Abstract: A optical system and imaging device provide simultaneous or sequential optogenetic stimulation of different locations within a biological sample and fluorescence imaging of the locations. The systems include an illumination array with multiple electrically addressable elements that select a spatial pattern of illumination, an optical fiber bundle with fibers coupled between the array element and target locations at the sample, a fluorescence illumination source, and an imaging system for measuring fluorescence returning from the target locations. The optical imaging devices include a housing and a sample connector configured for receiving a first optical fiber bundle connection including multiple optical fibers. The sample connector has an indexing feature to maintain a fixed relationship between the fibers and internal optical paths of the device.

Abstract: A pumped fluorescent light source includes one or more mirrors that direct pumping light from one or more pump sources on a fluorescent body having a planar top surface and a convex back surface. The top surface may be coated with an anti-reflective coating and the back convex surface may be coated with a reflective coating to improve efficiency. The body top surface may also be roughened to scatter a portion of the excitation light provided from the mirror(s) to generate a white output beam. The mirror(s) have reflective surfaces disposed outside of a collection area of an output beam of the light sources, so that the collection area is not obstructed by the mirror(s). The light source also includes a collecting lens for collecting the light emitted by the body. The mirror may be a single parabolic mirror that focuses the excitation light on the body to stimulate emission.

Abstract: A pumped fluorescent light source includes one or more mirrors that direct pumping light from one or more pump sources on a fluorescent body having a planar top surface and a convex back surface. The top surface may be coated with an anti-reflective coating and the back convex surface may be coated with a reflective coating to improve efficiency. The body top surface may also be roughened to scatter a portion of the excitation light provided from the mirror(s) to generate a white output beam. The mirror(s) have reflective surfaces disposed outside of a collection area of an output beam of the light sources, so that the collection area is not obstructed by the mirror(s). The light source also includes a collecting lens for collecting the light emitted by the body. The mirror may be a single parabolic mirror that focuses the excitation light on the body to stimulate emission.

Abstract: A pumped fluorescent light source includes a parabolic mirror that is positioned to focus pumping light from one or more pump sources on a fluorescent body. The resulting assembly provides for heat collection from a back surface of the light source for both the fluorescent body and the pumping sources in a compact package that may be hermetically sealed. The parabolic mirror has reflective surfaces disposed outside of a collection area of an output beam of the light sources, so that the collection area is not obstructed by the parabolic mirror. The light source also includes a collecting lens for collecting the light emitted by the body. The parabolic mirror focuses the stimulus light on the fluorescent body to stimulate emission. An additional parabolic mirror may be included behind the fluorescent body to focus the fluorescent emissions that do not directly enter the collection area at a point of collection.

Abstract: A miniaturized microscope having a tunable focal length provides for fluorescence measurements at an adjustable focus, providing for autofocus and/or depth adjustment of an image measurement without altering or adjusting a probe implanted in a sample and while providing collimated illumination of an area within the sample. The microscope includes an objective lens having a fixed position with respect to a second connector for receiving light returning from the sample and focusing it on an image sensor within the microscope that generates an image output, a beamsplitter for separating light returning from the sample, and an electrically-tunable lens positioned between the objective lens and the image sensor for adjusting an optical path length from the optical interface to the image sensor. The illumination is focused at or near a back focal plane of the objective lens to the sample, providing collimated or quasi-collimated illumination on or within the sample.

Abstract: A pumped fluorescent light source includes a parabolic mirror that is positioned to focus pumping light from one or more pump sources on a fluorescent body. The resulting assembly provides for heat collection from a back surface of the light source for both the fluorescent body and the pumping sources in a compact package that may be hermetically sealed. The parabolic mirror has reflective surfaces disposed outside of a collection area of an output beam of the light sources, so that the collection area is not obstructed by the parabolic mirror. The light source also includes a collecting lens for collecting the light emitted by the body. The parabolic mirror focuses the stimulus light on the fluorescent body to stimulate emission. An additional parabolic mirror may be included behind the fluorescent body to focus the fluorescent emissions that do not directly enter the collection area at a point of collection.

Abstract: A pumped fluorescent light source includes a parabolic mirror that is positioned to focus pumping light from one or more pump sources on a fluorescent body. The resulting assembly provides for heat collection from a back surface of the light source for both the fluorescent body and the pumping sources in a compact package that may be hermetically sealed. The parabolic mirror has reflective surfaces disposed outside of a collection area of an output beam of the light sources, so that the collection area is not obstructed by the parabolic mirror. The light source also includes a collecting lens for collecting the light emitted by the body. The parabolic mirror focuses the stimulus light on the fluorescent body to stimulate emission. An additional parabolic mirror may be included behind the fluorescent body to focus the fluorescent emissions that do not directly enter the collection area at a point of collection.

Abstract: A pumped fluorescent light source includes a parabolic mirror that is positioned to focus pumping light from one or more pump sources on a fluorescent body. The resulting assembly provides for heat collection from a back surface of the light source for both the fluorescent body and the pumping sources in a compact package that may be hermetically sealed. The parabolic mirror has reflective surfaces disposed outside of a collection area of an output beam of the light sources, so that the collection area is not obstructed by the parabolic mirror. The light source also includes a collecting lens for collecting the light emitted by the body. The parabolic mirror focuses the stimulus light on the fluorescent body to stimulate emission. An additional parabolic mirror may be included behind the fluorescent body to focus the fluorescent emissions that do not directly enter the collection area at a point of collection.

Abstract: An optical cannula configured for implantation in biological tissue or other samples provides minimal invasiveness while accessing image deep structures within the sample. The cannula has a stabilizer portion that is used to affix the cannula to the sample, and an extension portion that protrudes into the sample and is either formed by, or contains, an optical probe that images a target area within the sample to an object image provided to an external optical device. The cannula has an integrated coupler portion that detachably connects to a connector of the external device, providing removable and interchangeable connection to external optical systems.

Abstract: A high-radiance broadband incoherent light source is provided by pumping a body formed from a doped material, such as a Ce:YAG crystal with one or more laser diodes. The laser diodes emit at a stimulus wavelength, which may be an absorption wavelength of the body, and the body fluoresces to emit broadband light in a wide emission band. The body is either disposed in, or forms a light-concentrating cavity, e.g., reflective surfaces, which may be dichroic surfaces, can be formed on or attached to the sides of the body to concentrate the emitted light. The light is captured by a light collector that is coupled to an output face of the body to produce a broadband illumination beam. One or more of the reflective surfaces forming the light-concentrating cavity may form a heat sink.

Abstract: A miniaturized microscope having a tunable focal length provides for fluorescence measurements at an adjustable focus, providing for autofocus and/or depth adjustment of an image measurement without altering or adjusting a probe implanted in a sample and while providing collimated illumination of an area within the sample. The microscope includes an objective lens having a fixed position with respect to a second connector for receiving light returning from the sample and focusing it on an image sensor within the microscope that generates an image output, a beamsplitter for separating light returning from the sample, and an electrically-tunable lens positioned between the objective lens and the image sensor for adjusting an optical path length from the optical interface to the image sensor. The illumination is focused at or near a back focal plane of the objective lens to the sample, providing collimated or quasi-collimated illumination on or within the sample.

Abstract: A miniaturized microscope provides the combined capability for simultaneous or sequential fluorescence imaging at two different wavelengths and/or at two different object planes within a sample to which a cannula is attached. The microscope includes an illumination input connector for connecting one or more illumination sources, a connector for connecting the microscope to the cannula, a pair of optical image sensors for imaging the two different object planes and/or wavelengths and a pair of optical splitters: one for separating the illumination from light returning from the sample and the other for splitting the light returning from the sample into two images and providing the two images to their corresponding image sensor.

Abstract: A miniaturized microscope provides the combined capability for simultaneous or sequential optogenetic stimulation of light sensitive ion channels with the capability for fluorescence imaging of fluorescent proteins for applications requiring simultaneous optical stimulation and monitoring of cell activity. The microscope includes a dual illumination output coupling for providing illumination to two different regions within the sample and/or two different illumination source inputs and a dual transmission band optical filter to clean two different bands of light that are separately available for optogenetic stimulation and fluorescence imaging.

Abstract: A miniaturized microscope provides the combined capability for simultaneous or sequential optogenetic stimulation of light sensitive ion channels with the capability for fluorescence imaging of fluorescent proteins for applications requiring simultaneous optical stimulation and monitoring of cell activity. The microscope includes a dual illumination output coupling for providing illumination to two different regions within the sample and/or two different illumination source inputs and a dual transmission band optical filter to clean two different bands of light that are separately available for optogenetic stimulation and fluorescence imaging.

Abstract: A miniaturized microscope provides the combined capability for simultaneous or sequential fluorescence imaging at two different wavelengths and/or at two different object planes within a sample to which a cannula is attached. The microscope includes an illumination input connector for connecting one or more illumination sources, a connector for connecting the microscope to the cannula, a pair of optical image sensors for imaging the two different object planes and/or wavelengths and a pair of optical splitters: one for separating the illumination from light returning from the sample and the other for splitting the light returning from the sample into two images and providing the two images to their corresponding image sensor.

Abstract: A high-radiance broadband incoherent light source is provided by pumping a body formed from a doped material, such as a Ce:YAG crystal with one or more laser diodes. The laser diodes emit at a stimulus wavelength, which may be an absorption wavelength of the body, and the body fluoresces to emit broadband light in a wide emission band. The body is either disposed in, or forms a light-concentrating cavity, e.g., reflective surfaces, which may be dichroic surfaces, can be formed on or attached to the sides of the body to concentrate the emitted light. The light is captured by a light collector that is coupled to an output face of the body to produce a broadband illumination beam. One or more of the reflective surfaces forming the light-concentrating cavity may form a heat sink.

Abstract: An optical cannula configured for implantation in biological tissue or other samples provides minimal invasiveness while accessing image deep structures within the sample. The cannula has a stabilizer portion that is used to affix the cannula to the sample, and an extension portion that protrudes into the sample and is either formed by, or contains, an optical probe that images a target area within the sample to an object image provided to an external optical device. The cannula has an integrated coupler portion that detachably connects to a connector of the external device, providing removable and interchangeable connection to external optical systems.

Abstract: A hybrid rotary joint provides both optical and fluid channels for applications such as optogenetic research. The rotary joint has a stationary component and a rotating component. The optical channel and fluid channel permit simultaneous and rotation-insensitive passage of light and fluid from the stationary to the rotating side of the hybrid rotary joint. The input to the optical channel is provided via an input optical fiber and the input to the fluid channel is fluid from a fluid source. The outputs are an optical fiber output and a fluid channel output. As light passes from the stationary side to the rotating side of the hybrid rotary joint, it is deflected off a beam deflector having an angular orientation that is passively aligned and made independent of the angular orientation of the rotating component via the interaction between magnets attached to each of the beam deflector and the stationary component.

Abstract: A dual optical path rotary joint provides a low friction coupling of optical fiber connections for optogenetic research and other applications. Two optical paths are provided through the rotary joint which are rotation-insensitive. The ends of the rotary joint rotate with respect to a common housing, which may be provided with ball-bearings or other suitable low-friction rotational mounts in which a first rotating component and a second rotating component are secured. The first and second rotating components are not mechanically linked in rotation, and their rotation is only synchronized by magnets disposed on the first rotating component and the second rotating component. A pair of optical fibers is coupled to the first rotating component and another pair of optical fiber is coupled to the second rotating component. A pair of isolated optical paths links the pairs of fibers, which are directed between the first and second rotating components by reflection.

Abstract: A dual optical path rotary joint provides a low friction coupling of optical fiber connections for optogenetic research and other applications. Two optical paths are provided through the rotary joint which are rotation-insensitive. The ends of the rotary joint rotate with respect to a common housing, which may be provided with ball-bearings or other suitable low-friction rotational mounts in which a first rotating component and a second rotating component are secured. The first and second rotating components are not mechanically linked in rotation, and their rotation is only synchronized by magnets disposed on the first rotating component and the second rotating component. A pair of optical fibers is coupled to the first rotating component and another pair of optical fiber is coupled to the second rotating component. A pair of isolated optical paths links the pairs of fibers, which are directed between the first and second rotating components by reflection.