Emmanouil Sifakis

Publikationer
Forskningsbidrag
Populärvetenskap och samverkan

Artiklar

Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2023;120(1):e2209856120

Breast cancer patient-derived whole-tumor cell culture model for efficient drug profiling and treatment response prediction.

Chen X; Sifakis EG; Robertson S; Neo SY; Jun S-H; Tong L; Hui Min AT; Lövrot J; Hellgren R; Margolin S; Bergh J; Foukakis T; Lagergren J; Lundqvist A; Ma R; Hartman J
Journal article: ANNALS OF ONCOLOGY. 2022;33:s640

223P Gene expression profiles in endocrine-resistant breast cancer

Schagerholm C; Robertson S; Sifakis EG; Hases L; Williams C; Hartman J
Article: NUCLEIC ACIDS RESEARCH. 2020;48(19):10867-10876

MYC as a driver of stochastic chromatin networks: implications for the fitness of cancer cells.

Sumida N; Sifakis EG; Kiani NA; Ronnegren AL; Scholz BA; Vestlund J; Gomez-Cabrero D; Tegner J; Göndör A; Ohlsson R
Article: ESMO OPEN. 2020;5(6):e001032

PD-1 protein and gene expression as prognostic factors in early breast cancer.

Matikas A; Zerdes I; Lövrot J; Sifakis E; Richard F; Sotiriou C; Rassidakis G; Bergh J; Valachis A; Foukakis T
Journal article: JOURNAL OF CLINICAL ONCOLOGY. 2020;38(15_suppl):545

PD-1 protein and gene expression in early breast cancer: Prognostic implications.

Zerdes I; Matikas A; Lövrot J; Sifakis EG; Richard F; Sotiriou C; Rassidakis GZ; Bergh JCS; Valachis A; Foukakis T
Article: MOLECULAR ONCOLOGY. 2020;14(5):951-963

Programmed death-ligand 1 gene expression is a prognostic marker in early breast cancer and provides additional prognostic value to 21-gene and 70-gene signatures in estrogen receptor-positive disease.

Zerdes I; Sifakis EG; Matikas A; Chrétien S; Tobin NP; Hartman J; Rassidakis GZ; Bergh J; Foukakis T
Article: NATURE GENETICS. 2019;51(12):1723-1731

WNT signaling and AHCTF1 promote oncogenic MYC expression through super-enhancer-mediated gene gating.

Scholz BA; Sumida N; de Lima CDM; Chachoua I; Martino M; Tzelepis I; Nikoshkov A; Zhao H; Mehmood R; Sifakis EG; Bhartiya D; Göndör A; Ohlsson R
Article: CANCERS. 2019;11(10):E1479-1479

STAT3 Activity Promotes Programmed-Death Ligand 1 Expression and Suppresses Immune Responses in Breast Cancer.

Zerdes I; Wallerius M; Sifakis EG; Wallmann T; Betts S; Bartish M; Tsesmetzis N; Tobin NP; Coucoravas C; Bergh J; Rassidakis GZ; Rolny C; Foukakis T
Article: BREAST CANCER RESEARCH. 2019;21(1):34

The long-term prognostic and predictive capacity of cyclin D1 gene amplification in 2305 breast tumours.

Lundberg A; Lindström LS; Li J; Harrell JC; Darai-Ramqvist E; Sifakis EG; Foukakis T; Perou CM; Czene K; Bergh J; Tobin NP
Article: IN VIVO. 2018;32(4):945-954

Correlation Between Contrast-enhanced Ultrasound Characteristics (Qualitative and Quantitative) and Pathological Prognostic Factors in Breast Cancer.

Vraka I; Panourgias E; Sifakis E; Koureas A; Galanis P; Dellaportas D; Gouliamos A; Antoniou A
Article: MOLECULAR CELL. 2015;59(6):984-997

PARP1- and CTCF-Mediated Interactions between Active and Repressed Chromatin at the Lamina Promote Oscillating Transcription.

Zhao H; Sifakis EG; Sumida N; Millán-Ariño L; Scholz BA; Svensson JP; Chen X; Ronnegren AL; Mallet de Lima CD; Varnoosfaderani FS; Shi C; Loseva O; Yammine S; Israelsson M; Rathje L-S; Németi B; Fredlund E; Helleday T; Imreh MP; Göndör A
Article: IEEE TRANSACTIONS ON IMAGE PROCESSING. 2014;23(9):3762-3772

Robust carotid artery recognition in longitudinal B-mode ultrasound images.

Sifakis EG; Golemati S
Article: IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS. 2014;18(3):817-823

A composite framework for the statistical analysis of epidemiological DNA methylation data with the Infinium Human Methylation 450K BeadChip.

Valavanis I; Sifakis EG; Georgiadis P; Kyrtopoulos S; Chatziioannou AA
Article: COMPUTERS IN BIOLOGY AND MEDICINE. 2012;42(1):19-29

Evaluating the effect of various background correction methods regarding noise reduction, in two-channel microarray data.

Sifakis EG; Prentza A; Koutsouris D; Chatziioannou AA
Article: JOURNAL OF CLINICAL BIOINFORMATICS. 2011;1:36

Elucidating the identity of resistance mechanisms to prednisolone exposure in acute lymphoblastic leukemia cells through transcriptomic analysis: A computational approach.

Sifakis EG; Lambrou GI; Prentza A; Vlahopoulos S; Koutsouris D; Tzortzatou-Stathopoulou F; Chatziioannou AA
Article: ULTRASOUND IN MEDICINE AND BIOLOGY. 2007;33(12):1918-1932

Using the Hough transform to segment ultrasound images of longitudinal and transverse sections of the carotid artery.

Golemati S; Stoitsis J; Sifakis EG; Balkizas T; Nikita KS

Alla övriga publikationer

Conference publication: CANCER RESEARCH. 2023;83(5):p5-02-20-p5-02-20

Correlative and longitudinal transcriptomic profiling predicts patient outcomes and the efficacy of neoadjuvant HER2-targeted treatments in the randomized PREDIX HER2 trial

Wang K; Zhu Y; Zerdes I; Matikas A; Sifakis E; Salgkamis D; Bjohle J; Elinder E; Margolin S; Campos AB; Pekar G; Lindman H; Schiza A; Einbeigi Z; Adra J; Andersson A; Carlsson L; Dreifaldt AC; Isaksson-Friman E; Agartz S; Johansson H; Hellstrom M; Azavedo E; Hartman J; Bergh J; Hatschek T; Foukakis T
Conference publication: CANCER RESEARCH. 2023;83(5):p2-21-02-p2-21-02

Longitudinal tumor-immune microenvironment changes in patients with clinical luminal A early breast cancer treated with neoadjuvant palbociclib and endocrine therapy: results from the Swedish randomized PREDIX Luminal A trial

Zerdes I; Salgkamis D; Matikas A; Selander L; Wang K; Tzoras E; Sifakis E; Agartz S; Chen X; Hellstrom M; Hartman J; Bergh J; Foukakis T; Hatschek T
Meeting abstract: ANNALS OF ONCOLOGY. 2022;33(7):S640

Gene expression profiles in endocrine-resistant breast cancer

Schagerholm C; Robertson S; Sifakis EG; Hases L; Williams C; Hartman J
Meeting abstract: ANNALS OF ONCOLOGY. 2022;33(7):S1306

Breast cancer patient-derived whole-tumor cell culture model for efficient drug profiling and treatment response prediction

Chen X; Sifakis EG; Robertson S; Neo SY; Jun S-H; Tong L; Lovrot J; Tay A; Hellgren R; Margolin S; Bergh J; Foukakis T; Lagergren J; Lundqvist A; Ma R; Hartman J
Meeting abstract: ANNALS OF ONCOLOGY. 2022;33(7):S614

The prognostic importance of high HER2 copy numbers and high HER2/CEP17 ratio in trastuzumab-treated early breast cancer

Ronnlund C; Robertson S; Sifakis EG; Fredriksson I; Foukakis T; Hartman J
Conference publication: ANNALS OF ONCOLOGY. 2022;33:S125

Longitudinal proteogenomic profiling reveals therapeutic vulnerabilities of immunometabolism in breast cancer

Wang K; Zerdes I; Sifakis EG; Johansson HJ; Mezheyeuski A; Lehtio J; Bergh J; Hatschek T; Matikas A; Foukakis T
Meeting abstract: CANCER RESEARCH. 2022;82(4):p1-07-07-p1-07-07

Endoresist: Prognostic and predictive gene profiles in endocrine-resistant breast cancers

Schagerholm C; Robertson S; Holm B; Lindberg K; Sifakis E; Hases L; Williams C; Hartman J
Conference publication: VIRCHOWS ARCHIV. 2022;481(SUPPL 1):S42-S43

PIK3CA mutations in endocrine-resistant breast cancer

Schagerholm C; Robertson S; Holm B; Awier H; Toosi H; Sifakis E; Hartman J
Corrigendum: NATURE GENETICS. 2020;52(11):1265

Author Correction: WNT signaling and AHCTF1 promote oncogenic MYC expression through super-enhancer-mediated gene gating.

Scholz BA; Sumida N; de Lima CDM; Chachoua I; Martino M; Tzelepis I; Nikoshkov A; Zhao H; Mehmood R; Sifakis EG; Bhartiya D; Göndör A; Ohlsson R
Conference publication: JOURNAL OF CLINICAL ONCOLOGY. 2020;38(15)

PD-1 protein and gene expression in early breast cancer: Prognostic implications.

Zerdes I; Matikas A; Lovrot J; Sifakis EG; Richard F; Sotiriou C; Rassidakis GZ; Bergh JCS; Valachis A; Foukakis T
Conference publication: JOURNAL OF CLINICAL ONCOLOGY. 2019;37(15):550

Prognostic value of PD-L1 gene expression with Recurrence Score and 70-gene signature in patients with ER+/HER2-early breast cancer.

Zerdes I; Sifakis EG; Tobin N; Bergh JCS; Matikas A; Foukakis T
Meeting abstract: CANCER RESEARCH. 2019;79(4):p2-08-25-p2-08-25

PD-L1 expression at the protein and RNA levels as prognostic factor in early breast cancer

Zerdes I; Sifakis E; Matikas A; Tobin NP; Charlotte R; Rassidakis GZ; Bergh J; Foukakis T
Preprint: 2018;bioRxiv

The ultra-sensitive Nodewalk technique identifies stochastic from virtual, population-based enhancer hubs regulatingMYCin 3D: Implications for the fitness of cancer cells

Sumida N; Sifakis E; Scholz B; Fernandez-Woodbridge A; Kiani N; Gomez-Cabrero D; Svensson P; Tegner J; Göndör A; Ohlsson R
Book chapter: 2014;p. 5593-5606

Microarrays

Khosrow-Pour M; Lambrou GI; Braoudaki M; Sifakis E; Zaravinos A
Conference publication: 2013;:1-5

Identifying Gender Independent Biomarkers Responsible for Human Muscle Aging Using Microarray Data

Sifakis EG; Valavanis I; Papadodima O; Chatziioannou AA
Book chapter: COMMUNICATIONS IN COMPUTER AND INFORMATION SCIENCE. 2013;p. 249-256

Derivation of Cancer Related Biomarkers from DNA Methylation Data from an Epidemiological Cohort

Valavanis I; Sifakis EG; Georgiadis P; Kyrtopoulos S; Chatziioannou AA
Conference publication: 2012;:632-637

Analysis of DNA Methylation Epidemiological Data through a Generic Composite Statistical Framework

Valavanis I; Sifakis E; Georgiadis P; Kyrtopoulos S; Chatziioannou AA
Conference publication: 2010;:122-129

SETTING A RATIONAL FRAMEWORK FOR EXPERIMENTAL DESIGN AND ANALYSIS OF HIGH-THROUGHPUT DNA MICROARRAY EXPERIMENTS AND DATA

LAMBROU GI; CHATZIIOANNOU A; SIFAKIS E; PRENTZA A; KOUTSOURIS D; KOULTOUKI E; TZORTZATOU-STATHOPOULOU F
Conference publication: 2009;:1-5

Comparative Computational Methods for Identification of Inherent or Acquired Mechanisms of Resistance to Prednisolone in Acute Lymphoblastic Leukemia Cells

Lambrou GI; Sifakis EG; Prentza A; Chatziioannou A; Koutsouris D; Koultouki E; Tzortzatou-Stathopoulou F
Conference publication: 2008;:1-6

cDNA microarray analysis of a glucocorticoid treated acute lymphoblastic leukemia cell line

Sifakis EG; Lambrou GI; Prentza A; Koutsouris D; Tzortzatou-Stathopoulou F

Forskningsbidrag

Optimizing treatment in HER2 positive breast cancer through insights in tumor biology

Swedish Research Council

1 January 2019 - 31 December 2021

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