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https://www.readbyqxmd.com/read/30316740/secret-aar-a-web-server-to-assess-the-antigenic-density-of-proteins-and-homology-search-against-bacterial-and-parasite-secretome-proteins
#1
Fernanda Cornejo-Granados, Juan Manuel Hurtado-Ramírez, Rogelio Hernández-Pando, Adrián Ochoa-Leyva
The secretome refers to all the Excreted/Secreted (ES) proteins, and these are involved in critical biological processes, such as cell-cell communication, and host immune response. Recently, we introduced the abundance of antigenic regions (AAR) value to assess the protein antigenic density and to evaluate the antigenic potential of secretomes. Here, to facilitate the AAR calculation, we implemented it as a user-friendly webserver. We extended the webserver capabilities implementing a sequence-based tool for searching homologous proteins across secretomes, including experimental and predicted secretomes of Mycobacterium tuberculosis and Taenia solium...
October 11, 2018: Genomics
https://www.readbyqxmd.com/read/30315825/tcf4-promotes-erythroid-development
#2
Florentien E M In 't Hout, Jolanda van Duren, Davide Monteferrario, Emma Brinkhuis, Niccolo Mariani, Theresia M Westers, Dana Chitu, Gorica Nikoloski, Arjan A van de Loosdrecht, Bert A van der Reijden, Joop H Jansen, Gerwin Huls
Transcription factor 4 (TCF4) is implicated in lymphoid cell differentiation and its expression predicts outcome in acute myeloid leukemia. Here, we investigated the role of TCF4 in myelopoiesis. Overexpression of TCF4 (TCF4OE) in umbilical cord blood (UCB) cells resulted in a 2-fold increase in erythroid colony forming units (CFU-Es), while knock-down of TCF4 (TCF4KD) caused a dramatic decrease in the number of erythroid colonies. In CFU-MKs, both TCF4KD and TCF4OE inhibited megakaryocyte colony formation...
October 10, 2018: Experimental Hematology
https://www.readbyqxmd.com/read/30314832/ewing-s-sarcoma-and-or-peripheral-primitive-neuroectodermal-tumorsin-bronchus
#3
REVIEW
Jun Chen, Tao Yuan, Xiao Liu, Bei Hua, Chenfeng Dong, Yawu Liu, Guanmin Quan
Ewing sarcoma/peripheral primitive neuroectodermal tumors (ES/pPNET), a member of the Ewing sarcoma family of tumors, is a malignant soft tissue tumor with small undifferentiated neuroectodermal cells. Primary trachea-bronchial ES/pPNET is very rare. The most common pulmonary ES is due to a metastasis. We describe a case of ES/pPNET which originated in the left basal trunk bronchus. The patient was a 30-year-old male, presenting with irritable cough and fever for 10 days. A tumor of 60 mm in diameter was found in the left basal trunk bronchus, extending to the left lower lobe...
August 22, 2018: American Journal of the Medical Sciences
https://www.readbyqxmd.com/read/30308381/high-fat-diet-affects-pregestational-adiposity-and-glucose-tolerance-perturbing-gestational-placental-macronutrient-transporters-culminating-in-an-obese-offspring-in-wild-type-and-glucose-transporter-isoform-3-heterozygous-null-mice
#4
Amit Ganguly, Sherin U Devaskar
We examined the effect of a high-fat diet (HFD) vs. control diet (CD) upon pregestational and gestational wild-type (wt) and glucose transporter (glut)3 heterozygous (glut3+/- ) female mice and observed an increase in pregestational body weights, white adiposity (wt > glut3+/- ), circulating cholesterol, and high-density lipoproteins, with glucose intolerance in both genotypes. The HFD-exposed offspring displayed reduced birth weight with catch up to CD-fed in wt vs. an increased birth weight persisting as such at weaning by day 21 in glut3+/- mice...
September 13, 2018: Journal of Nutritional Biochemistry
https://www.readbyqxmd.com/read/30307948/transcription-factor-programming-of-human-es-cells-generates-functional-neurons-expressing-both-upper-and-deep-layer-cortical-markers
#5
Giedre Miskinyte, Marita Grønning Hansen, Emanuela Monni, Matti Lam, Johan Bengzon, Olle Lindvall, Henrik Ahlenius, Zaal Kokaia
Human neurodegenerative disorders affect specific types of cortical neurons. Efficient protocols for the generation of such neurons for cell replacement, disease modeling and drug screening are highly warranted. Current methods for the production of cortical neurons from human embryonic stem (ES) cells are often time-consuming and inefficient, and the functional properties of the generated cells have been incompletely characterized. Here we have used transcription factor (TF) programming with the aim to induce rapid differentiation of human ES cells to layer-specific cortical neurons (hES-iNs)...
2018: PloS One
https://www.readbyqxmd.com/read/30305734/neural-blastocyst-complementation-enables-mouse-forebrain-organogenesis
#6
Amelia N Chang, Zhuoyi Liang, Hai-Qiang Dai, Aimee M Chapdelaine-Williams, Nick Andrews, Roderick T Bronson, Bjoern Schwer, Frederick W Alt
Genetically modified mice are commonly generated by the microinjection of pluripotent embryonic stem (ES) cells into wild-type host blastocysts1 , producing chimeric progeny that require breeding for germline transmission and homozygosity of modified alleles. As an alternative approach and to facilitate studies of the immune system, we previously developed RAG2-deficient blastocyst complementation2 . Because RAG2-deficient mice cannot undergo V(D)J recombination, they do not develop B or T lineage cells beyond the progenitor stage2 : injecting RAG2-sufficient donor ES cells into RAG2-deficient blastocysts generates somatic chimaeras in which all mature lymphocytes derive from donor ES cells...
October 10, 2018: Nature
https://www.readbyqxmd.com/read/30300721/active-dna-demethylation-by-dnmt3a-and-dnmt3b-in-vitro-and-of-methylated-episomal-dna-in-transiently-transfected-cells
#7
Biswanath Chatterjee, Miao-Hsia Lin, Chun-Chang Chen, Kai-Lin Peng, Mu-Sheng Wu, Mei-Chun Tseng, Yu-Ju Chen, Che-Kun James Shen
The DNA methylation program in vertebrates is an essential part of the epigenetic regulatory cascade of development, cell differentiation, and progression of diseases including cancer. While the DNA methyltransferases (DNMTs) are responsible for the in vivo conversion of cytosine (C) to methylated cytosine (5mC), demethylation of 5mC on cellular DNA could be accomplished by the combined action of the ten-eleven translocation (TET) enzymes and DNA repair. Surprisingly, the mammalian DNMTs also possess active DNA demethylation activity in vitro in a Ca2+ - and redox conditions-dependent manner, although little is known about its molecular mechanisms and occurrence in a cellular context...
October 6, 2018: Biochimica et biophysica acta. Gene regulatory mechanisms
https://www.readbyqxmd.com/read/30297839/an-evolutionarily-conserved-mesodermal-enhancer-in-vertebrate-zic3
#8
Yuri S Odaka, Takahide Tohmonda, Atsushi Toyoda, Jun Aruga
Zic3 encodes a zinc finger protein essential for the development of meso-ectodermal tissues. In mammals, Zic3 has important roles in the development of neural tube, axial skeletons, left-right body axis, and in maintaining pluripotency of ES cells. Here we characterized cis-regulatory elements required for Zic3 expression. Enhancer activities of human-chicken-conserved noncoding sequences around Zic1 and Zic3 were screened using chick whole-embryo electroporation. We identified enhancers for meso-ectodermal tissues...
October 8, 2018: Scientific Reports
https://www.readbyqxmd.com/read/30291790/fna-of-epithelioid-sarcoma-curie-institute-experience-and-critical-review-of-the-literature
#9
Paweł Gajdzis, Marick Laé, Jerzy Klijanienko
BACKGROUND: Epithelioid sarcoma (ES) is a rare mesenchymal tumor that is divided into 2 types: classic and proximal. To the authors' knowledge, ES has been poorly studied in cytology, with fewer than 50 cases reported to date. The objective of the current study was to analyze the cytological and immunohistochemical information regarding 5 cases of ES. METHODS: Five cases of ES were analyzed: 4 of proximal type and 1 of classic type. The cases were taken from 4 female patients and 1 male patient...
October 6, 2018: Cancer Cytopathology
https://www.readbyqxmd.com/read/30290185/application-of-induced-pluripotent-stem-cell-transplants-autologous-or-allogeneic
#10
REVIEW
Chenxu Li, Shubin Chen, Yulai Zhou, Yifan Zhao, Pengfei Liu, Jinglei Cai
The development of induced pluripotent stem cells (iPS cells) has raised the prospect of patient-specific treatments for various diseases. Theoretically, iPS cell technology avoids the limitations of human embryonic stem cells (ES cells), including poor establishment, ethical issues, and immune rejection of allogeneic transplantation. However, the immunogenicity of iPS cells has attracted the attention of researchers, and it remains unclear whether iPS cells and their derivatives will be recognized as a patient's own cells...
October 2, 2018: Life Sciences
https://www.readbyqxmd.com/read/30287745/a-disposable-photovoltaic-patch-controlling-cellular-microenvironment-for-wound-healing
#11
Hyeon-Ki Jang, Jin Young Oh, Gun-Jae Jeong, Tae-Jin Lee, Gwang-Bum Im, Ju-Ro Lee, Jeong-Kee Yoon, Dong-Ik Kim, Byung-Soo Kim, Suk Ho Bhang, Tae Il Lee
Electrical stimulation (ES) is known to affect the wound healing process by modulating skin cell behaviors. However, the conventional clinical devices that can generate ES for promoting wound healing require patient hospitalization due to large-scale of the extracorporeal devices. Herein, we introduce a disposable photovoltaic patch that can be applied to skin wound sites to control cellular microenvironment for promoting wound healing by generating ES. In vitro experiment results show that exogenous ES could enhance cell migration, proliferation, expression of extracellular matrix proteins, and myoblast differentiation of fibroblasts which are critical for wound healing...
October 4, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/30285846/ubn1-2-of-hira-complex-is-responsible-for-recognition-and-deposition-of-h3-3-at-cis-regulatory-elements-of-genes-in-mouse-es-cells
#12
Chaoyang Xiong, Zengqi Wen, Juan Yu, Jun Chen, Chao-Pei Liu, Xiaodong Zhang, Ping Chen, Rui-Ming Xu, Guohong Li
BACKGROUND: H3.3 is an ancient and conserved H3 variant and plays essential roles in transcriptional regulation. HIRA complex, which is composed of HIRA, UBN1 or UBN2, and Cabin1, is a H3.3 specific chaperone complex. However, it still remains largely uncharacterized how HIRA complex specifically recognizes and deposits H3.3 to the chromatin, such as promoters and enhancers. RESULTS: In this study, we demonstrate that the UBN1 or UBN2 subunit is mainly responsible for specific recognition and direct binding of H3...
October 3, 2018: BMC Biology
https://www.readbyqxmd.com/read/30279482/histone-deacetylase-hdac-1-and-2-complexes-regulate-both-histone-acetylation-and-crotonylation-in-vivo
#13
R D W Kelly, A Chandru, P J Watson, Y Song, M Blades, N S Robertson, A G Jamieson, J W R Schwabe, S M Cowley
Proteomic analysis of histones has shown that they are subject to a superabundance of acylations, which extend far beyond acetylation, to include: crotonylation, propionylation, butyrylation, malonylation, succinylation, β-hydroxybutyrylation and 2-hydroxyisobutyrylation. To date, much of the functional data has focussed on histone crotonylation which, similar to acetylation, has been associated with positive gene regulation and is added by the acyltransferase, p300. Although Sirtuins 1-3, along with HDAC3, have been shown to possess decrotonylase activity in vitro, there is relatively little known about the regulation of histone crotonylation in vivo...
October 2, 2018: Scientific Reports
https://www.readbyqxmd.com/read/30274135/aminopeptidase-n-cd13-targeted-mr-and-nirf-dual-modal-imaging-of-ovarian-tumor-xenograft
#14
Ying Meng, Zixin Zhang, Kang Liu, Ling Ye, Yuting Liang, Wei Gu
The development of tumor-specific imaging nanoprobes with the potential to improve the accuracy of cancer diagnosis has become an area of intense research. Aminopeptidase N (CD13) predominantly expresses on the surface of ovarian tumor cells and can be specifically recognized by Asn-Gly-Arg (NGR) peptide. The applicability of CD13 as a target for specific ovarian tumor imaging, however, remains unexploited so far. In this study, Cy5.5-labeled, NGR-conjugated iron oxide nanoparticles (Cy5.5-NGR-Fe3 O4 NPs) were prepared as an ovarian tumor specific bimodal imaging nanoprobe...
December 1, 2018: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/30273559/epithelial-rnase-h2-maintains-genome-integrity-and-prevents-intestinal-tumorigenesis-in-mice
#15
Konrad Aden, Kareen Bartsch, Joseph Dahl, Martin A M Reijns, Daniela Esser, Raheleh Sheibani-Tezerji, Anupam Sinha, Felix Wottawa, Go Ito, Neha Mishra, Katharina Knittler, Adam Burkholder, Lina Welz, Johan van Es, Florian Tran, Simone Lipinski, Nassim Kakavand, Christine Boeger, Ralph Lucius, Witigo von Schoenfels, Clemens Schafmayer, Lennart Lenk, Athena Chalaris, Hans Clevers, Christoph Röcken, Christoph Kaleta, Stefan Rose-John, Stefan Schreiber, Thomas Kunkel, Björn Rabe, Philip Rosenstiel
BACKGROUND & AIMS: RNase H2 is a holoenzyme comprising 3 subunits (ribonuclease H2 subunits A, B, and C) that cleaves RNA:DNA hybrids and removes misincorporated ribonucleotides from genomic DNA via ribonucleotide excision repair. Ribonucleotide incorporation by eukaryotic DNA polymerases occurs during every round of genome duplication and produces the most frequent type of naturally occurring DNA lesion. We investigated whether intestinal epithelial proliferation requires RNase H2 function and whether RNase H2 activity is disrupted during intestinal carcinogenesis...
September 28, 2018: Gastroenterology
https://www.readbyqxmd.com/read/30273288/resistance-training-improves-a-cellular-health-parameter-in-obese-older-women-a-randomized-controlled-trial
#16
Alex S Ribeiro, Brad J Schoenfeld, Leandro Dos Santos, João Pedro Nunes, Crisieli M Tomeleri, Paolo M Cunha, Luis B Sardinha, Edilson S Cyrino
Ribeiro, AS, Schoenfeld, BJ, dos Santos, L, Nunes, JP, Tomeleri, CM, Cunha, PM, Sardinha, LB, and Cyrino, ES. Resistance training improves a cellular health parameter in obese older women: a randomized controlled trial. J Strength Cond Res XX(X): 000-000, 2018-Phase angle (PhA) is a viable indicator of cellular health, with higher values reflecting better cellularity, cell membrane integrity, and cell function. Adaptive responses to resistance training (RT) on PhA may be important in obese older people. The main purpose of the present study was to investigate the effects of 8 weeks of RT on PhA in obese older women...
September 28, 2018: Journal of Strength and Conditioning Research
https://www.readbyqxmd.com/read/30268474/dose-escalation-and-associated-predictors-of-survival-with-consolidative-thoracic-radiotherapy-in-extensive-stage-small-cell-lung-cancer-sclc-a-national-cancer-database-ncdb-propensity-matched-analysis
#17
Shaakir Hasan, Paul Renz, Andrew Turrisi, Athanasios Colonias, Gene Finley, Rodney E Wegner
PURPOSE: Randomized studies have demonstrated a survival benefit for consolidative thoracic radiotherapy (TRT) in extensive stage (ES) small cell lung cancer (SCLC), however the radiation dose and optimal selection criteria are often debated. METHODS: We analyzed 3280 stage IV SCLC treated with double-agent chemotherapy and TRT within the National Cancer Data Base (NCDB) and evaluated the differences in selection patterns and survival outcomes for patients who received at least 45 Gy of TRT and those who received <45 Gy...
October 2018: Lung Cancer: Journal of the International Association for the Study of Lung Cancer
https://www.readbyqxmd.com/read/30267402/immunohistochemical-detection-of-chemokine-receptor-4-expression-in-chronic-osteomyelitis-confirms-specific-uptake-in-68ga-pentixafor-pet-ct
#18
Yvonne Bouter, Birgit Meller, Carsten O Sahlmann, Bettina J Wolf, Laura Langer, Jens P Bankstahl, Hans J Wester, Saskia Kropf, Johannes Meller, Caroline Bouter
Previous findings of our group showed the chemokine receptor CXCR4 as a suitable target in PET/CT-imaging of axial bone infections, early postoperative osteomyelitis and periprosthetic infections. The aim of this study was to verify specific uptake of 68 Ga-Pentixafor in chronic osteomyelitis. METHODS: 29 consecutive patients who underwent 68 Ga-Pentixafor-PET/CT with clinically suspected osteomyelitis were evaluated retrospectively. Bone tissues of 6 patients were available and evaluated by immunohistochemical staining for CXCR4 and autoradiography with 68 Ga-Pentixafor...
September 2018: Nuklearmedizin. Nuclear Medicine
https://www.readbyqxmd.com/read/30267401/prognostic-value-of-pre-treatment-f-18-fdg-pet-metabolic-metrics-in-patients-with-locally-advanced-carcinoma-of-the-anus-with-and-without-hiv-infection
#19
Ismaheel O Lawal, Alfred O Ankrah, Kgomotso M G Mokoala, Gbenga O Popoola, Chimbabantu A Kaoma, Alex Maes, Neo P Mokgoro, Christophe Van de Wiele, Mike M Sathekge
AIM: To investigate the prognostic value of F-18 FDG PET metabolic parameters in patients with anal carcinoma with and without human immunodeficiency virus infection (HIV). METHODS: Maximum standardized uptake value (SUVmax ), mean standardized uptake value (SUVmean ), metabolic tumor volume (MTV) and total lesion glycolysis (TLG) were obtained on F-18 FDG PET/CT images of treatment-naïve patients with locally advanced anal squamous cell carcinoma (ASSC). We compared patients' characteristics and F-18 FDG PET metabolic metrics between the HIV-infected patients and the HIV-uninfected patients...
September 2018: Nuklearmedizin. Nuclear Medicine
https://www.readbyqxmd.com/read/30266032/live-cell-imaging-and-functional-dissection-of-xist-rna-reveal-mechanisms-of-x-chromosome-inactivation-and-reactivation
#20
Norbert Ha, Lan-Tian Lai, Rosi Chelliah, Yashu Zhen, Seet Pei Yi Vanessa, Soak-Kuan Lai, Hoi-Yeung Li, Alexander Ludwig, Sara Sandin, Lingyi Chen, Li-Feng Zhang
We double-tagged Xist (inactivated X chromosome-specific transcript), a prototype long non-coding RNA pivotal for X chromosome inactivation (XCI), using the programmable RNA sequence binding domain of Pumilio protein, one tag for live-cell imaging and the other replacing A-repeat (a critical domain of Xist) to generate "ΔA mutant" and to tether effector proteins for dissecting Xist functionality. Based on the observation in live cells that the induced XCI in undifferentiated embryonic stem (ES) cells is counteracted by the intrinsic X chromosome reactivation (XCR), we identified Kat8 and Msl2, homologs of Drosophila dosage compensation proteins, as players involved in mammalian XCR...
September 13, 2018: iScience
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