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List of works by Aristotelis Tsirigos

3D Chromosomal Landscapes in Hematopoiesis and Immunity

scientific article published on 15 August 2019

A Deep Learning Framework for Predicting Response to Therapy in Cancer

scientific article published on 01 December 2019

A conserved activation element in BMP signaling during Drosophila development

scientific article published on 13 December 2009

A new computational method for the detection of horizontal gene transfer events

scientific article

A sensitive, support-vector-machine method for the detection of horizontal gene transfers in viral, archaeal and bacterial genomes.

scientific article

Accurate phylogenetic classification of variable-length DNA fragments

scientific article

Airway Microbiota Is Associated with Upregulation of the PI3K Pathway in Lung Cancer

scientific article published on 01 November 2018

Alu and b1 repeats have been selectively retained in the upstream and intronic regions of genes of specific functional classes

scientific article

An intrinsic role of IL-33 in Treg cell-mediated tumor immunoevasion

scientific article published on 16 December 2019

Apoptotic cell-induced AhR activity is required for immunological tolerance and suppression of systemic lupus erythematosus in mice and humans

scientific article published on 14 May 2018

Assessing drug development risk using Big Data and Machine Learning

scientific article published on 22 December 2020

Author Correction: The bone marrow microenvironment at single-cell resolution

scientific article published on 01 August 2019

Autophagy and senescence in cancer-associated fibroblasts metabolically supports tumor growth and metastasis via glycolysis and ketone production

scientific article

Axon TRAP reveals learning-associated alterations in cortical axonal mRNAs in the lateral amgydala

scientific article published on 11 December 2019

BET Bromodomain Inhibition Cooperates with PD-1 Blockade to Facilitate Antitumor Response in Kras-Mutant Non-Small Cell Lung Cancer

scientific article published on 07 August 2018

Bacteriophages as potential new mammalian pathogens.

scientific article published on August 2017

Cell surface Notch ligand DLL3 is a therapeutic target in isocitrate dehydrogenase mutant glioma

scientific article published on 05 November 2018

Classification and mutation prediction from non–small cell lung cancer histopathology images using deep learning

scholarly article by Nicolas Coudray et al published 17 September 2018 in Nature Medicine

Cohesin loss alters adult hematopoietic stem cell homeostasis, leading to myeloproliferative neoplasms

scientific article

Combinatorial modulation of signaling pathways reveals cell-type-specific requirements for highly efficient and synchronous iPSC reprogramming

scientific article

Combined Inhibition of SHP2 and CXCR1/2 Promotes Antitumor T-cell Response in NSCLC

publication published on 05 August 2021

Complete Genome Sequence of Kluyvera intestini sp. nov., Isolated from the Stomach of a Patient with Gastric Cancer

scientific article published on 26 October 2017

Contrasting roles of histone 3 lysine 27 demethylases in acute lymphoblastic leukaemia

scientific article

Control of embryonic stem cell identity by BRD4-dependent transcriptional elongation of super-enhancer-associated pluripotency genes

scientific article

DNA methylation-based classification of central nervous system tumours

scientific article published on 14 March 2018

Decreased cytotoxic T cells and TCR clonality in organ transplant recipients with squamous cell carcinoma

scientific article published on 03 June 2020

Draft Genome Sequence of Streptococcus halitosis sp. nov., Isolated from the Dorsal Surface of the Tongue of a Patient with Halitosis

scientific article published on 24 January 2019

ETV1 activates a rapid conduction transcriptional program in rodent and human cardiomyocytes.

scientific article published on 2 July 2018

Epigenetic Silencing of CDR1as Drives IGF2BP3-Mediated Melanoma Invasion and Metastasis

scientific article published on 01 January 2020

Epigenetic silencing of the ubiquitin ligase subunit FBXL7 impairs c-SRC degradation and promotes epithelial-to-mesenchymal transition and metastasis

scientific article published on 24 August 2020

Evolution of the epigenetic landscape in childhood B acute lymphoblastic leukemia and its role in drug resistance

scientific article published on 16 October 2020

FBXW7 modulates cellular stress response and metastatic potential through HSF1 post-translational modification

scientific article

Functional and topographic effects on DNA methylation in IDH1/2 mutant cancers

scientific article published on 14 November 2019

GCN2 drives macrophage and MDSC function and immunosuppression in the tumor microenvironment

scientific article published on 01 December 2019

Genetic inactivation of the polycomb repressive complex 2 in T cell acute lymphoblastic leukemia

scientific article published on 6 February 2012

Genome-wide mapping and characterization of Notch-regulated long noncoding RNAs in acute leukemia

scientific article

GenomicTools: a computational platform for developing high-throughput analytics in genomics.

scientific article published on 22 November 2011

Glycolytic cancer associated fibroblasts promote breast cancer tumor growth, without a measurable increase in angiogenesis: evidence for stromal-epithelial metabolic coupling

scientific article published on 15 June 2010

H3K27me3 dynamics dictate evolving uterine states in pregnancy and parturition.

scientific article

HiC-bench: comprehensive and reproducible Hi-C data analysis designed for parameter exploration and benchmarking

scientific article

Human blastocysts of normal and abnormal karyotypes display distinct transcriptome profiles

scientific article published in Scientific Reports

Hyperactivation of oxidative mitochondrial metabolism in epithelial cancer cells in situ: visualizing the therapeutic effects of metformin in tumor tissue

scientific article published on December 2011

In Vivo Epigenetic CRISPR Screen Identifies Asf1a as an Immunotherapeutic Target in Kras-Mutant Lung Adenocarcinoma

scientific article published on 19 November 2019

Is cancer a metabolic rebellion against host aging? In the quest for immortality, tumor cells try to save themselves by boosting mitochondrial metabolism

scientific article published on 15 January 2012

JNK1 stress signaling is hyper-activated in high breast density and the tumor stroma: connecting fibrosis, inflammation, and stemness for cancer prevention.

scientific article published on 05 December 2013

KLF4 is involved in the organization and regulation of pluripotency-associated three-dimensional enhancer networks

scientific article published on 23 September 2019

KLF4, A Gene Regulating Prostate Stem Cell Homeostasis, Is a Barrier to Malignant Progression and Predictor of Good Prognosis in Prostate Cancer

article

Ketones and lactate "fuel" tumor growth and metastasis: Evidence that epithelial cancer cells use oxidative mitochondrial metabolism

scientific article

Ketones and lactate increase cancer cell "stemness," driving recurrence, metastasis and poor clinical outcome in breast cancer: achieving personalized medicine via Metabolo-Genomics

scientific article

Lineage-coupled clonal capture identifies clonal evolution mechanisms and vulnerabilities of BRAFV600E inhibition resistance in melanoma

scientific article published in 2022

LncRNA RP11-19E11 is an E2F1 target required for proliferation and survival of basal breast cancer

scientific article published on 06 January 2020

Loss of stromal caveolin-1 leads to oxidative stress, mimics hypoxia and drives inflammation in the tumor microenvironment, conferring the "reverse Warburg effect": a transcriptional informatics analysis with validation

scientific article published in June 2010

Low-Grade Astrocytoma Mutations in IDH1, P53, and ATRX Cooperate to Block Differentiation of Human Neural Stem Cells via Repression of SOX2.

scientific article published in October 2017

Lower airway dysbiosis affects lung cancer progression

scientific article published on 11 November 2020

MED12 Regulates HSC-Specific Enhancers Independently of Mediator Kinase Activity to Control Hematopoiesis

scientific article published on 24 August 2016

Machine learning and data mining frameworks for predicting drug response in cancer: An overview and a novel in silico screening process based on association rule mining

scientific article published on 30 July 2019

Mitochondria "fuel" breast cancer metabolism: fifteen markers of mitochondrial biogenesis label epithelial cancer cells, but are excluded from adjacent stromal cells

scientific article published on 21 November 2012

Molecular and metabolic pathways mediating curative treatment of a non-Hodgkin B cell lymphoma by Sindbis viral vectors and anti-4-1BB monoclonal antibody

scientific article published on 15 July 2019

Molecular profiling of a lethal tumor microenvironment, as defined by stromal caveolin-1 status in breast cancers

scientific article

Muscle progenitor specification and myogenic differentiation are associated with changes in chromatin topology

scientific article published on 04 December 2020

N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

scientific article

NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains

scientific article published on 24 October 2019

Notch Signaling Facilitates In Vitro Generation of Cross-Presenting Classical Dendritic Cells

scientific article published on 01 June 2018

Nrf2 Activation Promotes Lung Cancer Metastasis by Inhibiting the Degradation of Bach1

scientific article published on 27 June 2019

OMiR: Identification of associations between OMIM diseases and microRNAs

scientific article published on 23 October 2010

On Epigenetic Plasticity and Genome Topology

scientific article published on 07 February 2020

Oncogenic hijacking of the stress response machinery in T cell acute lymphoblastic leukemia

scientific article published on 23 July 2018

Ontogeny and Vulnerabilities of Drug-Tolerant Persisters in HER2+ Breast Cancer

scientific article published in 2021

Opposing functions of H2BK120 ubiquitylation and H3K79 methylation in the regulation of pluripotency by the Paf1 complex

scientific article

Pancreatic β cell identity requires continual repression of non-β cell programs.

scientific article published on 12 December 2016

Platelet Transcriptome Profiling in HIV and ATP-Binding Cassette Subfamily C Member 4 (ABCC4) as a Mediator of Platelet Activity

article

Posttranslational regulation of the exon skipping machinery controls aberrant splicing in leukemia

scientific article published on 22 May 2020

Prognostic role of elevated mir-24-3p in breast cancer and its association with the metastatic process.

scientific article published on 5 February 2018

RNA Interactions Are Essential for CTCF-Mediated Genome Organization

scientific article published on 12 September 2019

Regulation of transcriptional elongation in pluripotency and cell differentiation by the PHD-finger protein Phf5a

scientific article published on 17 October 2016

Regulatory T-cell Transcriptomic Reprogramming Characterizes Adverse Events by Checkpoint Inhibitors in Solid Tumors

scientific article published on 05 April 2021

Restoration of TET2 Function Blocks Aberrant Self-Renewal and Leukemia Progression.

scientific article published on 16 August 2017

SF3B1 homeostasis is critical for survival and therapeutic response in T cell leukemia

scientific article published on 21 January 2022

SOX2 is a cancer-specific regulator of tumour initiating potential in cutaneous squamous cell carcinoma.

scientific article

Smc3 dosage regulates B cell transit through germinal centers and restricts their malignant transformation

scientific article published on 11 January 2021

Staphylococcus aureus Responds to the Central Metabolite Pyruvate To Regulate Virulence

scientific article

Stratification of TAD boundaries reveals preferential insulation of super-enhancers by strong boundaries

scientific article published on 7 February 2018

Surface antigen-guided CRISPR screens identify regulators of myeloid leukemia differentiation

scientific article published on 14 January 2021

TGF-β-Induced Quiescence Mediates Chemoresistance of Tumor-Propagating Cells in Squamous Cell Carcinoma.

scientific article published in November 2017

Targeting Mitochondrial Structure Sensitizes Acute Myeloid Leukemia to Venetoclax Treatment

scientific article published on 02 May 2019

The E3 ubiquitin ligase SPOP controls resolution of systemic inflammation by triggering MYD88 degradation

scientific article published on 12 August 2019

The NSD2 p.E1099K Mutation is Enriched at Relapse and Confers Drug Resistance in a Cell Context Dependent Manner in Pediatric Acute Lymphoblastic Leukemia

scientific article published on 24 April 2020

The Transcription Factor Zfx Regulates Peripheral T Cell Self-Renewal and Proliferation

scientific article published on 04 July 2018

The autophagic tumor stroma model of cancer or "battery-operated tumor growth": A simple solution to the autophagy paradox

scientific article

The autophagic tumor stroma model of cancer: Role of oxidative stress and ketone production in fueling tumor cell metabolism

scientific article

The bone marrow microenvironment at single-cell resolution

scientific article published on 10 April 2019

The histone demethylase PHF8 regulates TGFβ signaling and promotes melanoma metastasis

scientific article published on 18 February 2022

The milk protein α-casein functions as a tumor suppressor via activation of STAT1 signaling, effectively preventing breast cancer tumor growth and metastasis

scientific article

Three-dimensional chromatin landscapes in T cell acute lymphoblastic leukemia

scientific article published on 23 March 2020

Transcriptional evidence for the "Reverse Warburg Effect" in human breast cancer tumor stroma and metastasis: similarities with oxidative stress, inflammation, Alzheimer's disease, and "Neuron-Glia Metabolic Coupling"

scientific article

ULK1 inhibition overcomes compromised antigen presentation and restores antitumor immunity in LKB1 mutant lung cancer

scientific article published on 17 May 2021

Understanding the "lethal" drivers of tumor-stroma co-evolution: emerging role(s) for hypoxia, oxidative stress and autophagy/mitophagy in the tumor micro-environment

scientific article

Using Machine Learning Algorithms to Predict Immunotherapy Response in Patients with Advanced Melanoma

scientific article published on 18 November 2020

lncRNA-screen: an interactive platform for computationally screening long non-coding RNAs in large genomics datasets

scientific article

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