| High-performance integrated virtual environment (HIVE): a robust infrastructure for next-generation sequence data analysis V Simonyan, K Chumakov, H Dingerdissen, W Faison, S Goldweber, ... Database 2016, baw022, 2016 | 71 | 2016 |
| Structure-based comparative analysis and prediction of N-linked glycosylation sites in evolutionarily distant eukaryotes PVN Lam, R Goldman, K Karagiannis, T Narsule, V Simonyan, V Soika, ... Genomics, Proteomics and Bioinformatics 11 (2), 96-104, 2013 | 57 | 2013 |
| Human germline and pan-cancer variomes and their distinct functional profiles Y Pan, K Karagiannis, H Zhang, H Dingerdissen, A Shamsaddini, Q Wan, ... Nucleic acids research 42 (18), 11570-11588, 2014 | 27 | 2014 |
| CCR2 promotes monocyte recruitment and intestinal inflammation in mice lacking the interleukin-10 receptor S El Sayed, I Patik, NS Redhu, JN Glickman, K Karagiannis, ... Scientific reports 12 (1), 452, 2022 | 19 | 2022 |
| Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data C Cole, K Krampis, K Karagiannis, JS Almeida, WJ Faison, M Motwani, ... BMC bioinformatics 15, 1-18, 2014 | 18 | 2014 |
| Identification and quantification of defective virus genomes in high throughput sequencing data using DVG-profiler, a novel post-sequence alignment processing algorithm TJ Bosma, K Karagiannis, L Santana-Quintero, N Ilyushina, ... PLoS One 14 (5), e0216944, 2019 | 16 | 2019 |
| SNVDis: a proteome-wide analysis service for evaluating nsSNVs in protein functional sites and pathways K Karagiannis, V Simonyan, R Mazumder Genomics, Proteomics and Bioinformatics 11 (2), 122-126, 2013 | 16 | 2013 |
| Deep sequencing approach for genetic stability evaluation of influenza A viruses B Bidzhieva, T Zagorodnyaya, K Karagiannis, V Simonyan, M Laassri, ... Journal of virological methods 199, 68-75, 2014 | 15 | 2014 |
| Proteome‐wide analysis of nonsynonymous single‐nucleotide variations in active sites of human proteins H Dingerdissen, M Motwani, K Karagiannis, V Simonyan, R Mazumder The FEBS journal 280 (6), 1542-1562, 2013 | 14 | 2013 |
| Achieving robust somatic mutation detection with deep learning models derived from reference data sets of a cancer sample SME Sahraeian, LT Fang, K Karagiannis, M Moos, S Smith, ... Genome Biology 23 (1), 12, 2022 | 13 | 2022 |
| HIVE-heptagon: a sensible variant-calling algorithm with post-alignment quality controls V Simonyan, K Chumakov, E Donaldson, K Karagiannis, PVN Lam, ... Genomics 109 (3-4), 131-140, 2017 | 13 | 2017 |
| Evolution of echovirus 11 in a chronically infected immunodeficient patient M Laassri, T Zagorodnyaya, S Hassin-Baer, R Handsher, D Sofer, M Weil, ... PLoS Pathogens 14 (3), e1006943, 2018 | 11 | 2018 |
| Separation and assembly of deep sequencing data into discrete sub-population genomes K Karagiannis, V Simonyan, K Chumakov, R Mazumder Nucleic acids research 45 (19), 10989-11003, 2017 | 10 | 2017 |
| In search of autophagy biomarkers in breast cancer: Receptor status and drug agnostic transcriptional changes during autophagy flux in cell lines F Mascia, I Mazo, WL Alterovitz, K Karagiannis, WW Wu, RF Shen, ... Plos one 17 (1), e0262134, 2022 | 9 | 2022 |
| Evidence that a polyhexameric genome length is preferred, but not strictly required, for efficient mumps virus replication CJ Sauder, V Simonyan, L Ngo, K Karagiannis, Y Cong, C Zhang, ... Virology 493, 173-188, 2016 | 8 | 2016 |
| Dual-scRNA-seq analysis reveals rare and uncommon parasitized cell populations in chronic L. donovani infection K Karagiannis, S Gannavaram, C Verma, T Pacheco-Fernandez, ... Cell Reports 42 (9), 2023 | 4 | 2023 |
| Methodology for Good Machine Learning with Multi‐Omics Data T Coroller, B Sahiner, A Amatya, A Gossmann, K Karagiannis, C Moloney, ... Clinical Pharmacology & Therapeutics 115 (4), 745-757, 2024 | 2 | 2024 |
| Analysis and optimisation of building efficiencies through data analytics and machine learning R Grammenos, K Karagiannis, ME Ruiz | 2 | 2023 |
| Multi-omics investigation on the prognostic and predictive factors in metastatic breast cancer using data from Phase III ribociclib clinical trials: A statistical and machine … TP Coroller, B Sahiner, A Amatya, A Gossman, K Karagiannis, RK Samala, ... medRxiv, 2023.08. 30.23294367, 2023 | 2 | 2023 |
| Streamlined subpopulation, subtype, and Recombination analysis of HIV-1 half-genome sequences generated by high-throughput sequencing B Hora, N Gulzar, Y Chen, K Karagiannis, F Cai, C Su, K Smith, ... Msphere 5 (5), 10.1128/msphere. 00551-20, 2020 | 1 | 2020 |
