214 Works

The Effect of Repeat Exposure to Simulation Based Items

Xiaodan Tang & Matthew Schultz

Adjunctive Zoledronate + IL-2 administrations enhance anti-tuberculosis Vγ2Vδ2 T-effector populations, and improve treatment outcome of multidrug-resistant tuberculosis1

Hongbo Shen, Enzhuo Yang, Ming Guo, Rui Yang, Guixian Huang, Ying Peng, Wei Sha, Feifei Wang & Ling Shen
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...

Mapping a World of Urban Planning Literature: GIS Analysis to Address Equity Gaps in a Library Collection

Benjamin Aldred
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...

Distinct cellular pools of perilipin 5 point to roles in lipid trafficking

Sadie R Bartholomew, Erica Hlavin Bell, Taryn Summerfield, Leslie C Newman, Erin L Miller, Brian Patterson, Zach P Niday, William Ackerman & John T Tansey
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...

Integrated microRNA and mRNA network analysis of the human myometrial transcriptome in the transition from quiescence to labor,

William Ackerman, Irina Buhimschi, Douglas Brubaker, Sean Maxwell, Kara M Rood, Mark R Chance, Hongwu Jing, Sam Mesiano & Catalin Buhimschi
We conducted integrated transcriptomics network analyses of miRNA and mRNA interactions in human myometrium to identify novel molecular candidates potentially involved in human parturition. Myometrial biopsies were collected from women undergoing primary Cesarean deliveries in well-characterized clinical scenarios: (1) spontaneous term labor (TL, n = 5); (2) term nonlabor (TNL, n = 5); (3) spontaneous preterm birth (PTB) with histologic chorioamnionitis (PTB-HCA, n = 5); and (4) indicated PTB nonlabor (PTB-NL, n = 5). RNAs...

MatrixDB: integration of new data with a focus on glycosaminoglycan interactions

Olivier Clerc, Madeline Deniaud, Sylvain D Vallet, Alexandra Naba, Alain Rivet, Serge Perez, Nicolas Thierry-Mieg & Sylvie Ricard-Blum
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...

KIF13B - mediated VEGFR2 trafficking is essential for vascular leakage and metastasis in vivo

Stephen B Waters, Joseph R Dominguez, Hyun-Dong Cho, Nicolene A Sarich, Asrar B Malik & Kaori Yamada
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...

The hexokinase “HKDC1” interaction with the mitochondria is essential for liver cancer progression

Md Wasim Khan, Alexander R Terry, Medha Priyadarshini, Vladimir Ilievski, Zeenat Farooq, Grace Guzman, Jose Cordoba-Chacon, Issam Ben-Sahra, Barton Wicksteed & Brian Layden
Liver cancer (LC) is the fourth leading cause of death from cancer malignancies. Recently, a putative fifth hexokinase, hexokinase domain containing 1 (HKDC1), was shown to have significant overexpression in LC compared to healthy liver tissue. Using a combination of in vitro and in vivo tools, we examined the role of HKDC1 in LC development and progression. Importantly, HKDC1 ablation stops LC development and progression via its action at the mitochondria by promoting metabolic reprogramming...

The hexokinase “HKDC1” interaction with the mitochondria is essential for liver cancer progression

Md Wasim Khan, Alexander R Terry, Medha Priyadarshini, Vladimir Ilievski, Zeenat Farooq, Grace Guzman, Jose Cordoba-Chacon, Issam Ben-Sahra, Barton Wicksteed & Brian Layden
Liver cancer (LC) is the fourth leading cause of death from cancer malignancies. Recently, a putative fifth hexokinase, hexokinase domain containing 1 (HKDC1), was shown to have significant overexpression in LC compared to healthy liver tissue. Using a combination of in vitro and in vivo tools, we examined the role of HKDC1 in LC development and progression. Importantly, HKDC1 ablation stops LC development and progression via its action at the mitochondria by promoting metabolic reprogramming...

Spatial-omics: Novel approaches to probe cell heterogeneity and extracellular matrix biology

Grace C Bingham, Fred Lee, Alexandra Naba & Thomas H Barker
Complex intercellular interactions as well as biomolecular and biomechanical cues from the extracellular matrix (ECM) profoundly affect cellular functions. Traditional transcriptomic and proteomic approaches have provided insight into disease progression by identifying discrete cellular subpopulations or microenvironmental signatures characteristic of normal or pathological tissues, however these techniques do not examine how a given cellular state relates to its interactions with neighboring cells or its surrounding ECM with multiparametric characterization (i.e. ECM alignment, mechanical forces, crosslinking,...

Dysregulation of Lipid Metabolism in Mkp-1 Deficient Mice during Gram-Negative Sepsis

Jinhui Li, Xiantao Wang, William Ackerman, Abel J Batty, Sean G Kirk, William M White, Xianxi Wang, Dimitrios Anastasakis, Lobelia Samavati, Irina Buhimschi, Leif D Nelin, Markus Hafner & Yusen Liu
Mitogen-activated protein kinase phosphatase (Mkp)-1 exerts its anti-inflammatory activities during Gram-negative sepsis by deactivating p38 and c-Jun N-terminal kinase (JNK). We have previously shown that Mkp-1+/+ mice, but not Mkp-1-/- mice, exhibit hypertriglyceridemia during severe sepsis. However, the regulation of hepatic lipid stores and the underlying mechanism of lipid dysregulation during sepsis remains an enigma. To understand the molecular mechanism underlying the sepsis-associated metabolic changes and the role of Mkp-1 in the process, we infected...

Comprehensive proteomic characterization of stem cell-derived extracellular matrices

Héloïse Ragelle, Alexandra Naba, Benjamin L Larson, Fangheng Zhou, Miralem Prijić, Charles A Whittaker, Amanda Del Rosario, Robert Langer, Richard O Hynes & Daniel G Anderson
In the stem-cell niche, the extracellular matrix (ECM) serves as a structural support that additionally provides stem cells with signals that contribute to the regulation of stem-cell function, via reciprocal interactions between cells and components of the ECM. Recently, cell-derived ECMs have emerged as in vitro cell culture substrates to better recapitulate the native stem-cell microenvironment outside the body. Significant changes in cell number, morphology and function have been observed when mesenchymal stem cells (MSC)...

The fission yeast Stn1-Ten1 complex limits telomerase activity via its SUMO-interacting motif and promotes telomeres replication

Samah Matmati, Mélina Vaurs, José M Escandell, Laetitia Maestroni, Toru Nakamura, Miguel G Ferreira, Vincent Géli & Stéphane Coulon
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,...

Targeted Gene Inactivation of Calpain-1 Suppresses Cortical Degeneration Due to Traumatic Brain Injury and Neuronal Apoptosis Induced by Oxidative Stress*

Kaori Yamada, Dorothy A Kozlowski, Stacey E Seidl, Steven Lance, Adam J Wieschhaus, Premanand Sundivakkam, Chinnaswamy Tiruppathi, Imran Chishti, Ira M Herman, Shafi Kuchay & Athar H Chishti
Calpains are calcium-regulated cysteine proteases that have been implicated in the regulation of cell death pathways. Here, we used our calpain-1 null mouse model to evaluate the function of calpain-1 in neural degeneration following a rodent model of traumatic brain injury. In vivo, calpain-1 null mice show significantly less neural degeneration and apoptosis and a smaller contusion 3 days post-injury than wild type littermates. Protection from traumatic brain injury corroborated with the resistance of calpain-1...

Skin Microbiota in Obese Women at Risk for Surgical Site Infection After Cesarean Delivery

Kara M Rood, Irina Buhimschi, Joseph A Jurcisek, Taryn L Summerfield, Guomao Zhao, William Ackerman, Weiwei Wang, R Wolfgang Rumpf, Stephen F Thung, Lauren O Bakaletz & Catalin Buhimschi
The obesity pandemic in the obstetrical population plus increased frequency of Cesarean delivery (CD) has increased vulnerability to surgical site infection (SSI). Here we characterized the microbiome at the site of skin incision before and after CD. Skin and relevant surgical sites were sampled before and after surgical antisepsis from obese (n = 31) and non-obese (n = 27) pregnant women. We quantified bacterial biomass by qPCR, microbial community composition by 16sRNA sequencing, assigned operational...

Proteomic Profiling of the ECM of Xenograft Breast Cancer Metastases in Different Organs Reveals Distinct Metastatic Niches

Jess D Hebert, Samuel A Myers, Alexandra Naba, Genevieve Abbruzzese, John M Lamar, Steven A Carr & Richard O Hynes
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...

Proteomic Profiling of the ECM of Xenograft Breast Cancer Metastases in Different Organs Reveals Distinct Metastatic Niches

Jess D Hebert, Samuel A Myers, Alexandra Naba, Genevieve Abbruzzese, John M Lamar, Steven A Carr & Richard O Hynes
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...

A novel approach in preventing vascular leakage and angiogenesis in wet age-related macular degeneration

Kaori Yamada
No description supplied

Connecting the dots on vertical transmission of SARS-CoV-2 using protein-protein interaction network analysis – Potential roles of placental ACE2 and ENDOU

Hongwu Jing, William Ackerman, Guomao Zhao, Yara El Helou, Catalin Buhimschi & Irina Buhimschi
We conducted a protein-protein interaction (PPI) network study searching for proteins relevant to pregnancy-associated COVID-19 in pregnancy complicated with severe preeclampsia (sPE) and intra-amniotic infection and/or inflammation (Triple-I). PPI networks from sPE and Triple-I were intersected with the PPI network from coronavirus infection. Common proteins included the SARS-CoV-2 entry receptor ACE2 and ENDOU, a placental endoribonuclease homologous to Nsp15, a protein produced by the virus to escape host immunity. Remarkably, placental ENDOU mRNA expression far...

Additional file 1 of Black carbon content in airway macrophages is associated with increased severe exacerbations and worse COPD morbidity in SPIROMICS

Vickram Tejwani, Han Woo, Chen Liu, Anna K. Tillery, Amanda J. Gassett, Richard E. Kanner, Eric A. Hoffman, Fernando J. Martinez, Prescott G. Woodruff, R. Graham Barr, Ashraf Fawzy, Kirsten Koehler, Jeffrey L. Curtis, Christine M. Freeman, Christopher B. Cooper, Alejandro P. Comellas, Cheryl Pirozzi, Robert Paine, Donald Tashkin, Jerry A. Krishnan, Coralynn Sack, Nirupama Putcha, Laura M. Paulin, Marina Zusman, Joel D. Kaufman … & Nadia N. Hansel
Supplementary Material 1

Evidence for participation of neutrophil gelatinase‐associated lipocalin/matrix metalloproteinase‐9 (NGAL•MMP‐9) complex in the inflammatory response to infection in pregnancies complicated by preterm birth

Kara M Rood, Irina Buhimschi, Katherine Rodewald Millen, Mert O Bahtiyar, Stephen Thung, Taryn Summerfield, Guomao Zhao, William Ackerman, Cynthia Shellhaas, Philip Samuels & Catalin Buhimschi
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...

In-silico definition of the Drosophila melanogaster matrisome

Martin N Davis, Sally Horne-Badovinac & Alexandra Naba
The extracellular matrix (ECM) is an assembly of hundreds of proteins that structurally supports the cells it surrounds and biochemically regulates their functions. Drosophila melanogaster has emerged as a powerful model organism to study fundamental mechanisms underlying ECM protein secretion, ECM assembly, and ECM roles in pathophysiological processes. However, as of today, we do not possess a well-defined list of the components forming the ECM of this organism. We previously reported the development of computational...

Agonist-Dependent Downregulation of Progesterone Receptors in Human Cervical Stromal Fibroblasts

William Ackerman, Taryn L Summerfield, Sam Mesiano, Frederick Schatz, Charles J Lockwood & Douglas A Kniss
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...

Carrying L’Intrus: The transport-station of an organ transplant

Margarita Saona
The experience of heart transplantation shocks not only the body, but also the sense of self. As a heart transplant survivor, I find that the Ettingerian concepts of the transport-station of trauma, of wit(h)nessing, metramorphosis, and carriance provide an understanding of how—as humans—we are able to transcend the traditional notions of self through borderlinking. Jean-Luc Nancy’s L’Intrus explored the limits of the self as he wrote about his heart transplant, when he was confronted with...

sj-docx-1-tec-10.1177_17474930221133219 – Supplemental material 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

Yerim Kim, Seung In Seo, Kyung Joo Lee, Jinseob Kim, Jong Jin Yoo, Won-Woo Seo & Woon Geon Shin
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

Registration Year

  • 2023
    38
  • 2022
    172
  • 2021
    2
  • 2020
    2

Resource Types

  • Text
    214

Affiliations

  • University of Illinois at Chicago
    214
  • Sun Yat-sen University
    11
  • Zhejiang University
    11
  • University of Washington
    10
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    9
  • London School of Hygiene & Tropical Medicine
    8
  • University of Vermont
    7
  • Shanghai Jiao Tong University
    7
  • Massachusetts General Hospital
    6
  • West China Hospital of Sichuan University
    6