E
Ece Kartal
Researcher at European Bioinformatics Institute
Publications - 20
Citations - 1043
Ece Kartal is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: Microbiome & Metagenomics. The author has an hindex of 7, co-authored 14 publications receiving 466 citations. Previous affiliations of Ece Kartal include Boğaziçi University & Molecular Medicine Partnership Unit.
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Journal ArticleDOI
Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer
Jakob Wirbel,Paul Theodor Pyl,Paul Theodor Pyl,Ece Kartal,Konrad Zych,Alireza Kashani,Alessio Milanese,Jonas S. Fleck,Anita Y. Voigt,Albert Pallejà,Ruby Ponnudurai,Shinichi Sunagawa,Luis Pedro Coelho,Petra Schrotz-King,Emily Vogtmann,Nina Habermann,Emma Niméus,Andrew Maltez Thomas,Andrew Maltez Thomas,Paolo Manghi,Sara Gandini,Davide Serrano,Sayaka Mizutani,Sayaka Mizutani,Hirotsugu Shiroma,Satoshi Shiba,Tatsuhiro Shibata,Shinichi Yachida,Takuji Yamada,Takuji Yamada,Levi Waldron,Alessio Naccarati,Nicola Segata,Rashmi Sinha,Cornelia M. Ulrich,Hermann Brenner,Manimozhiyan Arumugam,Manimozhiyan Arumugam,Peer Bork,Georg Zeller +39 more
TL;DR: A meta-analysis of eight geographically and technically diverse fecal shotgun metagenomic studies of colorectal cancer identified a core set of 29 species significantly enriched in CRC metagenomes, establishing globally generalizable, predictive taxonomic and functional microbiome CRC signatures as a basis for future diagnostics.
Journal ArticleDOI
Microbiome meta-analysis and cross-disease comparison enabled by the SIAMCAT machine learning toolbox
Jakob Wirbel,Konrad Zych,Morgan Essex,Morgan Essex,Nicolai Karcher,Nicolai Karcher,Ece Kartal,Guillem Salazar,Peer Bork,Shinichi Sunagawa,Georg Zeller +10 more
TL;DR: In this paper, the authors developed SIAMCAT, a toolbox for ML-based comparative metagenomics, which demonstrated its capabilities in a meta-analysis of fecal metagenomic studies (10,803 samples).
Journal ArticleDOI
The distinct genetic pattern of ALS in Turkey and novel mutations.
Aslihan Ozoguz,Özgün Uyan,Güneş Birdal,Ceren Iskender,Ece Kartal,Suna Lahut,Özgür Ömür,Zeynep Sena Agim,Aslı Gündoğdu Eken,Nesli-Ece Sen,Pinar Kavak,Ceren Saygı,Peter C. Sapp,Pamela Keagle,Yesim Parman,Ersin Tan,Filiz Koç,Feza Deymeer,Piraye Oflazer,Hasmet Hanagasi,Hakan Gurvit,Başar Bilgiç,Hacer Durmus,Mustafa Ertas,Dilcan Kotan,Mehmet Ali Akalin,Halil Güllüoğlu,Mehmet Zarifoglu,Fikret Aysal,Nilgün Döşoğlu,Kaya Bilguvar,Murat Gunel,Ozlem Keskin,Tahsin Akgün,Hilmi Ozcelik,John Landers,Robert H. Brown,A. Nazli Basak +37 more
TL;DR: Exome sequencing revealed mutations in OPTN, SPG11, DJ1, PLEKHG5, SYNE1, TRPM7, and SQSTM1 genes, many of them novel.
Journal ArticleDOI
A faecal microbiota signature with high specificity for pancreatic cancer
Ece Kartal,Thomas Schmidt,Esther Molina-Montes,Sandra Rodriguez-Perales,Jakob Wirbel,Oleksandr M. Maistrenko,Wasiu Akanni,Bilal Alashkar Alhamwe,Renato J. Alves,Alfredo Carrato,Hans-Peter Erasmus,Lidia Estudillo,Fabian Finkelmeier,Anthony Fullam,Anna Głazek,Paulina Gomez-Rubio,Rajna Hercog,Ferris Jung,Stefanie Kandels,Stephan Kersting,Melanie Langheinrich,Mirari Marquez,Xavier Molero,Askarbek N Orakov,Thea Van Rossum,Raúl Torres-Ruiz,Anja Telzerow,Konrad Zych,Vladimir Benes,Georg Zeller,Jonel Trebicka,Francisco X. Real,Núria Malats,Peer Bork +33 more
TL;DR: Faecal metagenomic classifiers performed much better than saliva-based classifiers and identified patients with PDAC with an accuracy of up to 0.84 area under the receiver operating characteristic curve (AUROC) based on a set of 27 microbial species, with consistent accuracy across early and late disease stages.
Posted ContentDOI
Microbiome meta-analysis and cross-disease comparison enabled by the SIAMCAT machine-learning toolbox
Jakob Wirbel,Konrad Zych,Morgan Essex,Morgan Essex,Nicolai Karcher,Nicolai Karcher,Ece Kartal,Guillem Salazar,Peer Bork,Shinichi Sunagawa,Georg Zeller +10 more
TL;DR: SIAMCAT, a versatile R toolbox for ML-based comparative metagenomics, is developed and demonstrated its capabilities in a meta-analysis of fecal metagenomic studies, revealing some biomarkers to be disease-specific, others shared across multiple conditions.