Advantages and disadvantages in usage of bioinformatic programs in promoter region analysis

Magdalena Ewa Pawełkowicz; Agnieszka Skarzyńska; Kacper Posyniak; Karolina Ziąbska; Wojciech Pląder; Zbigniew Przybecki

doi:10.1117/12.2205542

11 September 2015 Advantages and disadvantages in usage of bioinformatic programs in promoter region analysis

Magdalena Ewa Pawełkowicz, Agnieszka Skarzyńska, Kacper Posyniak, Karolina Ziąbska, Wojciech Pląder, Zbigniew Przybecki

Proceedings Volume 9662, Photonics Applications in Astronomy, Communications, Industry, and High-Energy Physics Experiments 2015; 96621L (2015) https://doi.org/10.1117/12.2205542
Event: XXXVI Symposium on Photonics Applications in Astronomy, Communications, Industry, and High-Energy Physics Experiments (Wilga 2015), 2015, Wilga, Poland

Abstract

An important computational challenge is finding the regulatory elements across the promotor region. In this work we present the advantages and disadvantages from the application of different bioinformatics programs for localization of transcription factor binding sites in the upstream region of genes connected with sex determination in cucumber. We use PlantCARE, PlantPAN and SignalScan to find motifs in the promotor regions. The results have been compared and possible function of chosen motifs has been described.

Citation Download Citation

Magdalena Ewa Pawełkowicz, Agnieszka Skarzyńska, Kacper Posyniak, Karolina Ziąbska, Wojciech Pląder, and Zbigniew Przybecki "Advantages and disadvantages in usage of bioinformatic programs in promoter region analysis", Proc. SPIE 9662, Photonics Applications in Astronomy, Communications, Industry, and High-Energy Physics Experiments 2015, 96621L (11 September 2015); https://doi.org/10.1117/12.2205542

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