Image processing - Revision history

Leandra at 11:48, 22 June 2007

2007-06-22T11:48:22Z

←Older revision		Revision as of 11:48, 22 June 2007
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	*[[Cell motility]]		*[[Cell motility]]
-	:By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in ~~random condtions~~ and in wound healing ~~assay~~. A statistical analysis tool ~~giving~~ measure ~~about~~ the speed, ~~the~~ direction and ~~the~~ tortuosity of moving ~~elements, has been developed to support these investigation~~.	+	:By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in basal conditions and within wound healing assays. This allowed to define the role of single oncogenes such as Ras and Src in affecting cell motility and their interactions with components of the extracellular matrix. A statistical analysis tool was developed to measure the speed, direction and tortuosity of moving cells.

	*[[Storage of experimental data]]		*[[Storage of experimental data]]

Leandra at 11:42, 22 June 2007

2007-06-22T11:42:37Z

←Older revision		Revision as of 11:42, 22 June 2007
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-	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of ~~the~~ cell motility takes advantage both of morphological ~~investigations~~ of fixed samples, and of functional ~~analysis~~ of live cells using experimental conditions as ~~soon~~ as possible ~~close~~ to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.	+	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of cell motility takes advantage both of morphological analysis of fixed samples, and of functional studies of live cells, using experimental conditions as close as possible to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.

	*[[Cell motility]]		*[[Cell motility]]
-	:By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in random condtions and in wound healing assay. A statistical analysis tool giving measure about the speed, the direction and the tortuosity of moving elements has been developed to ~~better~~ support these investigation.	+	:By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in random condtions and in wound healing assay. A statistical analysis tool giving measure about the speed, the direction and the tortuosity of moving elements, has been developed to support these investigation.

	*[[Storage of experimental data]]		*[[Storage of experimental data]]
-	:The large number of experimental data and images ~~acquired in time, such as~~ the ~~first set~~ of ~~results obtained~~, ~~required~~ to ~~develop a systematic procedure~~ to ~~storage~~ and ~~manage the great amount of correlated data~~. A custom cell bank ~~is in use~~ to archive the history of each cell line, starting from its ~~arrive into~~ the laboratory~~. To store~~ and ~~manage the large amount~~ of ~~digital images produced has been developed a relational databank able to connect to each acquisition~~ the ~~correlated experimental data such as cell line, colture conditions~~ and ~~staining methods~~.	+	:The large number of experimental data and images deriving from multiple acquisitions at different times and sample levels stimulated the development of a relational databank, able to connect each acquisition to experimental data such as cell line, colture conditions and staining methods. A custom cell bank maintenance system was also developed to archive the history of each cell line, starting from its arrival to the laboratory and keeping track of the various thawing and propagation procedures.

	*[[Image analysis and processing]]		*[[Image analysis and processing]]
-	:The images, obtained by a conventional fluorescence microscope, contain light from the all 3D sample-objects included within the acquisition field. This means an evident blurring of the focal plane by “out –of - focus” fluorescence. A unix tool executing deconvolution, a specific restoration algorithm, on biological images was developed in order to increase the visibility of some cell structures otherwise hidden. Moreover a suitable visualization and ~~some opportune image processes~~ may highlight various aspects of the image data. ~~This consideration led~~ to ~~the development~~ of ~~IPROC~~ a ~~web based image visualization and processing system~~. Compatible images range from simple two-dimensional frames, to complex multidimensional datasets, typical of microscopic observation of biological samples, such as time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program ~~include~~ scrolling, ~~rotation~~ and selection mechanisms to ~~make~~ a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests.IPROC will integrate restoration filters and cell motility tools within one global web system.	+	:Image visualization and processing tools may be used to highlight various, otherwise hidden, aspects of the image data. A web based application, IPROC, is being developed to rapidly visualize and process remotely stored images, within an environment similar to that of a typical desktop application. Compatible images range from simple two-dimensional frames, to complex multidimensional datasets, typical of microscopic observation of biological samples, such as time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program provides tools for scrolling, rotating on multiple axes and a selection mechanisms to allow a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters, installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests. IPROC will integrate restoration filters and cell motility tools within one global web system.


-		+	{{template:footer\|footername=footer reslines}}
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-	Cell motility is a complex phenomenon, which may be explored in a variety of experimental situations, ranging from in vitro cultured cells to cell migration in whole embryos or in the adult animal. By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix has been evaluated. The need for applying image processing techniques to the study, stimulated the development of a number of computational tools, including a system for centralized storage of experimental images, and a web based image processing tool. Statistical analysis of cell movement and study of multidimensional images may be performed within these systems.	+

Concita at 17:03, 21 June 2007

2007-06-21T17:03:11Z

←Older revision		Revision as of 17:03, 21 June 2007
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-	[[media:cellmovie.avi\|cell movie]]
-
	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.		Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.

Concita at 16:47, 21 June 2007

2007-06-21T16:47:05Z

←Older revision		Revision as of 16:47, 21 June 2007
Line 1:		Line 1:
		+	[[media:cellmovie.avi\|cell movie]]
		+
	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.		Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.

Giovanni at 16:17, 21 June 2007

2007-06-21T16:17:30Z

←Older revision		Revision as of 16:17, 21 June 2007
Line 1:		Line 1:
	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.		Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.

-	*[[~~cell~~ motility]]	+	*[[Cell motility]]
-	*By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in random condtions and in wound healing assay. A statistical analysis tool giving measure about the speed, the direction and the tortuosity of moving elements has been developed to better support these investigation ~~([[cell motility]])~~.	+	:By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in random condtions and in wound healing assay. A statistical analysis tool giving measure about the speed, the direction and the tortuosity of moving elements has been developed to better support these investigation.

-	*[[~~storage~~ of experimental data]]	+	*[[Storage of experimental data]]
-	**The large number of experimental data and images acquired in time, such as the first set of results obtained, required to develop a systematic procedure to storage and manage the great amount of correlated data. A custom cell bank is in use to archive the history of each cell line, starting from its arrive into the laboratory. To store and manage the large amount of digital images produced has been developed a relational databank able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods ().	+	:The large number of experimental data and images acquired in time, such as the first set of results obtained, required to develop a systematic procedure to storage and manage the great amount of correlated data. A custom cell bank is in use to archive the history of each cell line, starting from its arrive into the laboratory. To store and manage the large amount of digital images produced has been developed a relational databank able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods.

-	The images, obtained by a conventional fluorescence microscope, contain light from the all 3D sample-objects included within the acquisition field. This means an evident blurring of the focal plane by “out –of - focus” fluorescence. A unix tool executing deconvolution, a specific restoration algorithm, on biological images was developed in order to increase the visibility of some cell structures otherwise hidden. Moreover a suitable visualization and some opportune image processes may highlight various aspects of the image data. This consideration led to the development of IPROC a web based image visualization and processing system. Compatible images range from simple two-dimensional frames, to complex multidimensional datasets, typical of microscopic observation of biological samples, such as time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program include scrolling, rotation and selection mechanisms to make a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests.IPROC will integrate restoration filters and cell motility tools within one global web system ~~([[image analysis and processing]])~~.	+	*[[Image analysis and processing]]
		+	:The images, obtained by a conventional fluorescence microscope, contain light from the all 3D sample-objects included within the acquisition field. This means an evident blurring of the focal plane by “out –of - focus” fluorescence. A unix tool executing deconvolution, a specific restoration algorithm, on biological images was developed in order to increase the visibility of some cell structures otherwise hidden. Moreover a suitable visualization and some opportune image processes may highlight various aspects of the image data. This consideration led to the development of IPROC a web based image visualization and processing system. Compatible images range from simple two-dimensional frames, to complex multidimensional datasets, typical of microscopic observation of biological samples, such as time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program include scrolling, rotation and selection mechanisms to make a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests.IPROC will integrate restoration filters and cell motility tools within one global web system.

Giovanni at 16:13, 21 June 2007

2007-06-21T16:13:56Z

←Older revision		Revision as of 16:13, 21 June 2007
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	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.		Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.

-	By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in random condtions and in wound healing assay. A statistical analysis tool giving measure about the speed, the direction and the tortuosity of moving elements has been developed to better support these investigation ([[cell motility]]).	+	*[[cell motility]]
		+	*By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in random condtions and in wound healing assay. A statistical analysis tool giving measure about the speed, the direction and the tortuosity of moving elements has been developed to better support these investigation ([[cell motility]]).

-	The large number of experimental data and images acquired in time, such as the first set of results obtained, required to develop a systematic procedure to storage and manage the great amount of correlated data. A custom cell bank is in use to archive the history of each cell line, starting from its arrive into the laboratory. To store and manage the large amount of digital images produced has been developed a relational databank able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods (~~[[storage of experimental data]]~~).	+	*[[storage of experimental data]]
		+	**The large number of experimental data and images acquired in time, such as the first set of results obtained, required to develop a systematic procedure to storage and manage the great amount of correlated data. A custom cell bank is in use to archive the history of each cell line, starting from its arrive into the laboratory. To store and manage the large amount of digital images produced has been developed a relational databank able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods ().

	The images, obtained by a conventional fluorescence microscope, contain light from the all 3D sample-objects included within the acquisition field. This means an evident blurring of the focal plane by “out –of - focus” fluorescence. A unix tool executing deconvolution, a specific restoration algorithm, on biological images was developed in order to increase the visibility of some cell structures otherwise hidden. Moreover a suitable visualization and some opportune image processes may highlight various aspects of the image data. This consideration led to the development of IPROC a web based image visualization and processing system. Compatible images range from simple two-dimensional frames, to complex multidimensional datasets, typical of microscopic observation of biological samples, such as time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program include scrolling, rotation and selection mechanisms to make a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests.IPROC will integrate restoration filters and cell motility tools within one global web system ([[image analysis and processing]]).		The images, obtained by a conventional fluorescence microscope, contain light from the all 3D sample-objects included within the acquisition field. This means an evident blurring of the focal plane by “out –of - focus” fluorescence. A unix tool executing deconvolution, a specific restoration algorithm, on biological images was developed in order to increase the visibility of some cell structures otherwise hidden. Moreover a suitable visualization and some opportune image processes may highlight various aspects of the image data. This consideration led to the development of IPROC a web based image visualization and processing system. Compatible images range from simple two-dimensional frames, to complex multidimensional datasets, typical of microscopic observation of biological samples, such as time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program include scrolling, rotation and selection mechanisms to make a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests.IPROC will integrate restoration filters and cell motility tools within one global web system ([[image analysis and processing]]).

Concita at 14:49, 21 June 2007

2007-06-21T14:49:11Z

←Older revision		Revision as of 14:49, 21 June 2007
Line 1:		Line 1:
-	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult ~~animal~~. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps~~. By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated.~~	+	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animals. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps.
-	The large number of images and correlated experimental data acquired in time, and first set of results obtained, required to integrate storage with the availability of management each ensamble of data for further analysis.	+
-	In order to increase the visibility of some cell structures blurred by redundant fluorescence signal, it's often necessary to apply restoration filters. Deconvolution tool was developed to restore fluorescent acquired images.	+
-	~~A statistical analysis tool was developed to obtain quantitative value describing the movement both of the whole observation field and of a particular subsets of cells.~~	+
-	A web based system able to visualize, analyse and process multidimensional images was also been developed; this tool, named IPROC will integrate all the components previously described, within one global web system.	+

		+	By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated both in random condtions and in wound healing assay. A statistical analysis tool giving measure about the speed, the direction and the tortuosity of moving elements has been developed to better support these investigation ([[cell motility]]).

-	~~[[Image:ImagesDB.jpg\|right\|200px\|~~images data bank]]	+	The large number of experimental data and images acquired in time, such as the first set of results obtained, required to develop a systematic procedure to storage and manage the great amount of correlated data. A custom cell bank is in use to archive the history of each cell line, starting from its arrive into the laboratory. To store and manage the large amount of digital images produced has been developed a relational databank able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods ([[storage of experimental data]]).

		+	The images, obtained by a conventional fluorescence microscope, contain light from the all 3D sample-objects included within the acquisition field. This means an evident blurring of the focal plane by “out –of - focus” fluorescence. A unix tool executing deconvolution, a specific restoration algorithm, on biological images was developed in order to increase the visibility of some cell structures otherwise hidden. Moreover a suitable visualization and some opportune image processes may highlight various aspects of the image data. This consideration led to the development of IPROC a web based image visualization and processing system. Compatible images range from simple two-dimensional frames, to complex multidimensional datasets, typical of microscopic observation of biological samples, such as time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program include scrolling, rotation and selection mechanisms to make a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests.IPROC will integrate restoration filters and cell motility tools within one global web system ([[image analysis and processing]]).

-	'''Data bank of biological images and correlated data''' To store and manage the large amount of digital images produced has been developed a relational databank ([[ImagesDB]]) able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods. The data bank has also a user-friendly web-interface to visualize and update the image data.


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-	[[Image:actin_original.jpg\|right\|100px]] [[Image:actin_deconv.jpg\|right\|100px]]
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-	'''Software to restore digital images.''' Using optical sectioning technique, a stack of 2D images can be obtained. However, due to the nature of the optical system and non-optimal experimental conditions, acquired raw data are usually sensitive to some distorsions. Raw data have to be restored in order to carry out biological analysis and enhance the visibility of cellular structure otherwise hidden. The images, obtained by a conventional fluorescence microscope, contain light from the all 3D sample-object. this means an evident blurring of the focal plane by “out –of - focus” fluorescence. The reduction of this effect is carried out by a computational deconvolution process. We developed a custom tool to execute the deconvolution algorithm, it attempt to reassign blurred light to its location.
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-	[[Image:paths.jpg\|right\|200px\|overlay image and paths]]
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-	'''Cell motility tools''' A set of software tools for visualization and statistical evaluation of cellular movements from series of subsequent frames acquired manually or from automated video time-lapse microscopy, has been developed([[Cell Motility]]). These tools have been adapted and used to study the sub-cellular structures migration such as endocytosis vesicles, within the cytoplasm. The first result contribute to associate to different cell lines specific motion features; but a punctual analysis is also developed to study sub-cellular elements in order to make visible their different ability to move into the cytoplasm in response to distinct stimuli. The tools execute statistical analysis to measure the speed, the direction and the tortuosity of moving elements.
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-	[[Image:IPROC.jpg\|right\|200px\|IPROC]]
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-	'''IPROC a web-system to visualize and process biological images''' A suitable visualization and some opportune image processes may highlight various aspects of the image data. This consideration led to the development of IPROC a web based image visualization and processing system ([[IPROC]]). Compatible images range from simple two-dimensional frames, to complex, multidimensional datasets typical of microscopic observation of biological images, springing from variable combinations of time series, z-axis sections, channels recorded at different wavelength and optical arrangement with, optionally, different samples and positions. The program include scrolling, rotation and selection mechanisms to make a variable visualization of a multidimensional image. Processing is obtained by integrating a large library of different unix filters installed on the server, while interactivity is provided by the ability to quickly react to user input via small data requests.
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Concita at 15:42, 20 June 2007

2007-06-20T15:42:32Z

←Older revision		Revision as of 15:42, 20 June 2007
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-	Cell motility is a complex phenomenon, which may be explored in a variety of experimental ~~situations~~, ranging from in vitro cultured cells ~~to migration in~~ whole embryos or ~~in the~~ adult animal. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps. By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated.	+	Cell motility is a complex phenomenon, which may be explored in a variety of experimental systems, ranging from in vitro cultured cells, whole embryos or adult animal. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps. By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated.
-	The large number of images and correlated experimental data ~~and results~~ acquired in ~~the~~ time, required to integrate storage ~~and management~~ with the availability of each ~~set~~ of data for further analysis.	+	The large number of images and correlated experimental data acquired in time, and first set of results obtained, required to integrate storage with the availability of management each ensamble of data for further analysis.
	In order to increase the visibility of some cell structures blurred by redundant fluorescence signal, it's often necessary to apply restoration filters. Deconvolution tool was developed to restore fluorescent acquired images.		In order to increase the visibility of some cell structures blurred by redundant fluorescence signal, it's often necessary to apply restoration filters. Deconvolution tool was developed to restore fluorescent acquired images.
-	~~To execute~~ statistical analysis of ~~cell motility...............~~.	+	A statistical analysis tool was developed to obtain quantitative value describing the movement both of the whole observation field and of a particular subsets of cells.
	A web based system able to visualize, analyse and process multidimensional images was also been developed; this tool, named IPROC will integrate all the components previously described, within one global web system.		A web based system able to visualize, analyse and process multidimensional images was also been developed; this tool, named IPROC will integrate all the components previously described, within one global web system.


-	'''Cell motility tools''' A set of software tools for visualization and statistical evaluation of cellular movements from series of subsequent frames acquired manually or from automated video time-lapse microscopy, has been developed. These tools ([[~~Cell Motility~~]]~~) have been adapted and used to study the sub-cellular structures migration such as endocytosis vesicles, within the cytoplasm.~~	+	[[Image:ImagesDB.jpg\|right\|200px\|images data bank]]
-	The first result contribute to associate to different cell lines specific motion features; but a punctual analysis is also developed to study sub-cellular elements in order to make visible their different ability to move into the cytoplasm in response to distinct stimuli. The tools execute statistical analysis to measure the speed, the direction and the tortuosity of moving elements.	+


-	[[~~Image:paths.jpg\|center\|200px\|overlay image and paths~~]]	+	'''Data bank of biological images and correlated data''' To store and manage the large amount of digital images produced has been developed a relational databank ([[ImagesDB]]) able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods. The data bank has also a user-friendly web-interface to visualize and update the image data.




-	'''Data bank of biological images and correlated data''' To store and manage the large amount of digital images produced has been developed a relational databank ([[ImagesDB]]) able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods. The data bank has also a user-friendly web-interface to visualize and update the image data.


-	[[Image:~~ImagesDB~~.jpg\|~~center~~\|~~200px~~\|~~images data bank~~]]	+	[[Image:actin_original.jpg\|right\|100px]] [[Image:actin_deconv.jpg\|right\|100px]]
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-	[[Image:~~actin_original~~.jpg\|200px]] [[Image:~~actin_deconv~~.jpg\|200px]]	+
		+
		+	[[Image:paths.jpg\|right\|200px\|overlay image and paths]]
		+
		+
		+	'''Cell motility tools''' A set of software tools for visualization and statistical evaluation of cellular movements from series of subsequent frames acquired manually or from automated video time-lapse microscopy, has been developed([[Cell Motility]]). These tools have been adapted and used to study the sub-cellular structures migration such as endocytosis vesicles, within the cytoplasm. The first result contribute to associate to different cell lines specific motion features; but a punctual analysis is also developed to study sub-cellular elements in order to make visible their different ability to move into the cytoplasm in response to distinct stimuli. The tools execute statistical analysis to measure the speed, the direction and the tortuosity of moving elements.
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		+	[[Image:IPROC.jpg\|right\|200px\|IPROC]]


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-	~~[[Image:IPROC.jpg\|center\|200px\|IPROC]]~~	+

Giovanni at 15:24, 20 June 2007

2007-06-20T15:24:40Z

←Older revision	Revision as of 15:24, 20 June 2007
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	+	{{footer reslines}}

Leandra at 14:14, 20 June 2007

2007-06-20T14:14:18Z

←Older revision		Revision as of 14:14, 20 June 2007
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-	The study of the cell motility takes advantage both of morphological investigations of fixed samples and functional ~~and~~ of ~~experimental systems allowing to follow~~ live cells in experimental conditions ~~close,~~ as soon as possible, to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules ~~or drugs,~~ at subsequent time steps.	+	Cell motility is a complex phenomenon, which may be explored in a variety of experimental situations, ranging from in vitro cultured cells to migration in whole embryos or in the adult animal. The study of the cell motility takes advantage both of morphological investigations of fixed samples, and of functional analysis of live cells using experimental conditions as soon as possible close to physiological ones. Timelapse-microscopy, in combination with fast optical sectioning techniques, allows to observe and analyze the movement in three dimensions of whole live cells, but also of their subcellular components and of specific molecules at subsequent time steps. By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix, has been evaluated.
-	~~Cell motility is a complex phenomenon, which may be explored in a variety of experimental situations, ranging from in vitro cultured cells to cell migration in whole embryos or in the adult animal~~. By applying video time lapse techniques to the study of live fibroblasts, the role of specific molecules such as oncogenes and components of the extracellular matrix has been evaluated. The ~~need for applying image processing techniques to~~ data acquired, ~~stimulated~~ the ~~development~~ of ~~a number~~ of ~~computational tools, including a system~~ for ~~centralized storage~~ of ~~experimental images~~, ~~and a~~ web based system to visualize and process multidimensional images~~. At~~ this ~~stage a statistical analysis~~ tool ~~and a restoration tool of digital image are two indipendent~~ components~~. They will be rapidly integrated~~ within ~~the~~ global web system.	+	The large number of images and correlated experimental data and results acquired in the time, required to integrate storage and management with the availability of each set of data for further analysis.
		+	In order to increase the visibility of some cell structures blurred by redundant fluorescence signal, it's often necessary to apply restoration filters. Deconvolution tool was developed to restore fluorescent acquired images.
		+	To execute statistical analysis of cell motility................
		+	A web based system able to visualize, analyse and process multidimensional images was also been developed; this tool, named IPROC will integrate all the components previously described, within one global web system.


-	'''~~Data bank of biological images and correlated data~~''' ~~To store~~ and ~~manage the large amount~~ of ~~digital images produced~~ has been developed ~~a relational databank~~ ([[~~ImagesDB~~]]) ~~able~~ to ~~connect to each acquisition~~ the ~~correlated experimental data~~ such as ~~cell line~~, ~~colture conditions and staining methods~~. The ~~data bank has also~~ a ~~user~~-~~friendly web-interface~~ to ~~visualize~~ and ~~update~~ the ~~image data~~.	+	'''Cell motility tools''' A set of software tools for visualization and statistical evaluation of cellular movements from series of subsequent frames acquired manually or from automated video time-lapse microscopy, has been developed. These tools ([[Cell Motility]]) have been adapted and used to study the sub-cellular structures migration such as endocytosis vesicles, within the cytoplasm.
		+	The first result contribute to associate to different cell lines specific motion features; but a punctual analysis is also developed to study sub-cellular elements in order to make visible their different ability to move into the cytoplasm in response to distinct stimuli. The tools execute statistical analysis to measure the speed, the direction and the tortuosity of moving elements.


-	[[Image:~~ImagesDB~~.jpg\|center\|200px\|~~images data bank~~]]	+	[[Image:paths.jpg\|center\|200px\|overlay image and paths]]


-	'''Cell motility tools.''' A set of software tools for visualization and statistical evaluation of cellular movements from series of subsequent frames acquired manually or from automated video time-lapse microscopy, has been developed. These tools ([[Cell Motility]]) have been adapted and used to study the sub-cellular structures migration such as endocytosis vesicles, within the cytoplasm.
-	The first result contribute to associate to different cell lines specific motion features; but a punctual analysis is also developed to study sub-cellular elements in order to make visible their different ability to move into the cytoplasm in response to distinct stimuli. The tools execute statistical analysis to measure the speed, the direction and the tortuosity of moving elements.


-	[[Image:~~paths~~.jpg\|center\|200px\|~~overlay image and paths~~]]	+	'''Data bank of biological images and correlated data''' To store and manage the large amount of digital images produced has been developed a relational databank ([[ImagesDB]]) able to connect to each acquisition the correlated experimental data such as cell line, colture conditions and staining methods. The data bank has also a user-friendly web-interface to visualize and update the image data.
		+
		+
		+	[[Image:ImagesDB.jpg\|center\|200px\|images data bank]]
		+