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RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis

Plant organ growth requires the proper transition from cell proliferation to cell expansion and differentiation. The CIN-TCP transcription factor gene TCP4 and its post-transcriptional regulator microRNA319 play a pivotal role in this process. In this study, we identified a pathway in which the product of the C2H2 zinc finger gene RABBIT EARS (RBE) regulates the transcription of...

Association of conventional haemostasis and coagulation tests with the risk of acute upper gastrointestinal bleeding in liver cirrhosis: a retrospective study

the thrombosed portal vein, prevent the development of portal vein thrombosis, and even improve liver function [18, 19]. Author contributions Jing Li reviewed the literature, wrote the protocol

Effects of the Trace Amine Associated Receptor 1 Agonist RO5263397 on Abuse-Related Behavioral Indices of Methamphetamine in Rats

Methamphetamine is a major drug of abuse with no effective pharmacotherapy available. Trace amine associated receptor 1 is implicated in cocaine addiction and represents a potential therapeutic target. However, the effects of trace amine associated receptor 1 agonists on addiction-related behavioral effects of methamphetamine are unknown.

qDNAmod: a statistical model-based tool to reveal intercellular heterogeneity of DNA modification from SMRT sequencing data

In an isogenic cell population, phenotypic heterogeneity among individual cells is common and critical for survival of the population under different environment conditions. DNA modification is an important epigenetic factor that can regulate phenotypic heterogeneity. The single molecule real-time (SMRT) sequencing technology provides a unique platform for detecting a wide range...

Interpreting genomic data via entropic dissection

369 8656; Email: Correspondence may also be addressed to Jing Li. Tel: +1 216 368 0356; Email: feasible by the development of efficient sampling techniques, namely, the Markov Chain Monte Carlo (MCMC

A DELLA gene, RhGAI1, is a direct target of EIN3 and mediates ethylene-regulated rose petal cell expansion via repressing the expression of RhCesA2

Ethylene plays an important role in organ growth. In Arabidopsis, ethylene can inhibit root elongation by stabilizing DELLA proteins. In previous work, it was found that ethylene suppressed cell expansion in rose petals, and five unisequences of DELLA genes are induced by ethylene. However, the mechanism of transcriptional regulation of DELLA genes by ethylene is still not clear...

Detecting genome-wide epistases based on the clustering of relatively frequent items

Motivation: In genome-wide association studies (GWAS), up to millions of single nucleotide polymorphisms (SNPs) are genotyped for thousands of individuals. However, conventional single locus-based approaches are usually unable to detect gene–gene interactions underlying complex diseases. Due to the huge search space for complicated high order interactions, many existing multi...

WRKY54 and WRKY70 co-operate as negative regulators of leaf senescence in Arabidopsis thaliana

The plant-specific WRKY transcription factor (TF) family with 74 members in Arabidopsis thaliana appears to be involved in the regulation of various physiological processes including plant defence and senescence. WRKY53 and WRKY70 were previously implicated as positive and negative regulators of senescence, respectively. Here the putative function of other WRKY group III proteins...

Detecting epistatic effects in association studies at a genomic level based on an ensemble approach

Motivation: Most complex diseases involve multiple genes and their interactions. Although genome-wide association studies (GWAS) have shown some success for identifying genetic variants underlying complex diseases, most existing studies are based on limited single-locus approaches, which detect single nucleotide polymorphisms (SNPs) essentially based on their marginal...

Rare variant discovery and calling by sequencing pooled samples with overlaps

Motivation: For many complex traits/diseases, it is believed that rare variants account for some of the missing heritability that cannot be explained by common variants. Sequencing a large number of samples through DNA pooling is a cost-effective strategy to discover rare variants and to investigate their associations with phenotypes. Overlapping pool designs provide further...

MAVEN: a tool for visualization and functional analysis of genome-wide association results

Kanchana Narayanan 0 Jing Li 0 Associate Editor: Alex Bateman 0 Department of Electrical Engineering and Computer Science, Case Western Reserve University Cleveland , OH, USA Summary: We describe

RecJ-like protein from Pyrococcus furiosus has 3′–5′ exonuclease activity on RNA: implications for proofreading of 3′-mismatched RNA primers in DNA replication

Replicative DNA polymerases require an RNA primer for leading and lagging strand DNA synthesis, and primase is responsible for the de novo synthesis of this RNA primer. However, the archaeal primase from Pyrococcus furiosus (Pfu) frequently incorporates mismatched nucleoside monophosphate, which stops RNA synthesis. Pfu DNA polymerase (PolB) cannot elongate the resulting 3...

Long-term outcome of patients with spinal myxopapillary ependymoma: treatment results from the MD Anderson Cancer Center and institutions from the Rare Cancer Network

() Yucai Wang Robert Miller Salvador Villa` Renata Zaucha Alessia Pica Philip Poortmans Yavuz Anacak Gokhan Ozygit Birgitta Baumert Guy Haller Matthias Preusser Jing Li Background. Spinal myxopapillary

Efficient identification of identical-by-descent status in pedigrees with many untyped individuals

Motivation: Inference of identical-by-descent (IBD) probabilities is the key in family-based linkage analysis. Using high-density single nucleotide polymorphism (SNP) markers, one can almost always infer haplotype configurations of each member in a family given all individuals being typed. Consequently, the IBD status can be obtained directly from haplotype configurations...

A comparison of the size distribution of the filamentous green alga Ulothrix in Daphnia guts and lake water from Lake Taihu, China

This study compared the size distributions of the filamentous green alga Ulothrix in Daphnia guts and ambient lake water from February to May 2004 in Meiliang Bay, Lake Taihu, China. The aim was to establish whether daphnids selected the filaments in a certain length range or ingested them indiscriminately regardless of size. We also investigated the effect of Daphnia body size...

Novel design and simulation of a hybrid solar electricity system with organic Rankine cycle and PV cells

The proposed system mainly consists of flat-plate compound parabolic concentrators (CPCs) integrated with photovoltaic (PV) cells and organic Rankine cycle (ORC). The technologies of CPC, PV cell and ORC are analyzed, and feasibility of the hybrid solar electricity system is demonstrated. Novel configuration for the hybrid electricity generation is carefully designed to react to...

Global patterns of genetic diversity and signals of natural selection for human ADME genes

Genetic polymorphisms in many genes related to drug absorption, distribution, metabolism and excretion (ADME genes) contribute to the high heterogeneity of drug responses in humans. However, the extent to which genetic variation in ADME genes may contribute to differences among human populations in drug responses has not been studied. In this work, we investigate the global...

Polysialylation promotes neural cell adhesion molecule-mediated cell migration in a fibroblast growth factor receptor-dependent manner, but independent of adhesion capability

Polysialic acid (PSA), a carbohydrate polymer mainly present in the neural cell adhesion molecule (NCAM), promotes neural plasticity; however, its mode of action in tumor malignancy remains largely unknown. In this study, we investigated the influence of polysialylation on cell migration. PSA consistently promoted cell migration on different extracellular matrices (ECMs) but...

Cellular and subcellular localization of flavin-monooxygenases involved in glucosinolate biosynthesis

Glucosinolates are amino acid-derived secondary metabolites with diverse biological activities dependent on chemical modifications of the side chain. Five flavin-monooxygenases FMOGS-OX1–5 have recently been identified as aliphatic glucosinolate side chain modification enzymes in Arabidopsis thaliana that catalyse the generation of methylsulphinylalkyl glucosinolates, which can...

Calcineurin subunit B activates dendritic cells and acts as a cancer vaccine adjuvant

Safe and potent adjuvants are required to establish effective vaccines. In the present work, we show that calcineurin subunit B promotes the secretion of pro-inflammatory cytokines, such as tumor necrosis factor-α, interleukin-12p70 (IL-12 p70), IL-6 and the chemokine IL-8. It also up-regulates transcript levels of chemokines in bone marrow-derived dendritic cells. In an animal...