Facing and quality control in microtomy
The present disclosure relates to systems and methods for facing a tissue block. In some embodiments, a method is provided for facing a tissue block that includes imaging a tissue block to generate imaging data of the tissue block, the tissue block comprising a tissue sample embedded in an embedding material, estimating, based on the imaging data, a depth profile of the tissue block, wherein the depth profile comprises a thickness of the embedding material to be removed to expose the tissue sample to a pre-determined criteria, and removing the thickness of the embedding material to expose the tissue to the pre-determined criteria.
1. A method for facing a tissue block comprising:
imaging a tissue block to generate imaging data of the tissue block, the tissue block comprising a tissue sample embedded in an embedding material;
estimating, based on the imaging data:
a depth profile of the tissue block, wherein the depth profile comprises a thickness of the embedding material to be removed to expose the tissue sample to a predetermined criteria; and
an expected outline, an expected size, and an expected shape of the tissue sample at a plurality of depths of the tissue block, the plurality of depths comprising a depth after the thickness of the embedding material is removed;
removing the thickness of the embedding material to expose the tissue sample to the predetermined criteria; and
confirming, based on the imaging data, when the thickness of the embedding material has been removed to expose the tissue sample to the predetermined criteria, by comparing an outline, size, or shape of the tissue sample in one or more sections cut from the tissue block to the expected outline, the expected size or the expected shape of the tissue sample at the depth estimated based on the imaging data.
2. The method of claim 1 , further comprising:
progressively removing one or more sections from the tissue block;
imaging the one or more sections to generate imaging data associated with the one or more sections; and
confirming, based at least in part on the imaging data associated with the one or more sections, that the tissue sample is exposed to the predetermined criteria.
3. The method of claim 1 , wherein the tissue block is imaged with a structured light to determine the depth profile.
4. A method for facing a tissue block comprising:
prior to removing one or more sections from the tissue block comprising a tissue sample embedded in an embedding material, imaging the tissue block to generate a baseline imaging data;
estimating, from the baseline imaging data, an expected outline, an expected size, or an expected shape of the tissue sample at an expected exposure of the tissue sample to a predetermined criteria, wherein estimating the expected outline, the expected size, or the expected shape of the tissue sample from the baseline imaging data comprises determining the expected outline, the expected size, or the expected shape of the tissue sample at a plurality of depths of the tissue block;
progressively removing one or more sections from the tissue block;
imaging the one or more sections removed from the tissue block to generate imaging data associated with the one or more sections; and
determining, based on the imaging data, when a sufficient number of the one or more sections have been removed from the tissue block such that the exposure of the tissue sample is to the predetermined criteria, wherein:
the determining comprises comparing an outline, size, or shape of the tissue sample in the one or more sections to the expected outline, the expected size, or the expected shape of the tissue sample estimated from the baseline imaging data.
5. The method of claim 4 , further comprising determining a depth profile of the embedding material from the baseline imaging data to remove a sufficient amount of the embedding material to expose the tissue sample to the predetermined criteria.
6. The method of claim 4 , further comprising illuminating the tissue block with a structured light in a UV range.
7. The method of claim 4 , wherein the outline, size, or shape of the tissue sample in the one or more sections is determined from the imaging data associated with the one or more sections.
8. The method of claim 7 , wherein the imaging data associated with the one or more sections comprise imaging data of the one or more sections on the tissue block, on a transfer medium, or on a slide.
9. The method of claim 4 , further comprising determining a depth profile by one or more of disparity, from focus, or light field imaging.
10. The method of claim 4 , further comprising increasing contrast between the tissue sample and the embedding material.
11. A method for facing a tissue block comprising:
prior to removing a thickness of embedding material from the tissue block comprising a tissue sample embedded in the embedding material, estimating an expected outline, an expected size, or an expected shape of the tissue sample at a plurality of depths of the tissue block, wherein the plurality of depths comprises a depth at which the tissue sample is expected to be exposed to a predetermined criteria;
removing, from the tissue block, a thickness of the embedding material configured to expose the tissue sample to the predetermined criteria;
subsequently to removing the thickness, progressively removing one or more sections from the tissue block;
confirming, based on a comparison of an outline, a size, or a shape of the tissue sample in the one or more sections with the expected outline, the expected size, or the expected shape of the tissue sample at the depth at which the tissue sample is expected to be exposed to the predetermined criteria, that the tissue sample has been exposed to the predetermined criteria.
12. The method of claim 11 , wherein the outline, the size, or the shape of the tissue sample in the one or more sections is determined by imaging the one or more sections on a transfer medium or on a slide.