Metadata Management and Semantics in Microarray Repositories

The number of microarray and other high-throughput experiments on primary repositories keeps increasing as do the size and complexity of the results in response to biomedical investigations. Initiatives have been started on standardization of content, object model, exchange format and ontology. However, there are backlogs and inability to exchange data between microarray repositories, which indicate that there is a great need for a standard format and data management.


Data interoperability through federated semantic metadata registries
Sınacı, Ali Anıl; Çiçekli, Fehime Nihan; Doğaç, Asuman; Department of Computer Engineering (2014)
In this study, a unified methodology together with the supporting framework for the problem of data interoperability is introduced which brings together the power of metadata registries and semantic web technologies. A federated architecture of semantic metadata registries which are purely based on ISO/IEC 11179 standard leads to the Linked Open Data integration of data element repositories where each element can be uniquely identified, referenced and processed to enable the syntactic and semantic interoper...
Similarity search in protein sequence databases using metric access methods
Cetintas, Ahmet; Sacan, Ahmet; Toroslu, İsmail Hakkı (2013-09-13)
The rapid increase in the size of biological sequence data owing to the advancements in high-throughput sequencing techniques, and the increased complexity of hypothesis-driven exploration of this data requiring massive number of similarity queries call for new approaches for managing sequence databases and analysis of this information. The metric space representation for sequences is suitable for similarity search and provides several sophisticated metric-indexing techniques. In this work, we provide a tho...
Robust estimation and hypothesis testing under short-tailedness and inliers
Akkaya, Ayşen (Springer Science and Business Media LLC, 2005-06-01)
Estimation and hypothesis testing based on normal samples censored in the middle are developed and shown to be remarkably efficient and robust to symmetric short-tailed distributions and to inliers in a sample. This negates the perception that sample mean and variance are the best robust estimators in such situations (Tiku, 1980; Dunnett, 1982).
Semantic concept recognition from structured and unstructured inputs within cyber security domain
Hoşsucu, Alp Gökhan; Baykal, Nazife; Department of Information Systems (2015)
Linked data initiative has been quite successful in terms of publishing and interlinking data over ontological structures. The success is due to answering semantically rich queries over highly structured data. The utilization of linked data structures are widely used in various domains to solve the problem of producing domain specific knowledge which can be interpreted by automated agents without any human interference. Cyber security field is one of the domains that suffer from the excessiveness of the raw...
Data Centric Molecular Analysis and Evaluation of Hepatocellular Carcinoma Therapeutics Using Machine Intelligence-Based Tools
Cetin-Atalay, Rengul; Kahraman, Deniz Cansen; Sinoplu, Esra; RİFAİOĞLU, AHMET SÜREYYA; Atakan, Ahmet; Dönmez, Ataberk; Atas, Heval; Atalay, Mehmet Volkan; Acar, Aybar C.; DOĞAN, TUNCA (2021-12-01)
Purpose Computational approaches have been used at different stages of drug development with the purpose of decreasing the time and cost of conventional experimental procedures. Lately, techniques mainly developed and applied in the field of artificial intelligence (AI), have been transferred to different application domains such as biomedicine. Methods In this study, we conducted an investigative analysis via data-driven evaluation of potential hepatocellular carcinoma (HCC) therapeutics in the context of ...
Citation Formats
F. Kocabas, T. Can, and N. Baykal, “Metadata Management and Semantics in Microarray Repositories,” BALKAN JOURNAL OF MEDICAL GENETICS, pp. 49–63, 2011, Accessed: 00, 2020. [Online]. Available: