Sashank Reddy
YOU?
Author Swipe
View article: Aggrecan protects against plaque accumulation and is essential for proper microglial responses to plaques
Aggrecan protects against plaque accumulation and is essential for proper microglial responses to plaques Open
View article: The mechanotransducer Piezo1 coordinates metabolism and inflammation to promote skin growth
The mechanotransducer Piezo1 coordinates metabolism and inflammation to promote skin growth Open
The skin has a remarkable ability to grow under constant stretch. Using a controlled tissue expansion system in mice, we identified an enhanced inflammatory-metabolic network in stretched skin via single-cell RNA sequencing, flow cytometry…
View article: An mRNA lipid nanoparticle-incorporated nanofiber-hydrogel composite for cancer immunotherapy
An mRNA lipid nanoparticle-incorporated nanofiber-hydrogel composite for cancer immunotherapy Open
View article: An mRNA lipid nanoparticle-incorporated nanofiber-hydrogel composite for cancer immunotherapy
An mRNA lipid nanoparticle-incorporated nanofiber-hydrogel composite for cancer immunotherapy Open
Hydrogel materials have emerged as versatile platforms for various biomedical applications. Notably, the engineered nanofiber-hydrogel composite (NHC) has proven effective in mimicking the soft tissue extracellular matrix, facilitating sub…
View article: P55. Referral Gaps and Risk Factors for Long-term Headaches in Patients With Craniofacial Fractures
P55. Referral Gaps and Risk Factors for Long-term Headaches in Patients With Craniofacial Fractures Open
View article: 107. Artificial Intelligence-Enabled Prediction of Osteoradionecrosis Following Transferred Fibula Flap for Head and Neck Tumor Resection and Segmental Mandibulectomy
107. Artificial Intelligence-Enabled Prediction of Osteoradionecrosis Following Transferred Fibula Flap for Head and Neck Tumor Resection and Segmental Mandibulectomy Open
View article: 159. Differences In Age-related Regenerative Decline Using a Wound-Induced Hair Neogenesis (WIHN) Model
159. Differences In Age-related Regenerative Decline Using a Wound-Induced Hair Neogenesis (WIHN) Model Open
View article: RNase L represses hair follicle regeneration through altered innate immune signaling
RNase L represses hair follicle regeneration through altered innate immune signaling Open
Mammalian injury responses are predominantly characterized by fibrosis and scarring rather than functional regeneration. This limited regenerative capacity in mammals could reflect a loss of proregeneration programs or active suppression b…
View article: mRNA lipid nanoparticle-incorporated nanofiber-hydrogel composite generates a local immunostimulatory niche for cancer immunotherapy
mRNA lipid nanoparticle-incorporated nanofiber-hydrogel composite generates a local immunostimulatory niche for cancer immunotherapy Open
Hydrogel materials have emerged as versatile platforms for various biomedical applications. Notably, the engineered nanofiber-hydrogel composite (NHC) has proven effective in mimicking the soft tissue extracellular matrix, facilitating sub…
View article: Granular Nanofiber‐Hydrogel Composite‐Programmed Regenerative Inflammation and Adipose Tissue Formation
Granular Nanofiber‐Hydrogel Composite‐Programmed Regenerative Inflammation and Adipose Tissue Formation Open
The interplay between biomaterials and host immune responses critically determines outcomes in tissue restoration. Recent studies suggest that physicochemical properties of materials can dictate pro‐regenerative versus pro‐fibrotic respons…
View article: Supramolecular assembly of polycation/mRNA nanoparticles and in vivo monocyte programming
Supramolecular assembly of polycation/mRNA nanoparticles and in vivo monocyte programming Open
Size-dependent phagocytosis is a well-characterized phenomenon in monocytes and macrophages. However, this size effect for preferential gene delivery to these important cell targets has not been fully exploited because commonly adopted sta…
View article: Commensal microbe regulation of skin cells in disease
Commensal microbe regulation of skin cells in disease Open
View article: CODA (part 2): calculate registration on low-resolution tissue images | HuBMAP | JHU-TMC v2
CODA (part 2): calculate registration on low-resolution tissue images | HuBMAP | JHU-TMC v2 Open
CODA workflow part 2. Calculate registration on low-resolution tissue images
View article: SenNet Case Selection Protocol | JHU TMC v2
SenNet Case Selection Protocol | JHU TMC v2 Open
Inclusion Age below 30 or above 50. English Speaking. Able to provide consent. Resected pancreas tissue. Clear and normalstructured islets of Langerhans, acinus, and ducts from H&E. Exclusion Large region of squamousmetaplasia or PanIN. Ab…
View article: Donor Case Selection | HuBMAP | JHU-TMC v2
Donor Case Selection | HuBMAP | JHU-TMC v2 Open
Donor case selection protocol for Johns Hopkins TMC describes criteria for human tissue biopsy collection.
View article: CODA (part 3): deep learning tissue structures labeling | HuBMAP | JHU-TMC v2
CODA (part 3): deep learning tissue structures labeling | HuBMAP | JHU-TMC v2 Open
In this section, we describe steps to create a basic semantic segmentation algorithm using CODA. CODA uses a modified resnet50 network adapted for semantic segmentation using an implementation of DeepLab. Here, we describe how to generate …
View article: CODA: shorthand for calling functions | HuBMAP | JHU-TMC v2
CODA: shorthand for calling functions | HuBMAP | JHU-TMC v2 Open
To downsample ndpi or svs images to 10x, 5x, and 1x tifs, use this function: create_downsampled_tif_imagesor try Openslide in python To calculate registration on the low resolution (1x) images 1. calculate the tissue area and background pi…
View article: CODA (part 5): nuclear coordinate generation | HuBMAP | JHU-TMC v2
CODA (part 5): nuclear coordinate generation | HuBMAP | JHU-TMC v2 Open
In this section, generate nuclear coordinates on thehigh-resolution H&E images through color deconvolution and identificationof two-dimensional intensity minimums in the hematoxylin channels of the images(corresponding to the dark blue nuc…
View article: CODA (part 4): register the deep learning labelled images and Construct 3D tissue matrix | HuBMAP | JHU-TMC v2
CODA (part 4): register the deep learning labelled images and Construct 3D tissue matrix | HuBMAP | JHU-TMC v2 Open
CODA (part 4): register the deep learning labelled images and Construct 3D tissue matrix
View article: CODA (part 1): setting up environment and preparing sample dataset | HuBMAP | JHU-TMC v2
CODA (part 1): setting up environment and preparing sample dataset | HuBMAP | JHU-TMC v2 Open
CODA workflow part 1. setting up environment and preparing dataset
View article: CODA (part 6): register the nuclear coordinates and construct 3D cell matrix | HuBMAP | JHU-TMC v2
CODA (part 6): register the nuclear coordinates and construct 3D cell matrix | HuBMAP | JHU-TMC v2 Open
Using the registration transformations calculated in low-resolution (as described CODA (part 2): calculate registration on low-resolution tissue images), register the nuclear coordinates generated in CODA (part 5): nuclear coordinate gener…
View article: CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC v2
CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC v2 Open
CODA pipeline with 6 parts
View article: Tissue H&E Staining | HuBMAP | JHU-TMC v2
Tissue H&E Staining | HuBMAP | JHU-TMC v2 Open
The following are guidelines that will have an effective staining window of 2 to 5 minutes. Developed as progressive stains, the intensity of nuclear staining will increase as the time increases. The hematoxylin and eosin stains will have …
View article: Tissue Fixation | HubMAP | JHU-TMC v2
Tissue Fixation | HubMAP | JHU-TMC v2 Open
First and most important - the original tissue sample must be of good quality. Factors such as warm ischemic time, the time delay between tissue excision and fixation, etc. are important. Ideally, tissues should be acquired as close to sti…
View article: Tissue Harvesting | HuBMAP | JHU-TMC v2
Tissue Harvesting | HuBMAP | JHU-TMC v2 Open
This protocol describes how to harvest human tissue biopsy and prepare it for histological processes
View article: Tissue H&E Staining | HuBMAP | JHU-TMC v2
Tissue H&E Staining | HuBMAP | JHU-TMC v2 Open
The following are guidelines that will have an effective staining window of 2 to 5 minutes. Developed as progressive stains, the intensity of nuclear staining will increase as the time increases. The hematoxylin and eosin stains will have …
View article: Paraffin embedding of tissue specimen | HuBMAP | JHU-TMC v2
Paraffin embedding of tissue specimen | HuBMAP | JHU-TMC v2 Open
The standard for tissue embedding is to ensure tissue samples are appropriately oriented and embedded on the “cut edge” or flattest edge available. Histology laboratories that receive mostly soft tissues prefer a “softer” paraffin as oppos…
View article: qMAP enabled microanatomical mapping of human skin aging
qMAP enabled microanatomical mapping of human skin aging Open
Aging is a major driver of diseases in humans. Identifying features associated with aging is essential for designing robust intervention strategies and discovering novel biomarkers of aging. Extensive studies at both the molecular and orga…
View article: Paraffin embedding of tissue specimen | HuBMAP | JHU-TMC v1
Paraffin embedding of tissue specimen | HuBMAP | JHU-TMC v1 Open
The standard for tissue embedding is to ensure tissue samples are appropriately oriented and embedded on the “cut edge” or flattest edge available. Histology laboratories that receive mostly soft tissues prefer a “softer” paraffin as oppos…
View article: Tissue H&E Staining | HuBMAP | JHU-TMC v1
Tissue H&E Staining | HuBMAP | JHU-TMC v1 Open
The following are guidelines that will have an effective staining window of 2 to 5 minutes. Developed as progressive stains, the intensity of nuclear staining will increase as the time increases. The hematoxylin and eosin stains will have …