scholarly journals Robust and generalizable segmentation of human functional tissue units

2021 ◽  
Author(s):  
Leah L. Godwin ◽  
Yingnan Ju ◽  
Naveksha Sood ◽  
Yashvardhan Jain ◽  
Ellen M Quardokus ◽  
...  
Keyword(s):  
Large Scale ◽  
Periodic Acid ◽  
Cellular Level ◽  
Healthy Human ◽  
Periodic Acid Schiff ◽  
Functional Tissue ◽  
Colonic Crypts ◽  
Hematoxylin And Eosin ◽  
And Performance ◽  
Hematoxylin And Eosin Stain

The Human BioMolecular Atlas Program aims to compile a reference atlas for the healthy human adult body at the cellular level. Functional tissue units (FTU, e.g., renal glomeruli and colonic crypts) are of pathobiological significance and relevant for modeling and understanding disease progression. Yet, annotation of FTUs is time consuming and expensive when done manually and existing algorithms achieve low accuracy and do not generalize well. This paper compares the five winning algorithms from the "Hacking the Kidney" Kaggle competition to which more than a thousand teams from sixty countries contributed. We compare the accuracy and performance of the algorithms on a large-scale renal glomerulus Periodic acid-Schiff stain dataset and their generalizability to a colonic crypts hematoxylin and eosin stain dataset. Results help to characterize how the number of FTUs per unit area differs in relationship to their position in kidney and colon with respect to age, sex, body mass index (BMI), and other clinical data and are relevant for advancing pathology, anatomy, and surgery.

Complex Polysaccharide Inclusions in Skeletal Muscle Adjacent to Sarcomas in Two Dogs

2002 ◽  
Vol 39 (2) ◽  
pp. 278-280 ◽  
Author(s):  
B. A. Valentine ◽  
R. J. Bildfell ◽  
B. J. Cooper ◽  
U. Giger ◽  
K. A. Fischer
Keyword(s):  
Skeletal Muscle ◽  
Periodic Acid ◽  
Synovial Cell ◽  
Periodic Acid Schiff ◽  
Polyglucosan Bodies ◽  
Stifle Joint ◽  
Membrane Bound ◽  
Hematoxylin And Eosin ◽  
Filamentous Material ◽  
Hematoxylin And Eosin Stain

Inclusions of periodic acid-Schiff-positive, amylase resistant material were found within skeletal muscle fibers adjacent to an osteosarcoma in the proximal femur of an 8-year-old intact female Cocker Spaniel dog (dog No. 1) and adjacent to a synovial cell sarcoma of the stifle joint in a 7-year-old spayed female Bouvier des Flandres dog (dog No. 2). Inclusions were pale blue-gray with hematoxylin and eosin stain and formed irregular inclusions, replacing up to approximately 80% of the fiber diameter. Inclusions from dog No. 2 were of non-membrane-bound granular to filamentous material that occasionally formed discrete, elongate electrondense masses. The features of these inclusions were similar to those of materials previously described as complex polysaccharide, polyglucosan bodies, amylopectin, and Lafora bodies. Evidence for a generalized metabolic disorder was not found in these two dogs, suggesting that storage of complex polysaccharide can occur as a relatively nonspecific response to metabolic alterations in skeletal muscle in a variety of conditions.

scholarly journals Deep learning-based transformation of H&E stained tissues into special stains

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Kevin de Haan ◽  
Yijie Zhang ◽  
Jonathan E. Zuckerman ◽  
Tairan Liu ◽  
Anthony E. Sisk ◽  
...  
Keyword(s):  
Visual Inspection ◽  
Kidney Diseases ◽  
Periodic Acid ◽  
Needle Core Biopsy ◽  
Silver Stain ◽  
Periodic Acid Schiff ◽  
Tissue Sections ◽  
Biopsy Tissue ◽  
Hematoxylin And Eosin

AbstractPathology is practiced by visual inspection of histochemically stained tissue slides. While the hematoxylin and eosin (H&E) stain is most commonly used, special stains can provide additional contrast to different tissue components. Here, we demonstrate the utility of supervised learning-based computational stain transformation from H&E to special stains (Masson’s Trichrome, periodic acid-Schiff and Jones silver stain) using kidney needle core biopsy tissue sections. Based on the evaluation by three renal pathologists, followed by adjudication by a fourth pathologist, we show that the generation of virtual special stains from existing H&E images improves the diagnosis of several non-neoplastic kidney diseases, sampled from 58 unique subjects (P = 0.0095). A second study found that the quality of the computationally generated special stains was statistically equivalent to those which were histochemically stained. This stain-to-stain transformation framework can improve preliminary diagnoses when additional special stains are needed, also providing significant savings in time and cost.

scholarly journals Evaluation of Better Staining Method among Hematoxylin and Eosin, Giemsa and Periodic Acid Schiff-Alcian Blue for the Detection of Helicobacter pylori in Gastric Biopsies

2020 ◽  
Vol 27 (5) ◽  
pp. 53-61
Author(s):  
Abdullah Saleh Alkhamiss
Keyword(s):  
Helicobacter Pylori ◽  
Alcian Blue ◽  
National Guard ◽  
Periodic Acid ◽  
Giemsa Stain ◽  
Periodic Acid Schiff ◽  
Gastric Biopsies ◽  
Hematoxylin And Eosin ◽  
H Pylori ◽  
Sensitivity Specificity

Background: This study was undertaken to evaluate the preferred method (Giemsa or periodic acid Schiff-Alcian blue [PAS-AB] stains) of detecting Helicobacter pylori (H. pylori) in gastric mucosal biopsies in terms of sensitivity, specificity and applicability. To the best of my knowledge, this is the first report comparing Giemsa and PAS-AB staining for the detection of H. pylori in such biopsies. Methods: The formalin-fixed paraffin-embedded blocks of 49 gastric biopsies from different patients were collected from the archive of anatomical pathology at King Abdulaziz Medical City, National Guard, Riyadh, Saudi Arabia. From each block, three slides were prepared and analysed using the hematoxylin and eosin (H&E), Giemsa and PAS-AB stains to detect the presence/absence of H. pylori, and the results were compared in terms of sensitivity, specificity and applicability. Results: The majority of the biopsies in this study showed antrum-type gastric mucosa. Only 15 biopsies showed active gastritis, whereas the rest showed chronic gastritis. Three biopsies showed intestinal metaplasia. All were detected by PAS-AB stain, but only two-thirds were detected by H&E stain. Fifteen gastric biopsies showed H. pylori infection in general and in 13 of them, active gastritis cases were discovered. Fourteen out of these 15 H. pylori infection cases were detected by Giemsa stain, whereas only 13 cases were detected by H&E stain. PAS-AB stain showed the worst results since it demonstrated only 40% sensitivity and 67.65% specificity in H. pylori detection. Conclusion: Giemsa stain has better sensitivity and specificity in gastric H. pylori infection detection than PAS-AB. Therefore, using PAS-AB stain to detect H. pylori infection is not recommended.

scholarly journals Hematological and cytochemical characteristics of peripheral blood cells in the argus snakehead (Ophiocephalus argus Cantor)

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e11234
Author(s):  
Xue Wang ◽  
Zhengjie Wu ◽  
Shengmei Wu ◽  
Xianxian Chen ◽  
Misbah Hanif ◽  
...  
Keyword(s):  
Peripheral Blood ◽  
Blood Cells ◽  
Large Scale ◽  
Periodic Acid ◽  
Economic Value ◽  
Chloroacetic Acid ◽  
Peripheral Blood Cells ◽  
Cytochemical Staining ◽  
Periodic Acid Schiff ◽  
Natural Defense

Background The argus snakehead (Ophiocephalus argus Cantor) is a highly nutritious, freshwater, cultured bony fish with a high economic value. The health of the fish is closely related to its blood cells, which are critical for oxygen transport, natural defense, and immunity. We investigated the morphometry, microstructure, and cytochemical characteristics of the peripheral blood cells of O. argus. Our results may provide the basic reference values needed to monitor the health of this fish for large-scale cultivation. Methods The number of blood cells in O. argus were counted on a hemocytometer and their size was measured using a micrometer under light microscope. The morphology and classification of the blood cells were studied using Wright’s staining and the cytochemical characteristics were studied using seven chemical stains including peroxidase (POX), Sudan black B (SBB), periodic acid-Schiff (PAS), acid phosphatase (ACP), alkaline phosphatase (ALP), chloroacetic acid AS-D naphthol esterase (AS-D), and α-naphthol acetate esterase (α-NAE). Results The peripheral blood cells in O. argus can be classified as erythrocytes, leukocytes, and thrombocytes; of which, females had 2.9597 million/mm3, 88,400/mm3, and 43,600/mm3, respectively, and males had 3.0105 million/mm3, 105,500/mm3, and 34,000/mm3, respectively. Leukocytes consisted of neutrophils, monocytes, large lymphocytes, and small lymphocytes. Eosinophils and basophils were not found. Monocytes were the most numerous leukocytes identified, followed by neutrophils and small lymphocytes, while large lymphocytes were the least frequently identified. Cytochemical staining showed that erythrocytes were only positive for PAS staining. Neutrophils were strongly positive for POX, SBB, and ACP, and positive for all the other cytochemical stains. Monocytes were positive for PAS and α-NAE and were weakly positive for ACP and AS-D staining. Large lymphocytes were positive for PAS and were weakly positive for ALP, AS-D, and α-NAE staining. Small lymphocytes were positive for PAS and weakly positive for AS-D and α-NAE staining. Thrombocytes were positive for PAS and were weakly positive for ACP and AS-D, but negative for the remaining cytochemical stains. The morphology of peripheral blood cells in O. argus was generally similar to that of other fish species, while the cytochemical staining patterns showed clear species specificity.

Effects of parathyroid extract. II: changes preceding renal calcification

1962 ◽  
Vol 203 (4) ◽  
pp. 676-680 ◽  
Author(s):  
Reagan H. Bradford ◽  
R. Palmer Howard ◽  
Walter Joel ◽  
Jerry Puls ◽  
M. R. Shetlar
Keyword(s):  
Serum Albumin ◽  
Periodic Acid ◽  
Blue Staining ◽  
Alcian Blue Staining ◽  
Periodic Acid Schiff ◽  
Protein Ratio ◽  
Parathyroid Extract ◽  
Staining Techniques ◽  
Consistent Increase ◽  
Hematoxylin And Eosin

Parathyroid extract, a total of 860 units, has been administered to rats in small, progressively increasing doses over a period of 12 days. The effects on serum protein, total glycoprotein, glycoprotein/protein ratio, calcium, individual protein and glycoprotein fractions, and renal calcification have been presented. Kidney sections from each rat were studied by histochemical techniques for calcification, neutral polysaccharide, and acid mucopolysaccharide. The serum total glycoprotein, glycoprotein/protein ratio, and calcium were found to be elevated. The serum albumin was decreased, whereas the globulin fractions were essentially unchanged. The globulin glycoprotein hexose, mostly α1-globulin, was increased; albumin glycoprotein hexose showed a somewhat less consistent increase. A "precalcification" periodic acid-Schiff-staining intraluminal material was demonstrated in the kidney after parathyroid extract treatment for 4 days. This was followed approximately 2 days later by Alcian blue-staining material and calcification demonstrable by hematoxylin and eosin and by Kóssa staining techniques. This has been interpreted as suggesting a glycoprotein-containing lesion which precedes calcification.

Deep Learning-Based Spermatogenic Staging Assessment for Hematoxylin and Eosin-Stained Sections of Rat Testes

2020 ◽  
pp. 019262332096967
Author(s):  
Dianne M. Creasy ◽  
Satish T. Panchal ◽  
Rohit Garg ◽  
Pranab Samanta
Keyword(s):  
Deep Learning ◽  
Digital Images ◽  
Periodic Acid ◽  
Wistar Rat ◽  
Specialized Training ◽  
Periodic Acid Schiff ◽  
Automated Method ◽  
Histopathological Evaluation ◽  
Hematoxylin And Eosin ◽  
Sensitive Method

In preclinical toxicology studies, a “stage-aware” histopathological evaluation of testes is recognized as the most sensitive method to detect effects on spermatogenesis. A stage-aware evaluation requires the pathologist to be able to identify the different stages of the spermatogenic cycle. Classically, this evaluation has been performed using periodic acid-Schiff (PAS)-stained sections to visualize the morphology of the developing spermatid acrosome, but due to the complexity of the rat spermatogenic cycle and the subtlety of the criteria used to distinguish between the 14 stages of the cycle, staging of tubules is not only time consuming but also requires specialized training and practice to become competent. Using different criteria, based largely on the shape and movement of the elongating spermatids within the tubule and pooling some of the stages, it is possible to stage tubules using routine hematoxylin and eosin (H&E)-stained sections, thereby negating the need for a special PAS stain. These criteria have been used to develop an automated method to identify the stages of the rat spermatogenic cycle in digital images of H&E-stained Wistar rat testes. The algorithm identifies the spermatogenic stage of each tubule, thereby allowing the pathologist to quickly evaluate the testis in a stage-aware manner and rapidly calculate the stage frequencies.

scholarly journals Pathological Findings in the Pituitary Glands of Dogs and Cats

2018 ◽  
Vol 55 (6) ◽  
pp. 880-888 ◽  
Author(s):  
Laura Polledo ◽  
Guy C. M. Grinwis ◽  
Peter Graham ◽  
Mark Dunning ◽  
Kerstin Baiker
Keyword(s):  
Adrenocorticotropic Hormone ◽  
Periodic Acid ◽  
Clinical Manifestations ◽  
Histopathological Diagnosis ◽  
Periodic Acid Schiff ◽  
Melanocyte Stimulating Hormone ◽  
Nodular Hyperplasia ◽  
Cystic Changes ◽  
Pituitary Glands ◽  
Hematoxylin And Eosin

With the exception of classic functional adenomas in dogs and horses, pituitary lesions are infrequently described in the veterinary literature. Approximately 10% of pituitary glands from asymptomatic humans contain abnormalities, but the equivalent proportion in small animals is unknown. Pituitary glands from 136 dogs and 65 cats collected during routine necropsies were examined to determine the prevalence of pituitary lesions and their histopathological diagnosis. Lesions were characterized in sections stained with hematoxylin and eosin, periodic acid-Schiff (PAS), Gordon and Sweet’s and reticulin stains, and immunohistochemistry for adrenocorticotropic hormone (ACTH), growth hormone, melanocyte stimulating hormone–α, and prolactin. Pituitary abnormalities were identified in 36 of 136 (26.4%) dogs and 10 of 65 (15.3%) cats. Cystic changes were the most common lesion, occurring in 18 (13.2%) dogs and 8 (12.3%) cats. Pituitary neoplasia was detected in 14.1% (12/85) of middle-aged and old dogs; 1 (1.5%) cat had pituitary nodular hyperplasia. PAS and reticulin stains helped differentiate ACTH-immunoreactive adenomas from hyperplastic nodules: adenomas contained PAS-positive intracytoplasmic granules and loss of the normal reticulin network. One dog had a pituitary carcinoma with infiltration into the thalamus. Other pituitary abnormalities included secondary metastases (2 dogs) and hypophysitis (4 dogs, 1 cat). In most cases, the lesion appeared to be subclinical and could be considered incidental, whereas clinical manifestations were apparent in only 4 dogs (2.9%) and none of the cats with pituitary lesions. Pituitary abnormalities are common in dogs and cats, and their clinical relevance requires further investigation.

scholarly journals Condrolipoma na orelha de um cão

2017 ◽  
Vol 45 ◽  
pp. 4
Author(s):  
Maria De Fátima De Souza ◽  
Alinne Emanuelle Monteiro Sarmento ◽  
Francisca Maria Sousa Barbosa ◽  
Raul Antunes Silva Siqueira ◽  
Ivia Carmem Talieri ◽  
...  
Keyword(s):  
Alcian Blue ◽  
Periodic Acid ◽  
Fibrous Tissue ◽  
Rare Event ◽  
Periodic Acid Schiff ◽  
Non Invasive ◽  
Pas Staining ◽  
Staining Techniques ◽  
Hematoxylin And Eosin ◽  
Well Differentiated

Background: Lipoma is defined as a tumor composed of mature adipocytes, identical to the cells that form normal adult fat. Other elements may also be present, such as cartilaginous tissue. Chondrolipoma is characterized by the presence of differentiated cartilage islands spread within a typical lipoma, in which mucin and collagen can be observed around isles of chondrocytes. This condition affects mainly middle-aged or elderly dogs as well as elderly humans. In the scientific literature, chondrolipomas have not yet been described on the ear of dogs. Therefore, this study aimed to report a case of chondrolipoma on the ear of a dog and its histopathological and histochemical description.Case: A female, 10-year-old, Labrador retriever dog was admitted to the Veterinarian Hospital of the Federal University of Paraíba (UFPB), Areia, Brazil. The dog was presented with an ulcerated pendulous nodule on the ear, with a clinical evolution of approximately 7 months. A biopsy sample was taken and submitted to the Veterinary Histopathology Laboratory of the UFPB. Macroscopic evaluation revealed a pendulous and firm nodule, with a round apex, measuring 1.3cm in diameter. The epidermis covering the nodule exhibited an ulcer of 0.5cm in length. The nodule exhibited resistance to cutting and the surface was dark red with hard areas in the center. Sample was fixed in 10% formalin and routinely processed for histology, embedded in paraffin, and stained with hematoxylin and eosin (HE), alcian blue (AB), Masson’s trichrome (MT), and periodic acid-Schiff (PAS). Histopathological evaluation revealed that the nodule was encapsulated, formed by adipocytes of variable sizes. Adipocytes were well-differentiated and the nodule was defined as lipoma. Within the lipoma there was proliferation of chondrocyte islands in a bluish basophilic matrix. Adjacently, abundant fibrous connective tissue was found intertwined with blood vessels. Some vessels exhibited red blood cells in the vicinity, indicating hemorrhage. The epidermis covering the nodule was slightly acanthotic and moderately hyperkeratotic. MT staining marked the fibrous tissue in blue. AB staining revealed blue areas confirming the presence of mucin around cartilage islands. PAS staining revealed the presence of glycogen between mesenchymal cells, which included chondrocytes.Discussion: The diagnosis of chondrolipoma was concluded with the presence of a well-differentiated lipoma, randomly intertwined with cartilage islands, which were also well-differentiated and spread within a typical lipoma. Additionally, the presence of mucin and collagen around the isles of chondrocytes facilitated the diagnosis. Chondrocytes presented different phases of maturation. The case described here exhibited microscopic characteristics that were similar but somewhat different to those previously reported by other authors, in considering that the nodule was encapsulated, and did not exhibit cell atypia or mineralization in the cartilage islands. Most studies published used PAS and Masson’s trichrome staining techniques to confirm the diagnosis of chondrolipoma. However, alcian blue also aids in diagnosing this condition. The tumor developed for months before the dog was taken to a veterinarian, when it finally became ulcerated, which characterized it as non-invasive. Chondrolipoma is a benign tumor, which does not induce metastasis and once excised does not exhibit recurrence. In veterinary medicine, the presence of cartilage within a lipoma is a rare event.

Submucosal Lifting Agent ORISE Gel Remnants Histopathologically Mimic Mucin and Malignancy: A Case Series

2019 ◽  
Vol 152 (Supplement_1) ◽  
pp. S73-S73 ◽  
Author(s):  
Luke Cypher ◽  
Shaoli Sun ◽  
Erin Forster ◽  
Brenda Hoffman ◽  
David Lewin
Keyword(s):  
Colon Cancer ◽  
Epithelial Cells ◽  
Amorphous Material ◽  
Periodic Acid ◽  
Case Series ◽  
The United States ◽  
Periodic Acid Schiff ◽  
Good Communication ◽  
Gastrointestinal Lesions ◽  
Hematoxylin And Eosin

Abstract Introduction There were an estimated 18.1 million new cancer cases in 2018, with colon cancer being the third most common worldwide. Colon cancer development is an accumulation of mutations resulting in normal epithelial cells transforming into adenomas and then adenocarcinomas. In certain scenarios, endoscopic interventions have gained considerable momentum over invasive surgery as an alternative to manage early gastrointestinal lesions. New techniques such as endoscopic mucosal resection (EMR) and endoscopic submucosal dissection allow for removal of large, flat sessile polyps. Successful EMR is dependent on expanding the submucosal space to create adequate lift of the polyp to facilitate tissue capture and to avoid perforation and excess bleeding. ORISE gel (Boston Scientific) is a submucosal lifting agent currently in use in the United States. Methods We present three cases of gastrointestinal specimens obtained using ORISE gel. Histological analysis with hematoxylin and eosin revealed submucosal amorphous deposits that appeared to be mucin. Due to the concern for malignancy, additional stains were performed, including periodic acid–Schiff with diastase digestion (DPAS) to identify mucin. DPAS staining for mucin was negative, indicating the mucinous-appearing amorphous material seen on hematoxylin and eosin staining was not mucin but a likely remnant ORISE gel used during EMR. Additional immunohistochemical stains for epithelial cells (cytokeratin AE1/AE3) were also performed to exclude the presence of infiltrating tumor cells. Conclusion These three cautionary cases reveal the importance of good communication between endoscopists and pathology. In an effort to avoid overdiagnosis and/or the usage of unnecessary additional stains, pathologists should be alerted of ORISE gel usage.

Prophylaxis of the laminectomy membrane

1978 ◽  
Vol 49 (3) ◽  
pp. 419-424 ◽  
Author(s):  
José Barberá ◽  
José Gonzalez ◽  
José Esquerdo ◽  
Jaime Broseta ◽  
Juan Luis Barcia-Salorio
Keyword(s):  
Side Effects ◽  
Bone Graft ◽  
Periodic Acid ◽  
Scar Tissue ◽  
Control Group ◽  
Periodic Acid Schiff ◽  
Content Type ◽  
Laminectomy Membrane ◽  
Hematoxylin And Eosin ◽  
Fine Print

✓ Sixty laminectomies were performed in dogs to investigate the prevention of the laminectomy membrane and its side effects. These operations were distributed in six groups of 10, one was a control group, and in the others the bone defect was protected with different materials (Oxicel, Silastic, Dacron, methyl methacrylate, and Kiel bone graft). After a survival of 2 months, suboccipital myelography was performed, immediately after which the animals were sacrificed and the operated spinal slice obtained. The different radiographic densities of the tissues of each slice were calculated and the diverse histological nature identified by hematoxylin and eosin, periodic acid Schiff, Masson's trichrome, and Gomori's reticulin stains. Only the acrylic plastic and the Kiel bone graft prevented expansion of the scar tissue inside the spinal canal and adhesions between the dura and the cicatricial overlying muscles. Therefore, the authors suggest that a solid barrier is necessary to effectively prevent the so-called “laminectomy membrane.”

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