vacic, Anne Katrin Emde, Kanika Arora, Minita Shah, Ewa A. Grabowska, Vanessa Felice, Esra Dikoglu, Catherine Reeves, Mayu Frank, Vaidehi Jobanputra, Michael C. Zody, Toby Bloom, Robert Darnell. New York Genome Center, New York, NY Poster Session
PO.MCB09.07. Germline/Somatic Genomics and Personalized Medicine
Wed, Apr 20, 7:30 – 11:00 AM
 

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