Laser microdissection apparatus and method

Description of equivalent WO 2006031574 A2

LASER MICRODISSECTION APPARATUS AND METHOD

CROSS-REFERENCE TO RELATED APPLICATIONS

0003[0001] This application claims priority to U.S. Provisional ApplicationjSerial No.

000460/608,353, entitled "Laser microdissection apparatus and method," filed on September 9, 2004; U.S. Provisional Application Serial No. 60/608,351, entitled "Method and apparatus for laser microdissection with polymer film," filed on September 9, 2004; and U.S. Provisional Application Serial No. 60/608,352, entitled "Method and apparatus for laser microdissection with inverted polymer film," filed on September 9, 2004; all of which are incorporated herein by reference in their entirety.

FIELD OF THE INVENTION

0006[0002] The invention relates generally to the field of laser microdissection. More particularly, the invention relates to microdissecting targeted regions of biological material from a tissue sample.

BACKGROUND

0008[0003] Tissue biopsies are frequently obtained for diagnostic and therapeutic purposes.

0009Typically a tissue biopsy sample consists of a 5 to 10 micron slice of tissue that is placed on a glass microscope slide using techniques well known in the field of pathology. The tissue sample will typically consist of a variety of different types of cells. Often a pathologist will desire to remove only a small portion of the tissue for further analysis. Before the advent of laser microdissection, pathologists would have to resort to various time-consuming and imprecise microdissection techniques to obtain a sample of the desired region of a biopsy. Laser microdissection provides a simple method for the procurement of selected human cells from a heterogeneous population contained on a typical histopathology biopsy slide. The laser microdissection technique is generally described in the published article: Laser Capture Microdissection, Science, Volume 274, Number 5289, Issue 8, pp 998-1001, published in 1996, incorporated herein by reference, and in the following U.S. Patents: 5,859,699; 5,985,085; 6,184,973; 6,157,446; 6,215,550; 6,459,779; 6,495,195; 6,512,576; 6,528,248 all herein incorporated by reference in their entirety. [0004] Laser microdissection systems generally comprise an inverted microscope fitted with a laser. Tissue samples are mounted, typically on a standard glass slide, and a transparent thermoplastic transfer film is placed over the dry section. This film is often manufactured containing organic dyes that are chosen to selectively absorb in the near infrared region of the spectrum overlapping the emission region of common AlGaAs laser diodes. When the film is exposed to the focused laser beam the exposed region is heated by the laser and melts, adhering to the tissue in the region that was exposed.

0010[0005] The laser melts the film in precise locations which serves to bind the film to a targeted cell or cells. Individual cells or clusters of cells can be targeted by the laser, depending on the diameter of light emitted from the laser. Heat generated by the laser is dissipated by the film, thus limiting the damage done to the targeted cells and the components therein. After the targeted cells are bound to the film, they are removed from the sample. The targeted cells are then extracted for further analysis. The transfer film can be mounted on a transparent cap that fits on a microcentrifuge tube to facilitate extraction.

0011[0006] The following invention is a new method and apparatus for laser microdissection that solves a number of problems of conventional laser microdissection and provides the ability to capture moisture-containing samples including live cells from cell cultures. As a practical example, this method allows for colonies of cells grown in slightly modified microtiter plates to be culled using a modified laser microdissection process.

BRIEF DESCRIPTION OF THE DRAWINGS

0013[0007] Figure 1 illustrates a perspective view of an automated laser microdissection device.

0014[0008] Figure 2 illustrates a top level block diagram of the components of an automated laser microdissection device.

0015[0009] Figure 3a illustrates a side elevation view of a transfer film carrier spaced from a tissue sample.

0016[0010] Figure 3b illustrates a side elevation view of a transfer film carrier in contact with a tissue sample.

0017[0011] Figure 3c illustrates a side elevation view of a transfer film carrier with standoffs in juxtaposition with a tissue sample. [0012] Figure 4a illustrates a top planar view of a biological sample with targeted portions encompassed by traces.

0018[0013] Figure 4b illustrates a top planar view of a biological sample with targeted portions encompassed by cut paths.

0019[0014] Figure 4c illustrates a top planar view of a biological sample with targeted portions encompassed by cut paths that are interspersed with bridges.

0020[0015] Figure 5a illustrates a top planar view of a biological sample with infrared laser shots located interior of the cut paths.

0021[0016] Figure 5b illustrates a top planar view of a biological sample with infrared laser shots located in between the bridges.

0022[0017] Figure 5c illustrates a top planar view of a biological sample with an infrared laser path that is curved across the interior of a cut path.

0023[0018] Figure 6 illustrates a top planar view of a biological sample with targeted portions of biological material removed.

0024[0019] Figure 7 illustrates a side elevation view of a transfer film carrier with targeted portions adhered thereto and separated from the remaining tissue sample.

0025[0020] Figure 8a illustrates a side elevation view of a transfer film carrier spaced from a tissue sample.

0026[0021] Figure 8b illustrates a side elevation view of a transfer film carrier in contact with a tissue sample.

0027[0022] Figure 8c illustrates a side elevation view of a transfer film carrier with standoffs in juxtaposition with a tissue sample.

0028[0023] Figure 9a illustrates a top planar view of a biological sample with targeted portions encompassed by traces.

0029[0024] Figure 9b illustrates a top planar view of a biological sample with targeted portions encompassed by cut paths.

0030[0025] Figure 9c illustrates a top planar view of a biological sample with targeted portions encompassed by cut paths that are interspersed with bridges.

0031[0026] Figure 1 Oa illustrates a top planar view of a biological sample with infrared laser shots located interior of the cut paths. [0027] Figure 10b illustrates a top planar view of a biological sample with infrared laser shots located in between the bridges.

0032[0028] Figure 10c illustrates a top planar view of a biological sample with an infrared laser path that is curved across the interior of a cut path.

0033[0029] Figure 11 illustrates a top planar view of a biological sample with targeted portions of biological material removed.

0034[0030] Figure 12 illustrates a side elevation view of a transfer film carrier with targeted portions adhered thereto and separated from the remaining tissue sample.

0035[0031 ] Figure 13a illustrates a side elevation view of a tissue sample mounted on a polymer membrane connected to a frame.

0036[0032] Figure 13b illustrates a side elevation view of a tissue sample mounted on a polymer membrane connected to a frame and inverted onto a substrate.

0037[0033] Figure 13c illustrates a side elevation view of a tissue sample mounted on a polymer membrane and inverted onto a substrate with the polymer membrane being adhered to the substrate.

0038[0034] Figure 13d illustrates a side elevation view of a transfer film carrier in contact with a membrane.

0039[0035] Figure 13e illustrates a side elevation view of a transfer film carrier with standoffs in juxtaposition with the substrate.

0040[0036] Figure 14a illustrates a top planar sectional view of a membrane and biological sample with targeted portions encompassed by traces.

0041[0037] Figure 14b illustrates a top planar sectional view of a membrane and biological sample with targeted portions encompassed by cut paths.

0042[0038] Figure 14c illustrates a top planar view of a membrane and biological sample with targeted portions encompassed by cut paths that are interspersed with bridges.

0043[0039] Figure 15a illustrates a top planar sectional view of a membrane and biological sample with infrared laser shots located interior of the cut paths.

0044[0040] Figure 15b illustrates a top planar sectional view of a membrane and biological sample with infrared laser shots located in between the bridges.

0045[0041] Figure 15c illustrates a top planar sectional view of a membrane and biological sample with an infrared laser path that is curved across the interior of a cut path. [0042] Figure 16 illustrates a top planar sectional view of a membrane and biological sample with targeted portions of biological material removed.

0046[0043] Figure 17 illustrates a side elevation view of a transfer film carrier with targeted portions adhered thereto and separated from the remaining tissue sample.

0047[0044] While the invention is susceptible to various modifications and alternative forms, specific variations have been shown by way of example in the drawings and will be described herein. However, it should be understood that the invention is not limited to the particular forms disclosed. Rather, the invention is to cover all modifications, equivalents, and alternatives falling within the spirit and scope of the invention as defined by the appended claims.

DESCRIPTION OF THE INVENTION

0049[0045] The invention and the various features and advantageous details thereof are explained more fully with reference to the nonlimiting embodiments that are illustrated in the accompanying drawings and detailed in the following description. Descriptions of well known components and processing techniques are omitted so as not to unnecessarily obscure the invention in detail.

0050[0046] The entire contents of U.S. Patent No. 6,469,779 filed February 4, 1998, entitled

0051"Laser Capture Microdissection Device"; U.S. Patent No. 5,859,699, filed February 7, 1997; U.S. Patent No. 6,495,195, filed February 14, 1997; U.S. Patent No. 5,985,085, filed December 4, 1997; and U.S. Patent No. 6,690,470 filed November 6, 2000; U.S. Patent Publication No. 2002-0090122 published July 11, 2002; and PCT Publication WO 2004/025569 are hereby expressly incorporated by reference into the present application as if fully set forth herein. [0047] A laser microdissection device operates to carry out the following general steps.

0052A tissue or smear fixed on a standard microscope slide by routine protocols is introduced into a laser microdissection instrument. A transfer film is provided which is typically affixed to a solid substrate forming a carrier. The carrier can be of any shape. One shape for the carrier is a cap for conveniently introducing a sample into a vessel, such as a microcentrifuge tube, and sealing the vessel. The words "cap" and "carrier" are used interchangeably and it is understood by one skilled in the art that the carrier can be of any shape even where the term "cap" is employed. [0048] The tissue sample mounted on a substrate surface is placed adjacent a transfer film carrier cap which further ensures that transfer film stays out of contact with the tissue at this stage. Alternatively, the transfer film carrier can be brought into contact with the tissue. Upon visualizing the tissue by a microscope, a user may select a region for microdissection. The selected section of the tissue is captured by pulsing at least one region of the transfer film with a low power infrared laser which activates the transfer film which then expands down into contact with the tissue. The at least one activated region of the transfer film adheres to the at least one identified portion of desired cell(s) of the tissue sample. Microdissection is completed by lifting the transfer film carrier, with the desired cell(s) attached to the film surface while the surrounding tissue remains intact. Extraction and subsequent molecular analysis of the cell contents, DNA, RNA or protein, are then carried out by standard methods. [0049] Laser microdissection employs a polymer transfer film that is placed on top of the tissue sample. The transfer film may or may not contact the tissue sample. This transfer film is typically a thermoplastic manufactured containing organic dyes that are chosen to selectively absorb in the near infrared region of the spectrum overlapping the emission region of common AlGaAs infrared laser diodes. When the film is exposed to the focused laser beam the exposed region is heated by the laser and melts, adhering to the tissue in the region that was exposed. The film is then lifted from the tissue and the selected portion of the tissue is removed with the film. Thermoplastic transfer films such as a 100 micron thick ethyl vinyl acetate (EVA) film available from Electroseal Corporation of Pompton Lakes, New Jersey (type E540) have been used in LCM applications. The film is chosen due to its low melting point of about 90° C. [0050] A laser microdissection instrument 10 generally comprises a microscope 12, an infra-red (IR) laser source 14, an ultra-violet (UV) laser source 16, and a computer 18 as shown in FIG. 1. The IR laser source 14 and the UV laser source 16 are connected to the microscope 12 and the microscope 12 is connected to the computer 18. The instrument 10 may also include a fluorescence system 20. The computer 18 receives input and controls the operation of the microscope 12 lasers 14, 16 and fluorescence system 20.

0053[0051] The microscope 12 includes an arm 22, an illumination system 24, a translation stage 26, a handling system 28 and an optical system 30 as shown in FIG. 2. The microscope arm 22 serves as a frame for carrying the components of the microscope. The illumination system 24 comprises a white light illuminator 32 such as a condenser lamp mounted on the arm. The illumination system 24, translation stage 26 and optical system 30 are arranged in an inverted transmitted-light microscope fashion such that the illumination system is arranged above the translation stage and at least one objective is arranged below the translation stage. [0052] The translation stage 26 is also mounted on the microscope arm 22 and is adapted for receiving one or more specimens and transmitting light therethrough. A vacuum chuck may also be included to secure the specimen mounted on a specimen holder in position. The translation stage is automatically or manually movable in all directions, in particular, the planar X-Y directions. The automated translation stage includes a lateral translation motor 34 and a fore-and-aft translation motor 36 to allow complete manipulation in the X-Y plane. The motors are controlled by a controller 38 connected to the computer which receives input such as via a mouse cursor. A mouse cursor can be used by an operator to trace a path on a visual display unit depicting a live or static image of the specimen to effect movement of the translation stage. A sophisticated road-map imaging system for navigating the specimen is described in U.S. Patent Publication No. 2002-0090122 which is incorporated herein by reference in its entirety. The translation stage provides a worksurface for handling multiple tissue samples simultaneously. The worksurface also includes a staging area 40, an output station 42 and a quality control station.

0054[0053] The handling system 28 is connected to the translation stage and comprises a lift fork 46. The lift fork 46 is moved in and out of the work surface by a translation motor 44 and a lift motor 48 operates to move the lift fork vertically. The lift fork is adapted to pick a carrier located at a staging or supply area of the translation stage and place the carrier in juxtaposition with the tissue specimen. When microdissection is completed, the lift fork is adapted to pick the carrier from juxtaposition with the specimen and place it in the output station where the carrier may further cap an analysis vessel. The handling system also includes a visualizer filter 50. The visualizer filter is a piece of diffuser glass positioned above tissue sample. The light from above is diffused by the visualizer filter illuminating the sample from all angles. The visualizer filter can be moved in and out of position and is located on the lift fork. The automated handling system is described in detail in U.S. Patent No. 6,690,470 to Baer et al. and is incorporated herein by reference in its entirety.

0055[0054] The optical system 30 of the microscope includes several optical elements known to a person skilled in the art to make a microscope and laser microdissection instrument operate properly. These elements mounted on the microscope arm are combined to create an optical train of optical elements for pathing light. The optical system includes but is not limited to the following optical elements: mirror(s), dichroic mirror(s), lens(es), objective, beam-diameter adjuster, cut-off filter, diffuser, condenser, eyepiece and image acquisition system such as a camera.

0056[0055] The optical system together with its optical elements are arranged such that white light from the illumination system passes down toward the translation stage. The white light passes a condenser (not shown), dichroic mirror 52 and a focusing lens 54. The white light passes through the translation stage along a primary optical axis 56 and enters an objective 58 located beneath the translation stage 26. White light from the objective is then reflected by one or more mirrors to an eyepiece (not shown) and/or an image acquisition system 62. The live image captured by the image acquisition system is transmitted to the computer and displayed on a visual display unit 64. Static images may also be taken by the image acquisition system. A cut-off filter is typically located between the objective and the image acquisition system or eyepiece. A diffuser and a beam diameter adjuster (not shown) may also be incorporated in the optical train and located between the dichroic mirror and the translation stage. A series of microscope objectives may be selectably deployed from an objective turret wheel 66 which is controlled by an objective wheel motor 68 while a second objective focus motor 70 operates to adjust the foci of objectives which have been positioned. One skilled in the art will understand that the optical elements may be arranged in various ways for optimum performance. [0056] Connected to the microscope is an infrared (IR) laser source 14. The IR laser source is typically a AlGaAs laser diode having a wavelength of approximately 810 nanometers. The thermoelectric cooled laser diode with collimating optics emits a beam of IR laser light that is incident upon the dichroic mirror 52. The infrared laser beam enters the optical train at the dichroic mirror and is reflected downward through the focusing lens 54 and/or beam diameter adjuster toward the translation stage. Simultaneously, the dichroic mirror allows white light from the illumination system to also pass toward the translation stage resulting in the IR laser beam and the white light illumination being superimposed along the primary optical axis 56. A laser focus motor 72 which is connected to the controller 38 and computer 18 operates to control the focusing lens and adjust the IR laser beam spot size. The computer also delivers signals to the laser via the controller to initiate IR laser pulses, adjust beam size and control IR laser power. [0057] The IR laser operates in two modes, idle mode and pulse mode. In idle mode, the

0057IR laser beam path provides a visible low amplitude signal that can be detected via the image acquisition system when a visual alignment of the laser spot with a portion of tissue is desired. In pulse mode, the IR laser beam path delivers energy for microdissection and the optical characteristics of a cut-off filter attenuate the IR laser beam path sufficiently such that substantially none of the energy from the IR laser beam exits through the microscope. [0058] Suitable laser pulse widths are from 0 to approximately 1 second, preferably from

00580 to approximately 100 milliseconds, more preferably approximately 50 milliseconds, hi one variation, the spot size of the laser at the transfer film is variable from 0.1 to 100 microns, from 1 to 60 microns, or from 5 to 30 microns. From the standpoint of the clinical operator, the widest spot size range is the most versatile. A lower end point in the spot size range on the order of 5 microns is useful for transferring single cells.

0059[0059] Suitable lasers can be selected from a wide power range. For example, a 100 watt laser can be used. On the other hand, a 50 mW laser can be used. The laser can be connected to the rest of the optical subsystem with a fiber optical coupling. Smaller spot sizes are obtainable using diffraction limited laser diodes and/or single mode fiber optics. Single mode fiber allows a diffraction limited beam.

0060[0060] While the laser diode can be run in a standard mode such as TEM_0O, other intensity profiles can be used for different types of applications. Further, the beam diameter could be changed with a stepped lens (not shown) placed in the lens assembly. Changing the beam diameter permits the size of the portion of the transfer film that is activated to be adjusted. Given a tightly focused initial condition, the beam size can be increased by defocusing. Given a defocused initial condition, the beam size can be decreased by focusing. The change in focus can be in fixed amounts. Furthermore, the change in focus can be obtained by means of indents on a movable lens mounting and/or by means of optical glass steps. In any event, increasing or decreasing the optical path length is the effect that is needed to alter the focus of the beam, thereby altering the spot size. For example, inserting a stepped glass prism into the beam so the beam strikes one step tread will change the optical path length and alter the spot size. [0061] Also, connected to the microscope is an ultraviolet (UV) laser source 16. The

0061UV laser source emits a beam of laser light that is incident upon the same or other dichroic mirror 52. The UV laser light enters the optical train at the dichroic mirror and is reflected downward through the focusing lens and/or beam diameter adjuster toward the translation stage. Simultaneously, the dichroic mirror allows white light from the illumination system to also pass toward the translation stage resulting in the UV laser beam and the white light illumination being superimposed along the primary optical axis. Alternatively, the UV laser can be positioned beneath the translation stage and directed through the objective along the primary axis and toward the specimen resting on the translation stage. The laser focus motor 72, which is connected to the controller and computer, operates to control the focusing lens and adjust the UV laser beam spot size. The computer also delivers signals to the UV laser via the controller to initiate UV laser pulses, change beam diameter and control UV laser power. UV laser pulse widths and beam diameter can be changed in the same manner as described above with respect to the IR laser source.

0062[0062] Another component connected to the microscope is a fluorescence system 20.

0063The fluorescence system is adapted for automated selection of cells or specific regions of a sample for microdissection using fluorescently-stained tissue samples. In image analysis, the fluorescently-labeled tissue is placed in a microdissection instrument and with the fluorescent system, the cells are detected through an analysis of the image formed by the microscope. Image analysis is known in the art and is also described in detail in WO 2004/025569 which is herein incorporated by reference in its entirety.

0064[0063] The fluorescence system 20 includes a fluorescence excitation light source, for example, a xenon or mercury lamp 74, which emits a specific wavelength or wavelength range. The specific wavelength or wavelength range of a beam emitted by the light source is selected by a fluorescence filter wheel 76 operated by a fluorescence filter changer motor, to excite a fluorescent system (chemical markers and optical filtering techniques that are known in the industry) that is incorporated in or applied to the sample to be microdissected. The wavelength range transmitted from the excitation light source can be selected. The sample includes at least one member selected from the group consisting of chromophores and fluorescent dyes (synthetic or organic), and the process of operating the instrument includes identifying at least a portion of the sample with light that excites at least one member, before the step of transferring a portion of the sample to the laser microdissection transfer film. The fluorescent laser beam can be made coincident or coaxial with both the IR/UV laser beam path and the white light from illuminator path. Fluorescence emitted by the sample is amplified by an objective changer 66, reflected by a camera changer mirror and captured for live viewing by the acquisition system which comprises a camera. An objective changer motor and a focus motor operate to adjust the fluorescent laser beam and the emitted fluorescent beam. Optionally the objective changer may be implemented in the form of a wheel to accommodate a multiplicity of objectives (five objectives, as depicted) for providing different amplifications of the fluorescent image for the cameras. A more detailed exposition of automated fluorescent laser microdissection is found in U.S. Patent No. 6,690,470 which is incorporated herein by reference in its entirety.

METHOD 1

0066[0064] With reference also to FIG. 3, a sample 80 of biological material to be microdissected is applied to a substrate 82 such as a glass slide using routine protocols. The substrate with the sample affixed thereto is inserted into the laser microdissection instrument and positioned in the optical axis 56.

0067[0065] The handling system 28 is used to bring a carrier 84 with a transfer film 86 affixed to its surface also into the optical axis 56 and in juxtaposition to the sample. The carrier is placed in contact with the sample such that the transfer film contacts the biological material substantially across the entirety of the transfer film surface as shown in FIG. 3b. Alternatively, as shown in FIG. 3 c, the carrier is formed with standoffs 88 such that a substantial portion of the transfer film 86 does not contact the biological material 80 but remains spaced a distance 90 from the sample 80. Standoffs are described in U.S. Patent Application Serial No. 08/984,979 which is herein incorporated by reference in its entirety. Standoffs are structural features that protrude from the surface of the carrier on the side of the transfer film to provide a spacing between the transfer film and the sample in order to avoid transfer of unwanted friable biological material that would otherwise adhere to the transfer film due to electrostatic forces and the like. [0066] With the sample in the optical axis, the illumination system 24 is activated shedding light on the sample. The white light penetrating the sample arrives at the objective and is directed to the acquisition system and/or eyepiece. A live image that is captured by the acquisition system is displayed on the computer monitor. Also, a static image of relatively lower magnification is captured so as to provide a roadmap image for navigating the sample space. The two images are displayed side-by-side to locate the user on the sample space map and simultaneously provide a display of the local sample space having a relatively larger magnification. The operator inspects the sample by moving the translation stage via computer

0068I l inputs, controllers and appropriate software. For example, navigation of the sample space is accomplished by tracing a path on the displayed monitor image using an input cursor via a mouse, joystick or other input means.

0069[0067] Referring now to FIG. 4, a targeted portion 92 of biological material 94 is identified either manually by the operator or automatically employing software for algorithmic identification of regions of interest. Typically, fluorescent systems are employed for assisting the automated identification of targeted portions of biological material. Manually, the user can trace a targeted portion 92 of biological material viewed on the display monitor by moving a mouse cursor. Each trace 96 defines an interior 98 and an exterior 100. The interior 98 includes the targeted portion(s) and the exterior 100 of the trace includes non-targeted biological material. One or more targeted portions of biological material can be traced and the trace can be of any shape and size as shown in FIG. 4a.

0070[0068] The trace defines a cut line for the UV laser source. After all of the targeted portions 92 have been traced the user is prompted by the computer to commence cutting the traces with the UV laser source. The user may select whether each of the traces are to be closed or substantially closed paths for the UV laser. If the user selects closed paths, the UV laser source is automatically directed and activated to cut along the traces at a predefined cut width 102 forming a cut path 101 as shown in FIG. 4b. If the user selects a substantially closed path, at least one bridge 104 spanning from the interior 98 to the exterior 100 will be formed such that the interior 98 is joined to the surrounding exterior 100 biological material at the location of the bridge 104 as shown in FIG. 4c. The cut path 101 is interspersed with bridges 104 formed when the UV laser beam is temporarily de-activated while moving along a trace. The bridge width 108 can be selected by the user or predetermined by controlling software. Bridge locations may be user-defined by clicking with the mouse cursor along the trace at locations where bridges are desired as shown by the "x" in FIG. 4a. The user thereby manually selects any number and location of the bridges. Alternatively, the computer may automatically form a predefined number of bridges. The UV laser is activated and the biological material is eroded along the cut path but at bridge locations, biological material remains intact.

0071[0069] During the cutting operation of the UV laser, the laser beam remains stationary and the translation stage serves as a cut line control unit and generates, during the cutting operation, a relative movement between the laser beam and the sample. Alternatively, the cut line control unit comprises a laser scanning device which moves the laser beam relative to the stationary sample during cutting. In such an operation, the translation stage with the sample is not displaced during cutting but remains fixed in the optical axis. The cut line results exclusively from deflection of the laser beam over the sample.

0072[0070] Typically, after the UV laser has cut the biological material along one or more of the trace paths 96, the IR laser is directed at the one or more interiors 98 of the trace paths 96. The IR laser 14 is fired or pulsed at an interior 98 to activate the transfer film layer in the location of the interior which then adheres to the interior portion of the biological material. If a carrier with standoffs is being employed, the activated transfer film bridges the distance 90 of the standoffs 88 to contact and adhere to the interior of biological material. An IR laser pulse showing a location of adhesion to the interior of biological material is shown as a circle 106 in FIG. 5a.

0073[0071] The IR laser can be fired once to create a single area of adhesion or the IR laser can be fired more than once to create more than one area of adhesion on any one interior portion of biological material. The single IR laser shot can be directed in the center of the interior. In another variation, the IR laser shot can be directed at the interior of the trace but at a portion of the interior that was not targeted as desirable biological material as shown in FIG. 5 a. In essence, if there is a portion of the interior which contains biological material that is not considered to be a choice selection or otherwise not targeted as desirable, the IR laser can be strategically directed at such a location to advantageously avoid raising the temperature of desired biological material in the area of the IR laser shot which would result from localized heating. If bridges are left by the UV laser trace, IR laser shots shown as circles 106 on FIG. 5b can be directed in between the bridge locations so that such points of adhesion would assist in the breaking of the bridges when the carrier is lifted away. Also, the IR laser shots can be directed at or in the proximity of the bridge locations.

0074[0072] If the IR laser shots are delivered manually, a user can, for example, click with a mouse cursor at a location where the user desires an IR laser shot to be located. Also, the user may select the number of IR laser shots that are to be made by clicking with a mouse cursor more than once.

0075[0073] If the IR laser shots are delivered automatically, computer software is programmed by the user beforehand or determined automatically to carry out one or more IR laser shots in a uniform or non-uniform pattern of IR laser shots across the interior of a trace. Of course, a single IR laser shot as well as a strategically placed IR laser shot can also be carried out automatically by the computer.

0076[0074] Furthermore, the IR laser shot is not limited to being a single pulse to create a single point of adhesion. Alternatively, the IR laser can be fired with multiplicity or at duration to trace a IRpath llO of adhesion of any shape within the interior as shown in FIG. 5 c. The IR laser path of adhesion is carried out in the same manner as the UV laser path of cutting. Either the translation stage is moved to create a path or the IR laser beam is directed across the interior with the translation stage remaining stationary. Basically, the number of IR laser shots, the shape of the IR laser shots and their location are not limited and any number, pattern, location or shape of IR laser shots is within the scope of the invention. Furthermore, the IR laser shot or shots can be fired before the UV laser is activated to cut the biological material. [0075] The carrier with the transfer film will result in one or more areas of adhesion located in the one or more interiors of the UV laser cut paths. When the carrier is removed by lifting it vertically, the carrier with its attached transfer film and at least one adhered targeted portion of biological material is separated from the remaining layer of biological material. If bridges were formed, those bridges are mechanically broken upon lifting the carrier to free the adhered portions of targeted biological material. What remains is un-targeted biological material as shown in FIGs. 6 and 7. Being adhered to the transfer film, the targeted biological material is removed with the carrier and available for further processing.

METHOD 2

0078[0076] With reference also to FIG. 8, a sample 80 of biological material to be microdissected is applied to a membrane 81. The membrane 81 is typically a polymer membrane such as a polyester. The polymer membrane is thin enough to maximize the ability to capture small sections and also has enough physical integrity to be handled in the process. The membrane is selected to adhere to the transfer film in the activated region and break away from surrounding non-activated and non-selected regions. The membrane is transparent so that the tissue sample can be visualized through the membrane. Also, the membrane is selected to be compatible with the reagents used in fixing and staining biological tissue. Therefore, depending upon the selected membrane, staining protocols that may compromise lipid, carbohydrate, and other macromolecular targets are avoided. One material suitable for the membrane is polyethylene naphalate (PEN) having a thickness of approximately 1.0 to approximately 2.0 micrometers.

0079[0077] The membrane is typically carried by a frame 83. The frame 83 can be a framed- foil slide such as that described in WO2002/057746A2 which is incorporated herein by reference as if fully set forth herein. A framed-foil slide is simply a frame in the shape of a glass slide with a window such that the membrane is affixed to the frame with the membrane covering the window. A petrie dish with a membrane bottom and firm side walls (glass, metal or plastic) works well too. The small cavity formed by the side walls of the window of the framed slide or the petrie dish provides some depth for growing cells and adding growth medium. Various coatings such as poly-1-lysine and growth media can be added to the petrie dish or framed slide to assist in cell viability and growth. The petrie dish or framed slide can be covered with an appropriate top to provide for isolation.

0080[0078] The sample 80 of biological material can be prepared in all of the standard means including sectioning by microtome, smears and cytospins. The sample can also be prepared by growing cells onto the polymer film in order to harvest live cells. The tissue or cells are attached directly to the membrane layer. Tissue preparation protocols that result in strong adhesion to the polymer membrane and which allow for the microdissection of hydrated samples and live cell samples are used. Tissue preparation protocols are followed in order to assure that the tissue adheres enough to survive the liquid processing, but that the adhesion is weak enough to allow microdissection to occur. If the capture of hydrated living cells is not desired, the tissue sample is typically exposed to ethanol with diminishing levels of water and finally exposed to xylene. [0079] The membrane 81 with the sample 80 mounted on its upper surface is placed in contact with a substrate 82 such that the lower surface of the membrane contacts the upper surface of the substrate as shown in FIG. 8a. The substrate is typically a glass slide. The substrate, membrane and sample are inserted into the laser microdissection instrument and positioned in the optical axis 56.

0081[0080] The handling system 28 is used to bring a carrier 84 with a transfer film 86 affixed to its surface also into the optical axis 56 and in juxtaposition to the sample. The carrier is placed in contact with the sample such that the transfer film contacts the biological material substantially across the entirety of the transfer film surface as shown in FIG. 8b. Alternatively, as shown in FIG. 8c, the carrier is formed with standoffs 88 such that a substantial portion of the transfer film 86 does not contact the biological material 80 but remains spaced a distance 90 from the sample 80. Standoffs are described in U.S. Patent Application Serial No. 08/984,979 which is herein incorporated by reference in its entirety. Standoffs are structural features that protrude from the surface of the carrier on the side of the transfer film to provide a spacing between the transfer film and the sample in order to avoid transfer of unwanted friable biological material that would otherwise adhere to the transfer film due to electrostatic forces and the like. [0081] With the sample in the optical axis, the illumination system 24 is activated shedding light on the sample. The white light penetrating the sample arrives at the objective and is directed to the acquisition system and/or eyepiece. A live image that is captured by the acquisition system is displayed on the computer monitor. Also, a static image of relatively lower magnification is captured so as to provide a roadmap image for navigating the sample space. The two images are displayed side-by-side to locate the user on the sample space, map and simultaneously provide a display of the local sample space having a relatively larger magnification. The operator inspects the sample by moving the translation stage via computer inputs, controllers and appropriate software. For example, navigation of the sample space is accomplished by tracing a path on the displayed monitor image using an input cursor via a mouse, joystick or other input means.

0082[0082] Referring now to FIG. 9, a targeted portion 92 of biological material 94 is identified either manually by the operator or automatically employing software for algorithmic identification of regions of interest. Typically, fluorescent systems are employed for assisting the automated identification of targeted portions of biological material. Manually, the user can trace a targeted portion 92 of biological material viewed on the display monitor by moving a mouse cursor. Each trace 96 defines an interior 98 and an exterior 100. The interior 98 includes the targeted portion(s) and the exterior 100 of the trace includes non-targeted biological material. One or more targeted portions of biological material can be traced and the trace can be of any shape and size as shown in FIG. 9a.

0083[0083] The trace defines a cut line for the UV laser source. After all of the targeted portions 92 have been traced the user is prompted by the computer to commence cutting the traces with the UV laser source. The user may select whether each of the traces are to be closed or substantially closed paths for the UV laser. If the user selects closed paths, the UV laser source is automatically directed and activated to cut along the traces at a predefined cut width 102 forming a cut path 101 as shown in FIG. 9b. If the user selects a substantially closed path, at least one bridge 104 spanning from the interior 98 to the exterior 100 will be formed such that the interior 98 is joined to the surrounding exterior 100 biological material at the location of the bridge 104 as shown in FIG. 9c. The cut path 101 is interspersed with bridges 104 formed when the UV laser beam is temporarily de-activated while moving along a trace. The bridge width 108 can be selected by the user or predetermined by controlling software. Bridge locations may be user-defined by clicking with the mouse cursor along the trace at locations where bridges are desired as shown by the "x" in FIG. 9a. The user thereby manually selects any number and location of the bridges. Alternatively, the computer may automatically form a predefined number of bridges. The UV laser is activated and the biological material is eroded along the cut path but at bridge locations, biological material remains intact.

0084[0084] During the cutting operation of the UV laser, the laser beam remains stationary and the translation stage serves as a cut line control unit and generates, during the cutting operation, a relative movement between the laser beam and the sample. Alternatively, the cut line control unit comprises a laser scanning device which moves the laser beam relative to the stationary sample during cutting, hi such an operation, the translation stage with the sample is not displaced during cutting but remains fixed in the optical axis. The cut line results exclusively from deflection of the laser beam over the sample. The UV laser erodes the membrane and the biological material along the cut path. The desired cells are not harmed by the UV laser shots. Also, if the UV laser is located underneath the translation stage, the membrane advantageously shields the bulk of the tissue sample from UV radiation by absorbing a portion of the radiation that would otherwise be incident upon the tissue.

0085[0085] Typically, after the UV laser has cut the biological material and membrane along one or more of the trace paths 96, the IR laser is directed at the one or more interiors 98 of the trace paths 96. The IR laser 14 is fired or pulsed at any location of the interior 98 to activate the transfer film layer in the location of the interior which then adheres to the interior portion of the cut path. If a carrier with standoffs is being employed, the activated transfer film bridges the distance 90 of the standoffs 88 to contact and adhere to the interior of biological material. An IR laser pulse showing a location of adhesion to the interior of biological material is shown as a circle 106 in FIG. 10a. [0086] The IR laser can be fired once to create a single area of adhesion or the IR laser can be fired more than once to create more than one area of adhesion on any one interior portion of biological material. The single IR laser shot can be directed in the center of the interior or along the perimeter of the cut path. In another variation, the single IR laser shot can be directed at the interior of the trace but at a portion of the interior, including an area of membrane, that was not targeted as desirable biological material as shown in FIG. 10a. In essence, if there is a portion of the interior which contains biological material that is not considered to be a choice selection or otherwise not targeted as desirable or an exposed portion of the membrane, the IR laser can be strategically directed at such a location to advantageously avoid raising the temperature of desired biological material in the area of the IR laser shot which would result from localized heating. If bridges are left by the UV laser trace, IR laser shots shown as circles 106 on FIG. 1 Ob can be directed in between the bridge locations so that such points of adhesion would assist in the breaking of the bridges when the carrier is lifted away. IR laser shots also can be directed at or in the vicinity of the bridge locations.

0086[0087] If the IR laser shots are delivered manually, a user can, for example, click with a mouse cursor at a location where the user desires an IR laser shot to be located. Also, the user may select the number of IR laser shots that are to be made by clicking with a mouse cursor more than once.

0087[0088] If the IR laser shots are delivered automatically, computer software is programmed by the user beforehand or determined automatically to carry out one or more IR laser shots in a uniform or non-uniform pattern of IR laser shots across the interior of a trace. Of course, a single IR laser shot as well as a strategically placed IR laser shot can also be carried out automatically by the computer.

0088[0089] Furthermore, the IR laser shot is not limited to being a single pulse to create a single point of adhesion. Alternatively, the IR laser can be fired at duration to trace a IR path 110 of adhesion of any shape within the interior as shown in FIG. 1 Oc. The IR laser path of adhesion is carried out in the same manner as the UV laser path of cutting. Either the translation stage is moved to create a path or the IR laser beam is directed across the interior with the translation stage remaining stationary. Basically, the number of IR laser shots, the shape of the IR laser shots and their location are not limited and any number, location, pattern, or shape of IR laser shots is within the scope of the invention. Furthermore, the IR laser shot or shots can be fired before the UV laser is activated to cut the biological material. [0090] The carrier with the transfer film will result in one or more areas of adhesion located in the one or more interiors of the UV laser cut paths. When the carrier is removed by lifting it vertically, the carrier with its attached transfer film and at least one adhered targeted portion of biological material is separated from the remaining layer of biological material. If bridges were formed, those bridges are mechanically broken upon lifting the carrier to free the adhered portions of targeted biological material. What remains is un-targeted biological material as shown in FIGs. 11 and 12. Being adhered to the transfer film, the targeted biological material is removed with the carrier and available for further processing.

METHOD 3

0090[0091] With reference to FIG. 13a, a sample 80 of biological material to be microdissected is applied to a membrane 81. The membrane 81 is typically a polymer membrane such as a polyester. The polymer membrane is thin enough to maximize the ability to capture small sections and also has enough physical integrity to be handled in the process. The membrane is selected to adhere to the transfer film in the activated region and break away from surrounding non-activated and non-selected regions. The polymer membrane is transparent so that the tissue sample can be visualized through the membrane. Also, the membrane is selected to be compatible with the reagents used in fixing and staining biological tissue. Therefore, depending upon the selected membrane, staining protocols that may compromise lipid, carbohydrate, and other macromolecular targets are avoided. One material suitable for the membrane is polyethylene naphalate (PEN) having a thickness of approximately 1.0 to approximately 2.0 micrometers.

0091[0092] The membrane is typically be carried by a frame 83. The frame 83 can be a framed-foil slide such as that described in WO2002/057746A2 which is incorporated herein by reference as if fully set forth herein. A framed-foil slide is simply a frame in the shape of a glass slide with a window such that the membrane is affixed to the frame with the membrane covering the window. A petrie dish with a membrane bottom and firm side walls (glass, metal or plastic) works well too. The small cavity formed by the side walls of the window of the framed slide or the petrie dish provides some depth for growing cells and adding growth medium. Various coatings such as poly-1-lysine and growth media can be added to the petrie dish or framed slide to assist in cell viability and growth. The petrie dish or framed slide can be covered with an appropriate top to provide for isolation.

0092[0093] The sample 80 of biological material can be prepared in all of the standard means including sectioning by microtome, smears and cytospins. The sample can also be prepared by growing cells onto the polymer film in order to harvest live cells. The tissue or cells are attached directly to the membrane layer. Tissue preparation protocols that result in strong adhesion to the polymer membrane and which allow for the microdissection of hydrated samples and live cell samples are used. Tissue preparation protocols are followed in order to assure that the tissue adheres enough to survive the liquid processing, but that the adhesion is weak enough to allow microdissection to occur. If the capture of hydrated living cells is not desired, the tissue sample is typically exposed to ethanol with diminishing levels of water and finally exposed to xylene. [0094] The membrane 81 with the sample 80 mounted on its upper surface is inverted and placed in contact with a substrate 82 such that the biological material 80 contacts the upper surface of the substrate 82 and the upper surface of the membrane faces the upper surface of the substrate 82 as shown in FIG. 13b. The substrate is typically a glass slide. If a frame 83 is not being using, the polymer membrane 81 is adhered to the substrate 82 as shown in FIG. 13c. The substrate, membrane and sample are inserted into the laser microdissection instrument and positioned in the optical axis 56.

0093[0095] The handling system 28 is used to bring a carrier 84 with a transfer film 86 affixed to its surface also into the optical axis 56 and in juxtaposition with the substrate 82 on the side of the membrane 81. La one variation, the carrier is placed in contact with the membrane 81 such that the transfer film 86 contacts the membrane substantially across the entirety of the transfer film surface as shown in FIG. 13 d. Alternatively, as shown in FIG. 13e, the transfer film is spaced apart from the membrane. In one variation, the carrier is formed with standoffs 88 such that a substantial portion of the transfer film 86 does not contact the membrane 81 but remains spaced a distance 90 from the membrane 81. Standoffs are described in U.S. Patent Application Serial No. 08/984,979 which is herein incorporated by reference in its entirety. Standoffs are structural features that protrude from the surface of the carrier on the side of the transfer film to provide a spacing between the transfer film and the membrane in order to avoid transfer of unwanted material that would otherwise adhere to the transfer film due to electrostatic forces and the like. [0096] With the sample in the optical axis, the illumination system 24 is activated shedding light on the sample. The white light penetrating the sample arrives at the objective and is directed to the acquisition system and/or eyepiece. A live image that is captured by the acquisition system is displayed on the computer monitor. Also, a static image of relatively lower magnification is captured so as to provide a roadmap image for navigating the sample space. The two images are displayed side-by-side to locate the user on the sample space map and simultaneously provide a display of the local sample space having a relatively larger magnification. The operator inspects the sample by moving the translation stage via computer inputs, controllers and appropriate software. For example, navigation of the sample space is accomplished by tracing a path on the displayed monitor image using an input cursor via a mouse, joystick or other input means.

0094[0097] FIG. 14a illustrates a top planar sectional view of the membrane 81 and biological sample 80. A targeted portion 92 of biological material 94 is identified either manually by the operator or automatically employing software for algorithmic identification of regions of interest. Typically, fluorescent systems are employed for assisting the automated identification of targeted portions of biological material. Manually, the user can trace a targeted portion 92 of biological material viewed on the display monitor by moving a mouse cursor. Each trace 96 defines an interior 98 and an exterior 100. The interior 98 includes the targeted portion(s) and the exterior 100 of the trace includes non-targeted biological material. One or more targeted portions of biological material can be traced and the trace can be of any shape and size as shown in FIG. 14a.

0095[0098] The trace defines a cut line for the UV laser source. After all of the targeted portions 92 have been traced the user is prompted by the computer to commence cutting along the traces with the UV laser source. The user may select whether each of the traces are to be closed or substantially closed paths for the UV laser. If the user selects closed paths, the UV laser source is automatically directed and activated to cut along the traces at a predefined cut width 102 forming a cut path 101 as shown in FIG. 14b. If the user selects a substantially closed path, at least one bridge 104 spanning from the interior 98 to the exterior 100 will be formed such that the interior 98 is joined to the surrounding exterior 100 at the location of the bridge 104 as shown in FIG. 14c. The cut path 101 is interspersed with bridges 104 formed when the UV laser beam is temporarily de-activated while moving along a trace. The bridge width 108 can be selected by the user or predetermined by controlling software. Bridge locations may be user- defined by clicking with the mouse cursor along the trace at locations where bridges are desired as shown by the "x" in FIG. 14a. The user thereby manually selects any number and location of the bridges. Alternatively, the computer may automatically form a predefined number of bridges. The UV laser is activated and the biological material and membrane is eroded along the cut path but at bridge locations, biological material and membrane remain intact. [0099] During the cutting operation of the UV laser, the laser beam remains stationary and the translation stage serves as a cut line control unit and generates, during the cutting operation, a relative movement between the laser beam and the sample. Alternatively, the cut line control unit comprises a laser scanning device which moves the laser beam relative to the stationary sample during cutting, hi such an operation, the translation stage with the sample is not displaced during cutting but remains fixed in the optical axis. The cut line results exclusively from deflection of the laser beam over the sample. The UV laser erodes the membrane and the biological material along the cut path. The desired cells are not harmed by the UV laser shots. Also, if the UV laser is located above the translation stage, the membrane advantageously shields the bulk of the tissue sample from UV radiation by absorbing a portion of the radiation that would otherwise be incident upon the tissue.

0096[00100] Typically, after the UV laser has cut the biological material and membrane along one or more of the trace paths 96, the IR laser is directed at the one or more interiors 98 of the trace paths 96. The IR laser 14 is fired or pulsed at any location of the interior 98 to activate the transfer film layer in the location of the interior which then adheres onto the membrane. If a carrier with standoffs is being employed, the transfer film carrier remains in a fixed position relative to the membrane. With the carrier remaining fixed, the transfer film is brought into contact with the membrane. The activated transfer film bridges the distance 90 of the standoffs 88 to contact and adhere to the membrane in the interior of the cut path. The location of an IR laser pulse is shown as a circle 106 at the interior of the cut path in FIG. 15 a. [00101] The IR laser can be fired once to create a single area of adhesion or the IR laser can be fired more than once to create more than one area of adhesion on any one interior portion of the membrane. The single IR laser shot can be directed in the center of the interior or along the perimeter of the cut path. The membrane advantageously diminishes raising the temperature of desired biological material in the area of the IR laser shot which would result from localized heating. If bridges are left by the UV laser trace, IR laser shots shown as circles 106 on FIG. 15b can be directed in between the bridge locations or in the vicinity of the bridges so that such points of adhesion would assist in the breaking of the bridges when the carrier is lifted away. Also, IR shots can be directed at the bridge locations or in the vicinity of the bridges. [00102] If the IR laser shots are delivered manually, a user can, for example, click with a mouse cursor at a location where the user desires an IR laser shot to be located. Also, the user may select the number of IR laser shots that are to be made by clicking with a mouse cursor more than once. If the IR laser shots are delivered automatically, computer software is programmed by the user beforehand or determined automatically to carry out one or more IR laser shots in a uniform or non-uniform pattern of IR laser shots across the interior of a trace. [00103] Furthermore, the IR laser shot is not limited to being a single pulse to create a single point of adhesion to the membrane. Alternatively, the IR laser can be fired at duration to trace a IR path 110 of adhesion of any shape within the interior as shown in FIG. 15c. The IR laser path of adhesion is carried out in the same manner as the UV laser path of cutting. Either the translation stage is moved to create a path or the IR laser beam is directed across the interior with the translation stage remaining stationary. Basically, the number of IR laser shots, the shape of the IR laser shots and their location are not limited and any number, location, pattern, or shape of IR laser shots is within the scope of the invention. Furthermore, the IR laser shot or shots can be fired before the UV laser is activated to cut the membrane and biological material. [00104] The carrier with the transfer film will result in one or more areas of adhesion with the membrane located in the one or more interiors of the UV laser cut paths. When the carrier is separated by lifting it vertically, the carrier with its attached transfer film and at least one adhered portion of membrane along with targeted portion of biological material is removed from the remaining layer of membrane and biological material. If bridges were formed, those bridges are mechanically broken upon lifting the carrier to free the adhered portions of targeted biological material. What remains is un-targeted biological material as shown in FIGs. 16 and 17. Being adhered to the membrane, the targeted biological material is removed with the carrier and available for further processing.

0097[00105] All publications and patent applications mentioned in this specification are incorporated herein by reference to the same extent as if each individual publication or patent application were specifically and individually indicated to be incorporated by reference. [00106] The above description is illustrative and not restrictive. Many variations will be apparent to those skilled in the art upon review of this disclosure. The scope of the invention should not be determined with reference to the above description, but instead should be determined with reference to the appended claims and the full scope of their equivalents.