Overview
Staff
Equipment
Publications
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MASSIVE PARALLEL SEQUENCING
The Sequencing Facility of the National and Kapodistrian University of Athens (NKUA) is designed to constitute a leading center for high-throughput genomic sequencing and analysis. Established in 2024, the facility provides state-of-the-art sequencing capabilities to support scientific research and education. It serves a diverse range of users, including academic researchers, industry professionals, and governmental agencies.
The Sequencing Facility of NKUA provides interdisciplinary research, allowing the implementation of collaborations within NKUA and with external partners. It supports a wide array of projects, from fundamental research in genomics, metagenomics, molecular medicine, clinical diagnostics as well as population studies. Collaborative efforts often lead to groundbreaking discoveries and innovations supported by the facility's advanced sequencing capabilities
Staff
Head of Unit
Professor Andreas Scorilas
Massive Parallel Sequencing Unit
Deputy Head of Unit
Assistant Professor Margaritis Avgeris
Massive Parallel Sequencing Unit
Principal Investigator
Dr. Marios Diamantopoulos
Massive Parallel Sequencing Unit
Massive Parallel Sequencing
SERVICES
The facility offers a comprehensive range of sequencing services, including:
- Whole Genome Sequencing (WGS): High-throughput sequencing of entire genomes for comprehensive genomics and epigenomics analysis.
- RNA Sequencing (RNA-Seq): Detailed transcriptomic profiling to study gene expression and regulation.
- Targeted Sequencing: Focused sequencing of specific genes or regions of interest for detailed analysis.
- Library Preparation: Advanced techniques for preparing DNA and RNA libraries to ensure optimal sequencing results.
- Data Analysis: Cutting-edge bioinformatics tools and expertise for quantitative and qualitative analysis of sequencing data.
- Training and Education: Hands-on training sessions, workshops, and seminars for students, researchers, and professionals to enhance their skills in genomic sequencing.
TECHNOLOGY AND EQUIPMENT
Equipped with cutting-edge technology, the facility consists of high-capacity sequencing platforms and auxiliary equipment, including:
- DNBSEQ-G400 System: A high-throughput sequencing platform capable of producing large amount of multiple genome-wide datasets per run quickly and efficiently.
- MinION Mk1C Platform: A portable, real-time sequencing device that offers flexibility for various applications, including field-based research.
- Automated Library Preparation Systems: Ensure consistent and high-quality preparation of sequencing libraries (In progress).
- Advanced Bioinformatics Infrastructure: Supports comprehensive data analysis, storage, and management (In progress).
Massive parallel sequencing unit Publications
- Adamopoulos PG, Bartzoka N, Tsiakanikas P, Scorilas A. Characterization of novel ACE2 mRNA transcripts: The potential role of alternative splicing in SARS-CoV-2 infection. Gene. 2025 Feb 5;936:149092.
- Athanasopoulou K, Adamopoulos PG, Scorilas A. New insights into the dynamics of m6A epitranscriptome: hybrid-seq identifies novel mRNAs of the m6A writers METTL3/14. Epigenomics. 2024;16(17):1159-1174.
- Diamantopoulos MA, Adamopoulos PG, Tsiakanikas P, Nisotakis T, Skourou PC, Scorilas A. Unraveling novel mRNA transcripts of the human DNA N-glycosylase 1 (NTHL1) gene with the implementation of an innovative targeted DNA-seq assay. Gene. 2024 Dec 20;930:1.
- Papadimitriou MA, Pilala KM, Panoutsopoulou K, Levis P, Kotronopoulos G, Kanaki Z, Loules G, Zamanakou M, Linardoutsos D, Sideris DC, Stravodimos K, Klinakis A, Scorilas A, Avgeris M. CDKN2A copy number alteration in bladder cancer: Integrative analysis i.
- Pilala KM, Kotronopoulos G, Levis P, Giagkos GC, Stravodimos K, Vassilacopoulou D, Scorilas A, Avgeris M. MIR145 Core Promoter Methylation in Pretreatment Cell-Free DNA: A Liquid Biopsy Tool for Muscle-Invasive Bladder Cancer Treatment Outcome. JCO Precis.
- Soureas K, Papadimitriou MA, Malandrakis P, Papanota AM, Adamopoulos PG, Ntanasis-Stathopoulos I, Liacos CI, Gavriatopoulou M, Sideris DC, Kastritis E, Dimopoulos MA, Scorilas A, Terpos E, Avgeris M. Small RNA-seq and clinical evaluation of tRNA-derived f
- Adamopoulos PG, Diamantopoulos MA, Boti MA, Zafeiriadou A, Galani A, Kostakis M, Markou A, Sideris DC, Avgeris M, Thomaidis NS, Scorilas A. Spike-Seq: An amplicon-based high-throughput sequencing approach for the sensitive detection and characterization o
- Papadimitriou MA, Levis P, Kotronopoulos G, Stravodimos K, Avgeris M, Scorilas A.
Preoperative Cell-Free DNA (cfDNA) in Muscle-Invasive Bladder Cancer Treatment Outcome. Clin Chem. 2023 Apr 3;69(4):399-410. - Adamopoulos PG, Athanasopoulou K, Boti MA, Dimitroulis G, Daneva GN, Tsiakanikas P, Scorilas A. Hybrid-seq deciphers the complex transcriptional profile of the human BRCA1 DNA repair associated gene. RNA Biol. 2023 Jan;20(1):281-295.
- Athanasopoulou K, Adamopoulos PG, Scorilas A. Unveiling the Human Gastrointestinal Tract Microbiome: The Past, Present, and Future of Metagenomics. Biomedicines. 2023 Mar 9;11(3):827.
- Papadimitriou MA, Soureas K, Papanota AM, Tsiakanikas P, Adamopoulos PG, Ntanasis-Stathopoulos I, Malandrakis P, Gavriatopoulou M, Sideris DC, Kastritis E, Avgeris M, Dimopoulos MA, Terpos E, Scorilas A. miRNA-seq identification and clinical validation of.
- Kontos CK, Hadjichambi D, Papatsirou M, Karousi P, Christodoulou S, Sideris DC, Scorilas A.
Discovery and Comprehensive Characterization of Novel Circular RNAs of the Apoptosis-Related BOK Gene in Human Ovarian and Prostate Cancer Cells, Using Nanopore Sequencing. Noncoding RNA. 2023 Sep 24;9(5):57. - Soureas K, Papadimitriou MA, Panoutsopoulou K, Pilala KM, Scorilas A, Avgeris M.
Cancer quiescence: non-coding RNAs in the spotlight. Trends Mol Med. 2023 Oct;29(10):843-858. - Kontos CK, Karousi P, Artemaki PI, Abdelgawad A, Dimitriadou A, Machairas NP, Sideris DC, Pappa V, Scorilas A, Batish M, Papageorgiou SG. Novel circular RNAs of the apoptosis-related BAX and BCL2L12 genes identified in a chronic lymphocytic leukemia cell
- Papasavva M, Amvrosiou S, Pilala KM, Soureas K, Christodoulou P, Ji Y, Stravodimos K, Xu D, Scorilas A, Avgeris M, Christodoulou MI. Deregulated Expression of IL-37 in Patients with Bladder Urothelial Cancer: The Diagnostic Potential of the IL-37e Isoform.
- Pilala KM, Papadimitriou MA, Panoutsopoulou K, Barbarigos P, Levis P, Kotronopoulos G, Stravodimos K, Scorilas A, Avgeris M. Epigenetic regulation of MIR145 core promoter controls miR-143/145 cluster in bladder cancer progression and treatment outcome. Mo.
- Galani A, Markou A, Dimitrakopoulos L, Kontou A, Kostakis M, Kapes V, Diamantopoulos MA, Adamopoulos PG, Avgeris M, Lianidou E, Scorilas A, Paraskevis D, Tsiodras S, Dimopoulos MA, Thomaidis N. Delta SARS-CoV-2 variant is entirely substituted by the omicr
- Trougakos IP, Terpos E, Alexopoulos H, Politou M, Paraskevis D, Scorilas A, Kastritis E, Andreakos E, Dimopoulos MA. COVID-19 mRNA vaccine-induced adverse effects: unwinding the unknowns. Trends Mol Med. 2022 Oct;28(10):800-802.
- Athanasopoulou K, Adamopoulos PG, Scorilas A. Structural characterization and expression analysis of novel MAPK1 transcript variants with the development of a multiplexed targeted nanopore sequencing approach. Int J Biochem Cell Biol. 2022 Sep;150:106272.
- Adamopoulos PG, Tsiakanikas P, Stolidi I, Scorilas A. A versatile 5' RACE-Seq methodology for the accurate identification of the 5' termini of mRNAs. BMC Genomics. 2022; 23(1):163.
- Adamopoulos PG, Tsiakanikas P, Boti MA, Scorilas A. Targeted Long-Read Sequencing Decodes the Transcriptional Atlas of the Founding RAS Gene Family Members. Int J Mol Sci. 2021; 22(24):13298.
- Papadimitriou MA, Papanota AM, Adamopoulos PG, Pilala KM, Liacos CI, Malandrakis P, Mavrianou-Koutsoukou N, Patseas D, Eleutherakis-Papaiakovou E, Gavriatopoulou M, Kastritis E, Avgeris M, Dimopoulos MA, Terpos E, Scorilas A. miRNA-seq and clinical evalua
- Diamantopoulos MA, Georgoulia KK, Scorilas A. Identification and expression analysis of ten novel small non-coding RNAs (sncRNAs) in cancer cells using a high-throughput sequencing approach. Gene. 2021; 809:146025.
- Galani A, Aalizadeh R, Kostakis M, Markou A, Alygizakis N, Lytras T, Adamopoulos PG, Peccia J, Thompson DC, Kontou A, Karagiannidis A, Lianidou ES, Avgeris M, Paraskevis D, Tsiodras S, Scorilas A, Vasiliou V, Dimopoulos MA, Thomaidis NS. SARS-CoV-2 wastew
- Adamopoulos PG, Athanasopoulou K, Tsiakanikas P, Scorilas A. A comprehensive nanopore sequencing methodology deciphers the complete transcriptional landscape of cyclin-dependent kinase 4 (CDK4) in human malignancies. FEBS J. 2022; 712-729.
- Avgeris M, Adamopoulos PG, Galani A, Xagorari M, Gourgiotis D, Trougakos IP, Voulgaris N, Dimopoulos MA, Thomaidis NS, Scorilas A. Novel Nested-Seq Approach for SARS-CoV-2 Real-Time Epidemiology and In-Depth Mutational Profiling in Wastewater. Int J Mol S.
- Papanota AM, Tsiakanikas P, Kontos CK, Malandrakis P, Liacos CI, Ntanasis-Stathopoulos I, Kanellias N, Gavriatopoulou M, Kastritis E, Avgeris M, Dimopoulos MA, Scorilas A, Terpos E. A Molecular Signature of Circulating MicroRNA Can Predict Osteolytic Bone.
- Adamopoulos PG, Tsiakanikas P, Adam EE, Scorilas A. Unraveling novel survivin mRNA transcripts in cancer cells using an in-house developed targeted high-throughput sequencing approach. Genomics. 2021; 113(1 Pt 2):573-581.
- Boti MA, Adamopoulos PG, Tsiakanikas P, Scorilas A. Nanopore Sequencing Unveils Diverse Transcript Variants of the Epithelial Cell-Specific Transcription Factor Elf-3 in Human Malignancies. Genes. 2021; 12(6):839.
- Karousi P, Artemaki PI, Sotiropoulou CD, Christodoulou S, Scorilas A, Kontos CK.
Identification of Two Novel Circular RNAs Deriving from BCL2L12 and Investigation of Their Potential Value as a Molecular Signature in Colorectal Cancer. Int J Mol Sci. 2020; 21(22):8867. - Tatsi EB, Kanaka-Gantenbein C, Scorilas A, Chrousos GP, Sertedaki A. Next generation sequencing targeted gene panel in Greek MODY patients increases diagnostic accuracy. Pediatr Diabetes. 2020;21(1):28-39.
- Adamopoulos PG, Kontos CK, Scorilas A, Sideris DC. Identification of novel alternative transcripts of the human Ribonuclease κ (RNASEK) gene using 3' RACE and high-throughput sequencing approaches. Genomics. 2019, doi: 10.1016/j.ygeno.2019.06.010.
- Adamopoulos PG, Kontos CK, Diamantopoulos MA, Scorilas A. Molecular cloning of novel transcripts of the adaptor-related protein complex 2 alpha 1 subunit (AP2A1) gene, using Next-Generation Sequencing. Gene. 2018; 15;678:55-64.
- Adamopoulos PG, Kontos CK, Scorilas A. Novel splice variants of the human kallikrein-related peptidases 11 (KLK11) and 12 (KLK12), unraveled by next-generation sequencing technology. Biol Chem. 2018; 399(9):1065-1071.
- Adamopoulos PG, Raptis GD, Kontos CK, Scorilas A. Discovery and expression analysis of novel transcripts of the human SR-related CTD-associated factor 1 (SCAF1) gene in human cancer cells using Next-Generation Sequencing. Gene. 2018; 670:155-165.
- Adamopoulos PG, Theodoropoulou MC, Scorilas A. Alternative Splicing Detection Tool-a novel PERL algorithm for sensitive detection of splicing events, based on next-generation sequencing data analysis. Ann Transl Med. 2018; 6(12):244.
- Adamopoulos PG, Kontos CK, Scorilas A. Discovery of novel transcripts of the human tissue kallikrein (KLK1) and kallikrein-related peptidase 2 (KLK2) in human cancer cells, exploiting Next-Generation Sequencing technology. Genomics. 2018; doi: 10.1016/j.y
- Adamopoulos PG, Kontos CK, Scorilas A. Molecular cloning of novel transcripts of human kallikrein-related peptidases 5, 6, 7, 8 and 9 (KLK5 - KLK9), using Next-generation sequencing. Sci Rep. 2017; 11;7(1):17299.
- Adamopoulos PG, Kontos CK, Scorilas A. Identification and molecular cloning of novel transcripts of the human kallikrein-related peptidase 10 (KLK10) gene using next-generation sequencing. Biochem Biophys Res Commun. 2017; 10;487(4):776-781.
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