Fast bootstrapping-based estimation of confidence intervals of expression levels and differential expression from RNA-Seq data
Mandric, Igor, Temate-Tiagueu, Yvette, Shcheglova, Tatiana, Al Seesi, Sahar, Zelikovsky, Alex, Mandoiu, Ion I
Published in Bioinformatics (Oxford, England) (15.10.2017)
Published in Bioinformatics (Oxford, England) (15.10.2017)
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Genomic and bioinformatic profiling of mutational neoepitopes reveals new rules to predict anticancer immunogenicity
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
Published in The Journal of experimental medicine (20.10.2014)
Published in The Journal of experimental medicine (20.10.2014)
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Journal Article
Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates
Al Seesi, Sahar, Tiagueu, Yvette Temate, Zelikovsky, Alexander, Măndoiu, Ion I
Published in BMC genomics (13.11.2014)
Published in BMC genomics (13.11.2014)
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Journal Article
Special Issue: 11th International Computational Advances in Bio and Medical Sciences (ICCABS 2021)
Bansal, Mukul S, Măndoiu, Ion I, Moussa, Marmar, Patterson, Murray, Rajasekaran, Sanguthevar, Skums, Pavel, Zelikovsky, Alexander
Published in Journal of computational biology (01.04.2023)
Published in Journal of computational biology (01.04.2023)
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Journal Article
Estimation of alternative splicing isoform frequencies from RNA-Seq data
Nicolae, Marius, Mangul, Serghei, Măndoiu, Ion I, Zelikovsky, Alex
Published in Algorithms for molecular biology (19.04.2011)
Published in Algorithms for molecular biology (19.04.2011)
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Journal Article
Feature selection and classifier performance on diverse bio- logical datasets
Hemphill, Edward, Lindsay, James, Lee, Chih, Măndoiu, Ion I, Nelson, Craig E
Published in BMC bioinformatics (13.11.2014)
Published in BMC bioinformatics (13.11.2014)
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Journal Article
Direct reprogramming of oligodendrocyte precursor cells into GABAergic inhibitory neurons by a single homeodomain transcription factor Dlx2
Boshans, Linda L., Soh, Heun, Wood, William M., Nolan, Timothy M., Mandoiu, Ion I., Yanagawa, Yuchio, Tzingounis, Anastasios V., Nishiyama, Akiko
Published in Scientific reports (11.02.2021)
Published in Scientific reports (11.02.2021)
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Pipeline for Analyzing Activity of Metabolic Pathways in Planktonic Communities Using Metatranscriptomic Data
Rondel, Filipp Martin, Hosseini, Roya, Sahoo, Bikram, Knyazev, Sergey, Mandric, Igor, Stewart, Frank, Măndoiu, Ion I, Pasaniuc, Bogdan, Porozov, Yuri, Zelikovsky, Alexander
Published in Journal of computational biology (01.08.2021)
Published in Journal of computational biology (01.08.2021)
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Reversion analysis reveals the in vivo immunogenicity of a poorly MHC I-binding cancer neoepitope
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.
Published in Nature communications (05.11.2021)
Published in Nature communications (05.11.2021)
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Eleven grand challenges in single-cell data science
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
Published in Genome Biology (07.02.2020)
Published in Genome Biology (07.02.2020)
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Neuraminidase subtyping of avian influenza viruses with PrimerHunter-designed primers and quadruplicate primer pools
Huang, Yanyan, Khan, Mazhar I, Khan, Mazhar, Măndoiu, Ion, Măndoiu, Ion I
Published in PloS one (29.11.2013)
Published in PloS one (29.11.2013)
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Mass spectrometry driven exploration reveals nuances of neoepitope-driven tumor rejection
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
Published in JCI insight (25.07.2019)
Published in JCI insight (25.07.2019)
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PrimerHunter: a primer design tool for PCR-based virus subtype identification
Duitama, Jorge, Kumar, Dipu Mohan, Hemphill, Edward, Khan, Mazhar, Măndoiu, Ion I, Nelson, Craig E
Published in Nucleic acids research (01.05.2009)
Published in Nucleic acids research (01.05.2009)
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Journal Article
Complete mitochondrial genome of the water vole, Microtus richardsoni (Cricetidae, Rodentia)
Alqahtani, Fahad, Duckett, Drew, Pirro, Stacy, Mandoiu, Ion I.
Published in Mitochondrial DNA. Part B. Resources (02.07.2020)
Published in Mitochondrial DNA. Part B. Resources (02.07.2020)
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