620,217 Works

High expression of ETS2 predicts poor prognosis in acute myeloid leukemia and may guide treatment decisions

Lin Fu, Huaping Fu, Qingyun Wu, Yifan Pang, Keman Xu, Lei Zhou, Jianlin Qiao, Xiaoyan Ke, Kailin Xu & Jinlong Shi
Abstract Background ETS2 is a downstream effector of the RAS/RAF/ERK pathway, which plays a critical role in the development of malignant tumor. However, the clinical impact of ETS2 expression in AML remains unknown. Methods In this study, we evaluated the prognostic significance of ETS2 expression using two relatively large cohorts of AML patients. Results In the first cohort, compared to low expression of ETS2 (ETS2 low), high expression of ETS2 (ETS2 high) showed significant shorter...

MOESM1 of High expression of ETS2 predicts poor prognosis in acute myeloid leukemia and may guide treatment decisions

Lin Fu, Huaping Fu, Qingyun Wu, Yifan Pang, Keman Xu, Lei Zhou, Jianlin Qiao, Xiaoyan Ke, Kailin Xu & Jinlong Shi
Additional file 1. The hierarchical differentiation tree of relationship between ETS2 expression level and hematopoietic cell differentiation.

Activation of cannabinoid receptor type 2 attenuates surgery-induced cognitive impairment in mice through anti-inflammatory activity

Lingling Sun, Rui Dong, Xin Xu, Xi Yang & Mian Peng
Abstract Background Neuroinflammation plays a major role in postoperative cognitive dysfunction (POCD). Accumulated evidence indicates that cannabinoid receptor type 2 (CB2R) can mediate anti-inflammatory and immunomodulatory effects in part by controlling microglial activity. However, the impact of CB2R on postoperative cognition has not been investigated. We hypothesized that CB2R is involved in surgery-induced cognitive impairment in adult mice. Methods Adult C57BL/6 mice were subjected to intramedullary fixation surgery for tibial fracture under isoflurane anesthesia and...

Additional file 2: of Genome analysis of E. coli isolated from Crohnâ s disease patients

Daria Rakitina, Alexander Manolov, Alexandra Kanygina, Sofya Garushyants, Julia Baikova, Dmitry Alexeev, Valentina Ladygina, Elena Kostryukova, Andrei Larin, Tatiana Semashko, Irina Karpova, Vladislav Babenko, Ruzilya Ismagilova, Sergei Malanin, Mikhail Gelfand, Elena Ilina, Roman Gorodnichev, Eugenia Lisitsyna, Gennady Aleshkin, Petr Scherbakov, Igor Khalif, Marina Shapina, Igor Maev, Dmitry Andreev & Vadim Govorun
The genomes sheet lists assemblies, sequence quality characteristics, the closest genomes and plasmids. (XLS 35 kb)

Additional file 1: Figure S1. of Activation of cannabinoid receptor type 2 attenuates surgery-induced cognitive impairment in mice through anti-inflammatory activity

Lingling Sun, Rui Dong, Xin Xu, Xi Yang & Mian Peng
All mice groups showed no significant difference in freezing time of training phase of fear conditioning (one-way ANOVA, F = 8.564, n = 42, p = 0.110). Data are plotted as mean ± standard error of the mean for each group (n = 6 per group). (PDF 143 kb)

Additional file 3: Figure S3. of Deficiency of PI3-Kinase catalytic isoforms p110γ and p110δ in mice enhances the IL-17/G-CSF axis and induces neutrophilia

Kirsten Bucher, Fee Schmitt, Benedikt Mothes, Carolin Blumendeller, Daniel Schäll, Roland Piekorz, Emilio Hirsch, Bernd Nürnberg & Sandra Beer-Hammer
Protein expression of p110α, p110β, p110γ, and p110δ isoforms in primary lung tissue cells from WT and p110γ/δ−/− mice. a Analysis of p110 protein expression in cultured tissue cells from lungs of WT and p110γ/δ−/− mice was performed by immunoblot analysis using anti-p110α, anti-p110β, anti-p110γ, and anti-p110δ specific antibodies. Re-probing for GAPDH served to confirm equal protein loading. b Phospho-p38 expression in lung tissue cells from WT and p110γ/δ−/− mice at different time points following...

Additional file 1: of Genome analysis of E. coli isolated from Crohnâ s disease patients

Daria Rakitina, Alexander Manolov, Alexandra Kanygina, Sofya Garushyants, Julia Baikova, Dmitry Alexeev, Valentina Ladygina, Elena Kostryukova, Andrei Larin, Tatiana Semashko, Irina Karpova, Vladislav Babenko, Ruzilya Ismagilova, Sergei Malanin, Mikhail Gelfand, Elena Ilina, Roman Gorodnichev, Eugenia Lisitsyna, Gennady Aleshkin, Petr Scherbakov, Igor Khalif, Marina Shapina, Igor Maev, Dmitry Andreev & Vadim Govorun
Strains used for the comparative analysis. (A) Strains used for the phylogenetic analysis. Characteristics of non-CD strains with whole-sequenced genomes used for the comparative analysis. (B) Strains used for OG content comparison of CDEC and commensal strains. (XLS 53 kb)

Additional file 2: Figure S2. of Deficiency of PI3-Kinase catalytic isoforms p110γ and p110δ in mice enhances the IL-17/G-CSF axis and induces neutrophilia

Kirsten Bucher, Fee Schmitt, Benedikt Mothes, Carolin Blumendeller, Daniel Schäll, Roland Piekorz, Emilio Hirsch, Bernd Nürnberg & Sandra Beer-Hammer
Expression of CXCR4 and CXCL12/SFD-1α in WT, p110γ−/−, p110δ−/−, and p110γ/δ−/− mice. a To measure CXCL12/SDF-1α concentrations in the BM, tibias were flushed with 500 μl PBS, cells were pelleted and supernatants were subsequently subjected to ELISA. Bars represent means + SD of n = 9–10 mice per group. b To determine CXCR4 expression leukocyte suspensions were labeled with fluorescent antibodies and analyzed by flow cytometry. Neutrophils were gated as singlet, live CD3ε − CD19− CD11b+ Siglec-F− Ly6G+...

Additional file 1: of Association between full service and fast food restaurant density, dietary intake and overweight/obesity among adults in Delhi, India

Opal Patel, Safraj Shahulhameed, Roopa Shivashankar, Mohammad Tayyab, Atiqur Rahman, Dorairaj Prabhakaran, Nikhil Tandon & Lindsay Jaacks
Contains a figure of a heat map of body mass index levels overlaid on a map of the full service and fast food restaurants that was generated using ESRI ArcGIS software (Environmental Systems Research Institute, Redlands, CA). (JPEG 175 kb)

Association between full service and fast food restaurant density, dietary intake and overweight/obesity among adults in Delhi, India

Opal Patel, Safraj Shahulhameed, Roopa Shivashankar, Mohammad Tayyab, Atiqur Rahman, Dorairaj Prabhakaran, Nikhil Tandon & Lindsay Jaacks
Abstract Background The food environment has been implicated as an underlying contributor to the global obesity epidemic. However, few studies have evaluated the relationship between the food environment, dietary intake, and overweight/obesity in low- and middle-income countries (LMICs). The aim of this study was to assess the association of full service and fast food restaurant density with dietary intake and overweight/obesity in Delhi, India. Methods Data are from a cross-sectional, population-based study conducted in Delhi....

Photoautotrophic production of polyhydroxyalkanoates in a synthetic mixed culture of Synechococcus elongatus cscB and Pseudomonas putida cscAB

Hannes Löwe, Karina Hobmeier, Manuel Moos, Andreas Kremling & Katharina Pflüger-Grau
Abstract Background One of the major challenges for the present and future generations is to find suitable substitutes for the fossil resources we rely on today. Cyanobacterial carbohydrates have been discussed as an emerging renewable feedstock in industrial biotechnology for the production of fuels and chemicals, showing promising production rates when compared to crop-based feedstock. However, intrinsic capacities of cyanobacteria to produce biotechnological compounds are limited and yields are low. Results Here, we present an...

EGFR modulates monounsaturated fatty acid synthesis through phosphorylation of SCD1 in lung cancer

Jiqin Zhang, Fei Song, Xiaojing Zhao, Hua Jiang, Xiuqi Wu, Biao Wang, Min Zhou, Mi Tian, Bizhi Shi, Huamao Wang, Yuanhui Jia, Hai Wang, Xiaorong Pan & Zonghai Li
Abstract Background Epidermal growth factor receptor (EGFR), a well-known oncogenic driver, contributes to the initiation and progression of a wide range of cancer types. Aberrant lipid metabolism including highly produced monounsaturated fatty acids (MUFA) is recognized as a hallmark of cancer. However, how EGFR regulates MUFA synthesis in cancer remains elusive. This is the focus of our study. Methods The interaction between EGFR and stearoyl-CoA desaturase-1 (SCD1) was detected byco-immunoprecipitation. SCD1 protein expression, stability and...

Prevalence of chronic kidney disease in Peruvian primary care setting

Percy Herrera-Añazco, Alvaro Taype-Rondan, María Lazo-Porras, E. Alberto Quintanilla, Victor Ortiz-Soriano & Adrian Hernandez
Abstract Background Chronic Kidney Disease (CKD) is a worldwide public health problem. There are few studies in Latin America, especially in primary care settings. Our objective was to determine the prevalence, stages, and associated factors of CKD in primary care setting. Methods We did a retrospective secondary analysis of a database from the Diabetes and Hypertension Primary Care Center of the Peruvian Social Security System (EsSalud) in Lima, Peru. We defined CKD as the presence...

Additional file 1: Figure S1. of Deficiency of PI3-Kinase catalytic isoforms p110γ and p110δ in mice enhances the IL-17/G-CSF axis and induces neutrophilia

Kirsten Bucher, Fee Schmitt, Benedikt Mothes, Carolin Blumendeller, Daniel Schäll, Roland Piekorz, Emilio Hirsch, Bernd Nürnberg & Sandra Beer-Hammer
Homing of adoptively transferred neutrophils is similar in p110γ/δ−/− mice and WT mice. Equal fractions of “senescent” neutrophils, contained in BM cell suspensions that had been incubated for 6 h in vitro (6 h neutrophils), and “young” neutrophils, contained in freshly isolated BM (0 h neutrophils), were stained with Ly6G (1A8)-APC (6 h neutrophils) or Ly6G (1A8)-PE (0 h neutrophils), and were co-injected into recipient mice. WT 0 h and 6 h BM cells were injected into WT mice, whereas p110γ/δ−/− 0 h...

Additional file 1: of EGFR modulates monounsaturated fatty acid synthesis through phosphorylation of SCD1 in lung cancer

Jiqin Zhang, Fei Song, Xiaojing Zhao, Hua Jiang, Xiuqi Wu, Biao Wang, Min Zhou, Mi Tian, Bizhi Shi, Huamao Wang, Yuanhui Jia, Hai Wang, Xiaorong Pan & Zonghai Li
EGFR modulates monounsaturated fatty acid synthesis through phosphorylation of SCD1 in lung cancer. (PDF 7425 kb)

Additional file 1: Table S1. of Prevalence of chronic kidney disease in Peruvian primary care setting

Percy Herrera-AĂąazco, Alvaro Taype-Rondan, MarĂ­A Lazo-Porras, E. Alberto Quintanilla, Victor Ortiz-Soriano & Adrian Hernandez
CKD stages and albuminuria levels, with cumulative percentages. (DOCX 11 kb)

Additional file 1: of Pathogenic roles of CXCL10 signaling through CXCR3 and TLR4 in macrophages and T cells: relevance for arthritis

Jong-Ho Lee, Bongjun Kim, Won Jin, Hong-Hee Kim, Hyunil Ha & Zang Lee
Pathogenic Roles of CXCL10 Signaling through CXCR3 and TLR4. Fig. S1. Purity and viability of CD4+ T cells from WT, Tlr4 -/- , and Cxcr3 -/- mice. Fig. S2. The effect of si-CXCR3 on CXCL10-mediated BMM migration. Fig. S3. The effect of si-CXCR3 on CXCL10-mediated migration and cytokines expression of CD4+ T cells. Fig. S4. The effect of PD98059 on CXCL10-mediated ERK phosphorylation. (PDF 425 kb)

Pathogenic roles of CXCL10 signaling through CXCR3 and TLR4 in macrophages and T cells: relevance for arthritis

Jong-Ho Lee, Bongjun Kim, Won Jin, Hong-Hee Kim, Hyunil Ha & Zang Lee
Abstract Background Rheumatoid arthritis (RA) is a chronic autoimmune disease characterized by uncontrolled joint inflammation and destruction of bone and cartilage. We previously reported that C-X-C motif chemokine 10 (CXCL10; also called IP-10) has important roles in joint inflammation and bone destruction in arthritis. However, the specific mechanisms by which CXCL10 regulates the recruitment of inflammatory cells and the production of osteoclastogenic cytokines in RA progression are not fully understood. Methods Bone marrow-derived macrophages and...

Additional file 12: of Genome analysis of E. coli isolated from Crohnâ s disease patients

Daria Rakitina, Alexander Manolov, Alexandra Kanygina, Sofya Garushyants, Julia Baikova, Dmitry Alexeev, Valentina Ladygina, Elena Kostryukova, Andrei Larin, Tatiana Semashko, Irina Karpova, Vladislav Babenko, Ruzilya Ismagilova, Sergei Malanin, Mikhail Gelfand, Elena Ilina, Roman Gorodnichev, Eugenia Lisitsyna, Gennady Aleshkin, Petr Scherbakov, Igor Khalif, Marina Shapina, Igor Maev, Dmitry Andreev & Vadim Govorun
Competition co-culture of CD-E. coli and isolates from healthy individuals. (DOC 56 kb)

A permutation-based non-parametric analysis of CRISPR screen data

Gaoxiang Jia, Xinlei Wang & Guanghua Xiao
Abstract Background Clustered regularly-interspaced short palindromic repeats (CRISPR) screens are usually implemented in cultured cells to identify genes with critical functions. Although several methods have been developed or adapted to analyze CRISPR screening data, no single specific algorithm has gained popularity. Thus, rigorous procedures are needed to overcome the shortcomings of existing algorithms. Methods We developed a Permutation-Based Non-Parametric Analysis (PBNPA) algorithm, which computes p-values at the gene level by permuting sgRNA labels, and thus...

Additional file 1: of Examining the role of unmeasured confounding in mediation analysis with genetic and genomic applications

Sharon Lutz, Annie Thwing, Sarah Schmiege, Miranda Kroehl, Christopher Baker, Anne Starling, John Hokanson & Debashis Ghosh
Supplemental Tutorial for Umediation: an R Package for Examining the Role of Unmeasured Confounding in Mediation Analysis with Genetic and Genomic Applications. (PDF 612 kb)

Environmental drivers of viral community composition in Antarctic soils identified by viromics

Evelien Adriaenssens, Rolf Kramer, Marc Van Goethem, Thulani Makhalanyane, Ian Hogg & Don Cowan
Abstract Background The Antarctic continent is considered the coldest and driest place on earth with simple ecosystems, devoid of higher plants. Soils in the ice-free regions of Antarctica are known to harbor a wide range of microorganisms from primary producers to grazers, yet their ecology and particularly the role of viruses is poorly understood. In this study, we examined the virus community structures of 14 soil samples from the Mackay Glacier region. Methods Viral communities...

Examining the role of unmeasured confounding in mediation analysis with genetic and genomic applications

Sharon Lutz, Annie Thwing, Sarah Schmiege, Miranda Kroehl, Christopher Baker, Anne Starling, John Hokanson & Debashis Ghosh
Abstract Background In mediation analysis if unmeasured confounding is present, the estimates for the direct and mediated effects may be over or under estimated. Most methods for the sensitivity analysis of unmeasured confounding in mediation have focused on the mediator-outcome relationship. Results The Umediation R package enables the user to simulate unmeasured confounding of the exposure-mediator, exposure-outcome, and mediator-outcome relationships in order to see how the results of the mediation analysis would change in the...

Additional file 1: Table S1. of Environmental drivers of viral community composition in Antarctic soils identified by viromics

Evelien Adriaenssens, Rolf Kramer, Marc Van Goethem, Thulani Makhalanyane, Ian Hogg & Don Cowan
Sample overview. Coordinates of sampling sites and sequencing metadata of viromes. Cleaned reads = reads after removal of contaminants; reads for assembly = reads considered by the assembly and mapping algorithm of CLC Genomics Workbench at the default parameters. Table S2. Taxonomic diversity of the assembled viromes. Diversity was assessed by MetaVir and abundant virus families defined as representing more than 1% of significant hits. All values are given as relative abundances in percent. Values...

Additional file 11: of Genome analysis of E. coli isolated from Crohnâ s disease patients

Daria Rakitina, Alexander Manolov, Alexandra Kanygina, Sofya Garushyants, Julia Baikova, Dmitry Alexeev, Valentina Ladygina, Elena Kostryukova, Andrei Larin, Tatiana Semashko, Irina Karpova, Vladislav Babenko, Ruzilya Ismagilova, Sergei Malanin, Mikhail Gelfand, Elena Ilina, Roman Gorodnichev, Eugenia Lisitsyna, Gennady Aleshkin, Petr Scherbakov, Igor Khalif, Marina Shapina, Igor Maev, Dmitry Andreev & Vadim Govorun
Bacteriocin production test in CD-associated strains. (DOC 42 kb)

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