MatrixDB (http://matrixdb.univ-lyon1.fr/) is an interaction database focused on biomolecular interactions established by extracellular matrix (ECM) proteins and glycosaminoglycans (GAGs). It is an active member of the International Molecular Exchange (IMEx) consortium (https://www.imexconsortium.org/). It has adopted the HUPO Proteomics Standards Initiative standards for annotating and exchanging interaction data, either at the MIMIx (The Minimum Information about a Molecular Interaction eXperiment) or IMEx level. The following items related to GAGs have been added in the updated version...

BACKGROUND: The extracellular matrix (ECM) is a fundamental component of multicellular organisms that orchestrates developmental processes and controls cell and tissue organization. We previously identified the novel ECM protein SNED1 as a promoter of breast cancer metastasis and showed that its level of expression negatively correlated with breast cancer patient survival. Here, we sought to identify the roles of SNED1 during murine development. RESULTS: We generated two novel Sned1 knockout mouse strains and showed that...

Using baseline data collected for a larger evaluation of an Illinois act requiring healthier beverage defaults with kids’ meals, this study provides evidence on the extent of quantity discounts for regular soda fountain drink offerings in fast-food restaurants.

Supplemental material, sj-tif-2-tan-10.1177_17562864221135700 for Long-term use of proton-pump inhibitor on Alzheimer’s disease: a real-world distributed network analysis of six observational Korean databases using a Common Data Model by Yerim Kim, Seung In Seo, Kyung Joo Lee, Jinseob Kim, Jong Jin Yoo, Won-Woo Seo, Hyung Seok Lee and Woon Geon Shin in Therapeutic Advances in Neurological Disorders

Supplemental material, sj-tif-2-tan-10.1177_17562864221135700 for Long-term use of proton-pump inhibitor on Alzheimer’s disease: a real-world distributed network analysis of six observational Korean databases using a Common Data Model by Yerim Kim, Seung In Seo, Kyung Joo Lee, Jinseob Kim, Jong Jin Yoo, Won-Woo Seo, Hyung Seok Lee and Woon Geon Shin in Therapeutic Advances in Neurological Disorders

The PAT family of lipid storage droplet proteins comprised five members, each of which has become an established regulator of cellular neutral lipid metabolism. Perilipin 5 (also known as lsdp-5, MLDP, PAT-1, and OXPAT), the most recently discovered member of the family, has been shown to localize to two distinct intracellular pools: the lipid storage droplet (LD), and a poorly characterized cytosolic fraction. We have characterized the denser of these intracellular pools and find that...

Supplementary figures 1-3 MEHP supplementary data Supplementary materials

Osseointegrated titanium implants to the cranial skeleton for retention of facial prostheses have proven to be a reliable replacement for adhesive systems. However, improper placement of the implants can jeopardize prosthetic outcomes, and long-term success of an implant-retained prosthesis. Three-dimensional (3D) computer imaging, virtual planning, and 3D printing have become accepted components of the preoperative planning and design phase of treatment. Computer-aided design and computer-assisted manufacture that employ cone-beam computed tomography data offer benefits to...

Microarray analysis of full thickness 1-mm dorsal mouse wounds over the time course of healing. Bars indicate mean ± SD. N=3 at each time point. 0 days post-wounding is normal skin. * = p < 0.05, ** = p < 0.001, *** = p < 0.001. One-way ANOVA followed by two-stage linear step-up procedure of Benjamini, Krieger and Yekutieli post-hoc testing (vs 0).

A representative image of immunofluorescence detection of MFAP5 (red) in human keloid scars. Nuclei in blue (DAPI).

Metastasis causes most cancer-related deaths, and one poorly understood aspect of metastatic cancer is the adaptability of cells from a primary tumor to create new niches and survive in multiple, different secondary sites. We used quantitative mass spectrometry to analyze the extracellular matrix (ECM), a critical component of metastatic niches, in metastases to the brain, lungs, liver, and bone marrow, all derived from parental MDA-MB-231 triple-negative breast cancer cells. Tumor and stromal cells cooperated in...

Metastasis causes most cancer-related deaths, and one poorly understood aspect of metastatic cancer is the adaptability of cells from a primary tumor to create new niches and survive in multiple, different secondary sites. We used quantitative mass spectrometry to analyze the extracellular matrix (ECM), a critical component of metastatic niches, in metastases to the brain, lungs, liver, and bone marrow, all derived from parental MDA-MB-231 triple-negative breast cancer cells. Tumor and stromal cells cooperated in...

Supplemental material, sj-docx-1-tec-10.1177_17474930221133219 for Risks of long-term use of proton pump inhibitor on ischemic vascular events: A distributed network analysis of 5 real-world observational Korean databases using a common data model by Yerim Kim, Seung In Seo, Kyung Joo Lee, Jinseob Kim, Jong Jin Yoo, Won-Woo Seo and Woon Geon Shin in International Journal of Stroke

Supplementary material accompanying manuscript.
File S1: Details of methods and results obtained when searching for a DNA sequence motif for HstA and HpyA binding. Figure S1: ∆hstA phenotype in response to diverse stress conditions. (A) Raw growth curves of multiple biological replicate cultures under standard growth conditions (YPC medium, 2.5M NaCl, 0.3 M Mg2+, 42ºC). (B-E) Each graph depicts the area under the log-transformed growth curve (AUC) under the conditions indicated at the top...

Progesterone (P(4)) maintains uterine quiescence during the majority of pregnancy, whereas diminished progesterone receptor (PR) expression and/or activity (ie, functional P(4) withdrawal) promotes parturition. To investigate the regulation of PR expression in cervical stroma, fibroblasts from premenopausal hysterectomy specimens were prepared. Greater than 99% of the cultures were vimentin positive (mesenchymal cell marker) with only occasional cytokeratin-8 positivity (epithelial cell marker) and no evidence of CD31-positive (endothelial cell marker) cells. Cells were immunolabeled with antibodies...

PROBLEM: Neutrophil gelatinase-associated lipocalin (NGAL) is expressed in neutrophils and involved in innate immunity by sequestering iron. NGAL's ability to complex with matrix metalloproteinase-9 (MMP-9) and extend its gelatinolytic activity led us to investigate its role in pregnancies complicated by preterm birth (PTB) and intra-amniotic infection/inflammation (IAI). METHOD OF STUDY: We assayed the amniotic fluid (AF) levels of NGAL and MMP-9 in 308 women that had a clinically indicated amniocentesis and a normal pregnancy outcome...

Patient Adherence to Immunosuppressive Therapy for Chronic Inflammatory Eye Disease To investigate adherence rates to immunosuppressive therapy (IMT) for treatment of noninfectious inflammatory eye disease (IED), adherence and disease control, and factors associated with nonadherence. Retrospective review of medical charts from 2015 to 2020 was conducted on patients with IED at 6 months, 1 and 2 years after initiation of IMT. Of 183 patients, adherence rates at 6 months and 1 year were 70% and...

Mammalian CST (CTC1-STN1-TEN1) complex fulfills numerous functions including rescue of the stalled replication forks and termination of telomerase action. In fission yeast lacking the CTC1 ortholog, the Stn1-Ten1 complex restricts telomerase action via its sumoylation-mediated interaction with Tpz1TPP1. We identify a small ubiquitin-like modifier (SUMO)-interacting motif (SIM) in the carboxyl-terminal part of Stn1 and show that this domain is crucial for SUMO and Tpz1-SUMO interactions. Point mutations in the SIM (Stn1-226) lead to telomere elongation,...

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VEGF-A induces vascular leakage and angiogenesis via activating the cell surface localized receptor VEGF receptor 2 (VEGFR2). The amount of available VEGFR2 at the cell surface is however tightly regulated by trafficking of VEGFR2 by kinesin family 13 B (KIF13B), a plus-end kinesin motor, to the plasma membrane of endothelial cells (ECs). Competitive inhibition of interaction between VEGFR2 and KIF13B by a peptide kinesin-derived angiogenesis inhibitor (KAI) prevented pathological angiogenesis in models of cancer and...

We develop a deep learning model (DL) for Indian Summer Monsoon (ISM) short-range precipitation forecasting using a ConvLSTM network. The model is built using daily precipitation records from both ground-based observations and remote sensing. Precipitation datasets from the Tropical Rainfall Measuring Mission and the India Meteorological Department are used for training, testing, forecasting, and comparison. For lead days 1 and 2, the correlation coefficient (CC), which was determined using predicted data from the previous five...

Multidrug-resistant tuberculosis (MDR-TB) is a refractory disease with high mortality rate due to no or few choices of antibiotics. Adjunctive immunotherapy may help improve treatment outcome of MDR-TB. Our decade-long studies demonstrated that phosphoantigen-specific Vγ2Vδ2 T cells play protective roles in immunity against TB. Here, we hypothesized that enhancing protective Vγ2Vδ2 T-effector cells could improve treatment outcome of MDR-TB. To address this, we employed clinically approved drugs Zoledronate (ZOL) and IL-2 to induce anti-TB Vγ2Vδ2...

Where does one look to study cities around the world? How does a librarian build a collection that moves beyond a limited Western focus to incorporate post-colonial and indigenous experiences? And how can such analysis be automated to allow practitioners at disparate institutions to diversify their own collections? These questions are important as Urban Planning tries to incorporate a variety of practices in human settlement from across the world. Building on previous research related to...

Abstract Ferroptosis provides an opportunity to overcome the cancer cell therapeutic resistance and modulate the immune system. Here an interaction between ferroptosis of cancer cells and natural killer (NK) cells was investigated with a clinical grade iron oxide nanoparticle (ferumoxytol) for potential synergistic anti-cancer effect of ferroptosis and NK cell therapy in prostate cancer. When ferumoxytol mediated ferroptosis of cancer cells was combined with NK cells, the NK cells’ cytotoxic function was increased. Observed ferroptosis...