Shaped 3D Singular Spectrum Analysis for Quantifying Gene Expression, with Application to the Early Zebrafish Embryo
المؤلفون المشاركون
Spirov, Alexander V.
Shlemov, Alex
Golyandina, Nina
Holloway, David M.
المصدر
العدد
المجلد 2015، العدد 2015 (31 ديسمبر/كانون الأول 2015)، ص ص. 1-18، 18ص.
الناشر
Hindawi Publishing Corporation
تاريخ النشر
2015-10-01
دولة النشر
مصر
عدد الصفحات
18
التخصصات الرئيسية
الملخص EN
Recent progress in microscopy technologies, biological markers, and automated processing methods is making possible the development of gene expression atlases at cellular-level resolution over whole embryos.
Raw data on gene expression is usually very noisy.
This noise comes from both experimental (technical/methodological) and true biological sources (from stochastic biochemical processes).
In addition, the cells or nuclei being imaged are irregularly arranged in 3D space.
This makes the processing, extraction, and study of expression signals and intrinsic biological noise a serious challenge for 3D data, requiring new computational approaches.
Here, we present a new approach for studying gene expression in nuclei located in a thick layer around a spherical surface.
The method includes depth equalization on the sphere, flattening, interpolation to a regular grid, pattern extraction by Shaped 3D singular spectrum analysis (SSA), and interpolation back to original nuclear positions.
The approach is demonstrated on several examples of gene expression in the zebrafish egg (a model system in vertebrate development).
The method is tested on several different data geometries (e.g., nuclear positions) and different forms of gene expression patterns.
Fully 3D datasets for developmental gene expression are becoming increasingly available; we discuss the prospects of applying 3D-SSA to data processing and analysis in this growing field.
نمط استشهاد جمعية علماء النفس الأمريكية (APA)
Shlemov, Alex& Golyandina, Nina& Holloway, David M.& Spirov, Alexander V.. 2015. Shaped 3D Singular Spectrum Analysis for Quantifying Gene Expression, with Application to the Early Zebrafish Embryo. BioMed Research International،Vol. 2015, no. 2015, pp.1-18.
https://search.emarefa.net/detail/BIM-1057493
نمط استشهاد الجمعية الأمريكية للغات الحديثة (MLA)
Shlemov, Alex…[et al.]. Shaped 3D Singular Spectrum Analysis for Quantifying Gene Expression, with Application to the Early Zebrafish Embryo. BioMed Research International No. 2015 (2015), pp.1-18.
https://search.emarefa.net/detail/BIM-1057493
نمط استشهاد الجمعية الطبية الأمريكية (AMA)
Shlemov, Alex& Golyandina, Nina& Holloway, David M.& Spirov, Alexander V.. Shaped 3D Singular Spectrum Analysis for Quantifying Gene Expression, with Application to the Early Zebrafish Embryo. BioMed Research International. 2015. Vol. 2015, no. 2015, pp.1-18.
https://search.emarefa.net/detail/BIM-1057493
نوع البيانات
مقالات
لغة النص
الإنجليزية
الملاحظات
Includes bibliographical references
رقم السجل
BIM-1057493
قاعدة معامل التأثير والاستشهادات المرجعية العربي "ارسيف Arcif"
أضخم قاعدة بيانات عربية للاستشهادات المرجعية للمجلات العلمية المحكمة الصادرة في العالم العربي
تقوم هذه الخدمة بالتحقق من التشابه أو الانتحال في الأبحاث والمقالات العلمية والأطروحات الجامعية والكتب والأبحاث باللغة العربية، وتحديد درجة التشابه أو أصالة الأعمال البحثية وحماية ملكيتها الفكرية. تعرف اكثر