Feature-based multi-resolution registration of immunostained serial sections

Lobachev, Oleg; Ulrich, Christine; Steiniger, Birte; Wilhelmi, Verena; Stachniss, Vitus; Guthe, Michael

doi:10.1016/j.media.2016.07.010

Cited by 28 publications

(42 citation statements)

References 52 publications

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“…We applied a new multi-resolution non-rigid registration [25], implicating a hierarchy of feature sizes (S1–S4 Videos; DOI: 10.5281/zenodo.129038). Subsequently, volume filtering, 3D reconstruction, mesh filtering, and rendering were carried out.…”

Section: Resultsmentioning

confidence: 99%

“…The only step that could not be controlled was the initial registration. Quality assessment of this step was described by et Lobachev et al [25]. All QC methods revealed that blind ends of vessels occurred in the 3D models.…”

Section: Resultsmentioning

confidence: 99%

“…* The quality of registration is commented on in Lobachev et al [25]. ** 3D rendering does not affect the data.…”

Section: Resultsmentioning

confidence: 99%

“…After coarse registration we applied a refined registration method. This method represents a sparse multi-resolution non-rigid registration [25]. A hierarchy of feature sizes was used to successfully register not only the large features (corresponding to large blood vessels or other large structures such as trabeculae), but also smaller features that correspond to microvessels.…”

Section: Methodsmentioning

confidence: 99%

“…The registration software was custom-written. It is available as part of the supplemental material published by Lobachev et al [25]. …”

Section: Methodsmentioning

confidence: 99%

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Three-Dimensional Arrangement of Human Bone Marrow Microvessels Revealed by Immunohistology in Undecalcified Sections

et al. 2016

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The arrangement of microvessels in human bone marrow is so far unknown. We combined monoclonal antibodies against CD34 and against CD141 to visualise all microvessel endothelia in 21 serial sections of about 1 cm2 size derived from a human iliac crest. The specimen was not decalcified and embedded in Technovit® 9100. In different regions of interest, the microvasculature was reconstructed in three dimensions using automatic methods. The three-dimensional models were subject to a rigid semiautomatic and manual quality control. In iliac crest bone marrow, the adipose tissue harbours irregularly distributed haematopoietic areas. These are fed by networks of large sinuses, which are loosely connected to networks of small capillaries prevailing in areas of pure adipose tissue. Our findings are compatible with the hypothesis that capillaries and sinuses in human iliac crest bone marrow are partially arranged in parallel.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

“…* The quality of registration is commented on in Lobachev et al [25]. ** 3D rendering does not affect the data.…”

Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

“…The registration software was custom-written. It is available as part of the supplemental material published by Lobachev et al [25]. …”

Section: Methodsmentioning

confidence: 99%

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Three-Dimensional Arrangement of Human Bone Marrow Microvessels Revealed by Immunohistology in Undecalcified Sections

et al. 2016

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Micro-CT Guided 3D Reconstruction of Histological Images

Nagara

Roth

Nakamura

et al. 2017

Patch-Based Techniques in Medical Imaging

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Exploring human splenic red pulp vasculature in virtual reality: details of sheathed capillaries and the open capillary network

Steiniger

Pfeffer

Guthe

et al. 2020

Histochem Cell Biol

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We reconstructed serial sections of a representative adult human spleen to clarify the unknown arrangement of the splenic microvasculature, such as terminal arterioles, sheathed capillaries, the red pulp capillary network and venules. The resulting 3D model was evaluated in virtual reality (VR). Capillary sheaths often occurred after the second or third branching of a terminal arteriole and covered its capillary side or end branches. The sheaths started directly after the final smooth muscle cells of the arteriole and consisted of cuboidal CD271++ stromal sheath cells surrounded and infiltrated by B lymphocytes and macrophages. Some sheaths covered up to four sequential capillary bifurcations thus forming bizarre elongated structures. Each sheath had a unique form. Apart from symmetric dichotomous branchings inside the sheath, sheathed capillaries also gave off side branches, which crossed the sheath and freely ended at its surface. These side branches are likely to distribute materials from the incoming blood to sheath-associated B lymphocytes and macrophages and thus represent the first location for recognition of blood-borne antigens in the spleen. A few non-sheathed bypasses from terminal arterioles to the red pulp capillary network also exist. Red pulp venules are primarily supplied by sinuses, but they also exhibit a few connections to the capillary network. Thus, the human splenic red pulp harbors a primarily open microcirculation with a very minor closed part.

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Feature-based multi-resolution registration of immunostained serial sections

Cited by 28 publications

References 52 publications

Three-Dimensional Arrangement of Human Bone Marrow Microvessels Revealed by Immunohistology in Undecalcified Sections

Three-Dimensional Arrangement of Human Bone Marrow Microvessels Revealed by Immunohistology in Undecalcified Sections

Micro-CT Guided 3D Reconstruction of Histological Images

Exploring human splenic red pulp vasculature in virtual reality: details of sheathed capillaries and the open capillary network

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