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I. Măndoiu · SciRah

Researcher profile · Semantic Scholar

I. Măndoiu

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I. Măndoiu — researcher profile on SciRah

h-index: 30
Works: 240
Citations: 5,403

Most-cited papers

Eleven grand challenges in single-cell data science
David Lähnemann, J. Köster, Ewa Szczurek, Davis J. McCarthy +47 more
2020Genome Biology1,272 citations Open access
Semantic Scholar
Key Parameters of Tumor Epitope Immunogenicity Revealed Through a Consortium Approach Improve Neoantigen Prediction
Daniel K. Wells, M. Buuren, Kristen K. Dang, Vanessa M. Hubbard-Lucey +141 more
2020Cell495 citations Open access
Semantic Scholar
Genomic and bioinformatic profiling of mutational neoepitopes reveals new rules to predict anticancer immunogenicity
Fei Duan, J. Duitama, Sahar Al Seesi, Cory M. Ayres +9 more
2014Journal of Experimental Medicine362 citations Open access
Semantic Scholar
Mass spectrometry–driven exploration reveals nuances of neoepitope-driven tumor rejection
H. Ebrahimi-Nik, Justine Michaux, William L. Corwin, G. Keller +7 more
2019JCI Insight65 citations Open access
Semantic Scholar
Methylome Dynamics of Bovine Gametes and in vivo Early Embryos
J. Duan, Z. Jiang, Fahad Alqahtani, I. Măndoiu +5 more
2019Frontiers in Genetics64 citations Open access
Semantic Scholar
Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates
Sahar Al Seesi, Y. T. Tiagueu, A. Zelikovsky, I. Măndoiu
2014BMC Genomics61 citations Open access
Semantic Scholar
Fast bootstrapping‐based estimation of confidence intervals of expression levels and differential expression from RNA‐Seq data
Igor Mandric, Yvette Temate-Tiagueu, T. Shcheglova, Sahar Al Seesi +2 more
2017Bioinform.50 citations Open access
Semantic Scholar
Feature selection and classifier performance on diverse bio- logical datasets
Edward Hemphill, James Lindsay, Chih Lee, I. Măndoiu +1 more
2014BMC Bioinformatics43 citations Open access
Semantic Scholar
Sympathetic nervous tone limits the development of myeloid-derived suppressor cells
James T. Nevin, Marmar Moussa, William L. Corwin, I. Măndoiu +1 more
2020Science immunology42 citations
Semantic Scholar
In silico enzymatic synthesis of a 400,000 compound biochemical database for non-targeted metabolomics
Lochana C. Menikarachchi, D. Hill, M. Hamdalla, I. Măndoiu +1 more
2013Journal of Chemical Information and Modeling40 citations Open access
Semantic Scholar
Single cell RNA-seq data clustering using TF-IDF based methods
Marmar Moussa, I. Măndoiu
2018BMC Genomics38 citations Open access
Semantic Scholar
Reversion analysis reveals the in vivo immunogenicity of a poorly MHC I-binding cancer neoepitope
H. Ebrahimi-Nik, Marmar Moussa, Ryan P. Englander, Summit Singhaviranon +12 more
2021Nature Communications31 citations Open access
Semantic Scholar
BioSM: A metabolomics tool for identifying endogenous mammalian biochemical structures in chemical structure space
M. Hamdalla, I. Măndoiu, D. Hill, S. Rajasekaran +1 more
2013Journal of Chemical Information and Modeling29 citations Open access
Semantic Scholar
CircMarker: a fast and accurate algorithm for circular RNA detection
Xin Li, Chong Chu, Jingwen Pei, I. Măndoiu +1 more
2017BMC Genomics27 citations Open access
Semantic Scholar
An unbiased approach to defining bona fide cancer neoepitopes that elicit immune-mediated cancer rejection
Cory A Brennick, Mariam M. George, Marmar Moussa, Adam T. Hagymasi +9 more
2020Journal of Clinical Investigation26 citations Open access
Semantic Scholar
CD91 on dendritic cells governs immunosurveillance of nascent, emerging tumors.
Abigail L. Sedlacek, Theodore P. Younker, Y. Zhou, L. Borghesi +3 more
2019JCI Insight26 citations Open access
Semantic Scholar
Tumor Control Index as a new tool to assess tumor growth in experimental animals.
William L. Corwin, H. Ebrahimi-Nik, Stephanie M. Floyd, Pouya Tavousi +2 more
2017JIM - Journal of Immunological Methods26 citations Open access
Semantic Scholar
Minor splicing snRNAs are enriched in the developing mouse CNS and are crucial for survival of differentiating retinal neurons
Marybeth Baumgartner, Christopher Lemoine, Sahar Al Seesi, Devi Krishna Priya Karunakaran +5 more
2015Developmental Neurobiology25 citations
Semantic Scholar
Neuraminidase Subtyping of Avian Influenza Viruses with PrimerHunter-Designed Primers and Quadruplicate Primer Pools
Yan-Yan Huang, Mazhar I. Khan, I. Măndoiu
2013PLoS ONE25 citations Open access
Semantic Scholar
Replication-dependent histone genes are actively transcribed in differentiating and aging retinal neurons
A. R. Banday, Marybeth Baumgartner, Sahar Al Seesi, Devi Krishna Priya Karunakaran +7 more
2014Cell Cycle24 citations Open access
Semantic Scholar
CD11c+ MHCIIlo GM-CSF-bone marrow-derived dendritic cells act as antigen donor cells and as antigen presenting cells in neoepitope-elicited tumor immunity against a mouse fibrosarcoma
H. Ebrahimi-Nik, William L. Corwin, T. Shcheglova, Alok Das Mohapatra +2 more
2018Cancer Immunology and Immunotherapy20 citations Open access
Semantic Scholar
SC1: A Tool for Interactive Web-Based Single-Cell RNA-Seq Data Analysis
Marmar Moussa, I. Măndoiu
2020bioRxiv19 citations Open access
Semantic Scholar
Metabolic Pathway Predictions for Metabolomics: A Molecular Structure Matching Approach
M. Hamdalla, S. Rajasekaran, D. F. Grant, I. Măndoiu
2015Journal of Chemical Information and Modeling18 citations Open access
Semantic Scholar
Direct reprogramming of oligodendrocyte precursor cells into GABAergic inhibitory neurons by a single homeodomain transcription factor Dlx2
Linda L. Boshans, Heun Soh, W. Wood, T. M. Nolan +4 more
2021Scientific Reports17 citations Open access
Semantic Scholar
The Chromatin Environment Around Interneuron Genes in Oligodendrocyte Precursor Cells and Their Potential for Interneuron Reprograming
Linda L. Boshans, D. Factor, Vijender Singh, Jia Liu +6 more
2019Frontiers in Neuroscience15 citations Open access
Semantic Scholar
Locality Sensitive Imputation for Single Cell RNA-Seq Data
Marmar Moussa, I. Măndoiu
2018bioRxiv15 citations Open access
Semantic Scholar
Inferring metabolic pathway activity levels from RNA-Seq data
Yvette Temate-Tiagueu, Sahar Al Seesi, Meril Mathew, Igor Mandric +7 more
2016BMC Genomics15 citations Open access
Semantic Scholar
Effects of maternal nutrition on the expression of genomic imprinted genes in ovine fetuses
J. Duan, Ming-Yuan Zhang, Kaleigh Flock, Sahar Al Seesi +12 more
2018Epigenetics14 citations Open access
Semantic Scholar
Computational framework for next-generation sequencing of heterogeneous viral populations using combinatorial pooling
P. Skums, Alexander Artyomenko, O. Glebova, S. Ramachandran +5 more
2015Bioinform.14 citations Open access
Semantic Scholar
TNet: Phylogeny-Based Inference of Disease Transmission Networks Using Within-Host Strain Diversity
Saurav Dhar, Chengchen Zhang, I. Măndoiu, M. Bansal
2020International Symposium on Bioinformatics Research and Applications13 citations
Semantic Scholar
12 Grand Challenges in Single-Cell Data Science
David Lähnemann, J. Köster, Ewa Szczurek, Davis J. McCarthy +47 more
2019PeerJ Preprints13 citations Open access
Semantic Scholar
TreeFix-TP: Phylogenetic Error-Correction for Infectious Disease Transmission Network Inference
Samuel Sledzieski, Chengchen Zhang, I. Măndoiu, M. Bansal
2019bioRxiv13 citations Open access
Semantic Scholar
Computational cell cycle analysis of single cell RNA-Seq data
Marmar Moussa, I. Măndoiu
2018bioRxiv13 citations Open access
Semantic Scholar
Statistical Mitogenome Assembly with RepeaTs
Fahad Alqahtani, I. Măndoiu
2018International Conference on Computational Advances in Bio and Medical Sciences12 citations
Semantic Scholar
Influence of symbiont-produced bioactive natural products on holobiont fitness in the marine bryozoan, Bugula neritina via protein kinase C (PKC)
Meril Mathew, Kayla I. Bean, Yvette Temate-Tiagueu, A. Caciula +3 more
201612 citations
Semantic Scholar
TNet: Transmission Network Inference Using Within-Host Strain Diversity and its Application to Geographical Tracking of COVID-19 Spread
Saurav Dhar, Chengchen Zhang, I. Măndoiu, M. Bansal
2021IEEE/ACM Transactions on Computational Biology & Bioinformatics11 citations Open access
Semantic Scholar
Semi-supervised learning for somatic variant calling and peptide identification in personalized cancer immunotherapy
Elham Sherafat, J. Force, I. Măndoiu
2020BMC Bioinformatics10 citations Open access
Semantic Scholar
Computational Methods for Next Generation Sequencing Data Analysis
I. Măndoiu, A. Zelikovsky
20169 citations
Semantic Scholar
ILP-based maximum likelihood genome scaffolding
James Lindsay, Hamed Salooti, I. Măndoiu, A. Zelikovsky
2014BMC Bioinformatics9 citations Open access
Semantic Scholar
Dosage Compensation and Gene Expression of the X Chromosome in Sheep
J. Duan, Kaleigh Flock, Nathan Jue, Ming-Yuan Zhang +12 more
2018G3: Genes, Genomes, Genetics8 citations Open access
Semantic Scholar
SC1: A web-based single cell RNA-seq analysis pipeline
Marmar Moussa, I. Măndoiu
2018International Conference on Computational Advances in Bio and Medical Sciences8 citations
Semantic Scholar
Network-based bioinformatics analysis of spatio-temporal RNA-Seq data reveals transcriptional programs underpinning normal and aberrant retinal development
Devi Krishna Priya Karunakaran, Sahar Al Seesi, A. R. Banday, Marybeth Baumgartner +4 more
2016BMC Genomics8 citations Open access
Semantic Scholar
kGEM: An EM-based algorithm for local reconstruction of viral quasispecies
Alexander Artyomenko, N. Mancuso, A. Zelikovsky, P. Skums +1 more
2013International Conference on Computational Advances in Bio and Medical Sciences8 citations
Semantic Scholar
Transcriptomic Responses of Mycoplasma bovis Upon Treatments of trans-Cinnamaldehyde, Carvacrol, and Eugenol
S. Ranjitkar, J. Duan, Kanokwan Srirattana, Fahad Alqahtani +4 more
2022Frontiers in Microbiology7 citations Open access
Semantic Scholar
Identification of cancer-specific motifs in mimotope profiles of serum antibody repertoire
Ekaterina Gerasimov, A. Zelikovsky, I. Măndoiu, Y. Ionov
2015International Conference on Computational Advances in Bio and Medical Sciences6 citations Open access
Semantic Scholar
SMART2: Multi-library Statistical Mitogenome Assembly with Repeats
Fahad Alqahtani, I. Măndoiu
2019International Conference on Computational Advances in Bio and Medical Sciences5 citations
Semantic Scholar
Practical Approximations of Steiner Trees in Uniform Orientation Metrics
I. Măndoiu, A. Kahng, A. Zelikovsky
2018Handbook of Approximation Algorithms and Metaheuristics5 citations
Semantic Scholar
Complete mitochondrial genome of the water vole, Microtus richardsoni (Cricetidae, Rodentia)
Fahad Alqahtani, Drew J. Duckett, Stacy Pirro, I. Măndoiu
2020Mitochondrial DNA Part B: Resources4 citations Open access
Semantic Scholar
QoS Multimedia Multicast Routing
I. Măndoiu, A. Olshevsky, A. Zelikovsky
2018Handbook of Approximation Algorithms and Metaheuristics4 citations
Semantic Scholar
Draft Genome Sequence of Lactobacillus rhamnosus NRRL B-442, a Potential Probiotic Strain
M. S. Muyyarikkandy, Fahad H. Alqahtani, I. Măndoiu, M. Amalaradjou
2018Genome Announcements4 citations Open access
Semantic Scholar

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