Genomic and bioinformatic profiling of mutational neoepitopes reveals new rules to predict anticancer immunogenicity von Duan, Fei, Duitama, Jorge, Al Seesi, Sahar, Ayres, Cory M, Corcelli, Steven A, Pawashe, Arpita P, Blanchard, Tatiana, McMahon, David, Sidney, John, Sette, Alessandro, Baker, Brian M, Mandoiu, Ion I, Srivastava, Pramod K

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Fast bootstrapping-based estimation of confidence intervals of expression levels and differential expression from RNA-Seq data von Mandric, Igor, Temate-Tiagueu, Yvette, Shcheglova, Tatiana, Al Seesi, Sahar, Zelikovsky, Alex, Mandoiu, Ion I

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Semi-supervised learning for somatic variant calling and peptide identification in personalized cancer immunotherapy von Sherafat, Elham, Force, Jordan, Măndoiu, Ion I

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Locality Sensitive Imputation for Single Cell RNA-Seq Data von Moussa, Marmar, Măndoiu, Ion I

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Eleven grand challenges in single-cell data science von Lähnemann, David, Köster, Johannes, Szczurek, Ewa, McCarthy, Davis J, Hicks, Stephanie C, Robinson, Mark D, Vallejos, Catalina A, Campbell, Kieran R, Beerenwinkel, Niko, Mahfouz, Ahmed, Pinello, Luca, Skums, Pavel, Stamatakis, Alexandros, Attolini, Camille Stephan-Otto, Aparicio, Samuel, Baaijens, Jasmijn, Balvert, Marleen, Barbanson, Buys de, Cappuccio, Antonio, Corleone, Giacomo, Dutilh, Bas E, Florescu, Maria, Guryev, Victor, Holmer, Rens, Jahn, Katharina, Lobo, Thamar Jessurun, Keizer, Emma M, Khatri, Indu, Kielbasa, Szymon M, Korbel, Jan O, Kozlov, Alexey M, Kuo, Tzu-Hao, Lelieveldt, Boudewijn P F, Mandoiu, Ion I, Marioni, John C, Marschall, Tobias, Mölder, Felix, Niknejad, Amir, Rączkowska, Alicja, Reinders, Marcel, Ridder, Jeroen de, Saliba, Antoine-Emmanuel, Somarakis, Antonios, Stegle, Oliver, Theis, Fabian J, Yang, Huan, Zelikovsky, Alex, McHardy, Alice C, Raphael, Benjamin J, Shah, Sohrab P, Schönhuth, Alexander

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Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates von Al Seesi, Sahar, Tiagueu, Yvette Temate, Zelikovsky, Alexander, Măndoiu, Ion I

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SC1: A Tool for Interactive Web-Based Single-Cell RNA-Seq Data Analysis von Moussa, Marmar, Măndoiu, Ion I

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Direct reprogramming of oligodendrocyte precursor cells into GABAergic inhibitory neurons by a single homeodomain transcription factor Dlx2 von Boshans, Linda L., Soh, Heun, Wood, William M., Nolan, Timothy M., Mandoiu, Ion I., Yanagawa, Yuchio, Tzingounis, Anastasios V., Nishiyama, Akiko

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Statistical Mitogenome Assembly with RepeaTs von Alqahtani, Fahad, Măndoiu, Ion I

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Reversion analysis reveals the in vivo immunogenicity of a poorly MHC I-binding cancer neoepitope von Ebrahimi-Nik, Hakimeh, Moussa, Marmar, Englander, Ryan P., Singhaviranon, Summit, Michaux, Justine, Pak, HuiSong, Miyadera, Hiroko, Corwin, William L., Keller, Grant L. J., Hagymasi, Adam T., Shcheglova, Tatiana V., Coukos, George, Baker, Brian M., Mandoiu, Ion I., Bassani-Sternberg, Michal, Srivastava, Pramod K.

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Feature selection and classifier performance on diverse bio- logical datasets von Hemphill, Edward, Lindsay, James, Lee, Chih, Măndoiu, Ion I, Nelson, Craig E

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Estimation of alternative splicing isoform frequencies from RNA-Seq data von Nicolae, Marius, Mangul, Serghei, Măndoiu, Ion I, Zelikovsky, Alex

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Special Issue: 11th International Computational Advances in Bio and Medical Sciences (ICCABS 2021) von Bansal, Mukul S, Măndoiu, Ion I, Moussa, Marmar, Patterson, Murray, Rajasekaran, Sanguthevar, Skums, Pavel, Zelikovsky, Alexander

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Mass spectrometry driven exploration reveals nuances of neoepitope-driven tumor rejection von Ebrahimi-Nik, Hakimeh, Michaux, Justine, Corwin, William L, Keller, Grant Lj, Shcheglova, Tatiana, Pak, HuiSong, Coukos, George, Baker, Brian M, Mandoiu, Ion I, Bassani-Sternberg, Michal, Srivastava, Pramod K

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Neuraminidase subtyping of avian influenza viruses with PrimerHunter-designed primers and quadruplicate primer pools von Huang, Yanyan, Khan, Mazhar I, Khan, Mazhar, Măndoiu, Ion, Măndoiu, Ion I

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Pipeline for Analyzing Activity of Metabolic Pathways in Planktonic Communities Using Metatranscriptomic Data von Rondel, Filipp Martin, Hosseini, Roya, Sahoo, Bikram, Knyazev, Sergey, Mandric, Igor, Stewart, Frank, Măndoiu, Ion I, Pasaniuc, Bogdan, Porozov, Yuri, Zelikovsky, Alexander

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Towards accurate detection and genotyping of expressed variants from whole transcriptome sequencing data von Duitama, Jorge, Srivastava, Pramod K, Măndoiu, Ion I

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Identification of mammalian orthologs using local synteny von Jun, Jin, Mandoiu, Ion I, Nelson, Craig E

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In Silico Enzymatic Synthesis of a 400 000 Compound Biochemical Database for Nontargeted Metabolomics von Menikarachchi, Lochana C, Hill, Dennis W, Hamdalla, Mai A, Mandoiu, Ion I, Grant, David F

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Complete mitochondrial genome of the water vole, Microtus richardsoni (Cricetidae, Rodentia) von Alqahtani, Fahad, Duckett, Drew, Pirro, Stacy, Mandoiu, Ion I.

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