Search results for "coding"

Hepatitis B protein HBx binds the DLEU2 lncRNA to sustain cccDNA and host cancer-related gene transcription.

2019

Objective: The HBV HBx regulatory protein is required for transcription from the covalently closed circular DNA (cccDNA) minichromosome and affects the epigenetic control of both viral and host cellular chromatin. Design: We explored, in relevant cellular models of HBV replication, the functional consequences of HBx interaction with DLEU2, a long non-coding RNA (lncRNA) expressed in the liver and increased in human hepatocellular carcinoma (HCC), in the regulation of host target genes and the HBV cccDNA. Results: We show that HBx binds the promoter region, enhances the transcription and induces the accumulation of DLEU2 in infected hepatocytes. We found that nuclear DLEU2 directly binds HBx…

5-methylcytosine modification of an Epstein–Barr virus noncoding RNA decreases its stability

2020

Many cellular noncoding RNAs contain chemically modified nucleotides that are essential for their function. The Epstein–Barr virus expresses two highly abundant noncoding RNAs called EBV-encoded RNA 1 (EBER1) and EBER2. To examine whether these viral RNAs contain modified nucleotides, we purified native EBERs from EBV-infected cells and performed mass spectrometry analysis. While EBER2 contains no modified nucleotides at stoichiometric amounts, EBER1 was found to carry 5-methylcytosine (m5C) modification. Bisulfite sequencing indicated that a single cytosine of EBER1 is methylated in ∼95% of molecules, and the RNA methyltransferase NSUN2 was identified as the EBER1-specific writer. Intrigui…

2020

The Internet has become one of the main sources of information for university students’ learning. Since anyone can disseminate content online, however, the Internet is full of irrelevant, biased, or even false information. Thus, students’ ability to use online information in a critical-reflective manner is of crucial importance. In our study, we used a framework for the assessment of students’ critical online reasoning (COR) to measure university students’ ability to critically use information from online sources and to reason on contentious issues based on online information. In addition to analyzing students’ COR by evaluating their open-ended short answers, we also investigated the stude…

Learning from the Past : The Women Writers Project and Thirty Years of Humanities Text Encoding

2017

In recent years, intensified attention in the humanities has been paid to data: to data modeling, data visualization, “big data”. The Women Writers Project has dedicated significant effort over the past thirty years to creating what Christoph Schöch calls “smart clean data”: a moderate-sized collection of early modern women’s writing, carefully transcribed and corrected, with detailed digital text encoding that has evolved in response to research and changing standards for text representation. But that data—whether considered as a publication through Women Writers Online, or as a proof of the viability of text encoding approaches like those expressed in the Text Encoding Initiative (TEI) Gu…

Full field of view super-resolution imaging via two static masks

2008

The usage of two static gratings for obtaining super resolved imaging dates back to the work by Bachl and Lukosz in 1967. However, in that approach, a severe reduction in the field of view was the necessary condition for improving the resolution. In this paper we present two approaches that are also based upon two static gratings but without the need to sacrifice in the field of view. The key idea for not paying with the field of view is performed in two ways: First, by using white light illumination that averages the ghost images obtained outside the region of interest since the positions of those images are wavelength dependent. Second, by using two random functions for the encoding and t…

Long-term working memory and interrupting messages in human – computer interaction

2004

The extent to which memory for information content is reliable, trustworthy, and accurate is crucial in the information age. Being forced to divert attention to interrupting messages is common, however, and can cause memory loss. The memory effects of interrupting messages were investigated in three experiments. In Experiment 1, attending to an interrupting message decreased memory accuracy. Experiment 2, where four interrupting messages were used, replicated this result. In Experiment 3, an interrupting message was shown to be most disturbing when it was semantically very close to the main message. Drawing from a theory of long-term working memory it is argued that interrupting messages ca…

Nouvelles perspectives concernant la structure et la fonction du domaine carboxyl terminal de Hfq

2015

Accumulating evidence indicates that RNA metabolism components assemble into supramolecular cellular structures to mediate functional compartmentalization within the cytoplasmic membrane of the bacterial cell. This cellular compartmentalization could play important roles in the processes of RNA degradation and maturation. These components include Hfq, the RNA chaperone protein, which is involved in the post-transcriptional control of protein synthesis mainly by the virtue of its interactions with several small regulatory ncRNAs (sRNA). The Escherichia coli Hfq is structurally organized into two domains. An N-terminal domain that folds as strongly bent β-sheets within individual protomers to…

Optimal MAC PDU Size in IEEE 802.16

2008

In the IEEE 802.16 the number of errors and the MAC PDU size have an impact on the performance of the network. We present a way to estimate the optimal PDU size and we run a number of simulation scenarios to study these parameters and how they impact on the performance of application protocols. The simulation results reveal that the channel bit error rate has a major impact on the optimal PDU size in the IEEE 802.16 networks. Also, the ARQ block rearrangement influences the performance.

Performance Evaluation of the IEEE 802.16 ARQ Mechanism

2007

The IEEE 802.16 technology defines the ARQ mechanism that enables a connection to resend data at the MAC level if an error is detected. In this paper, we analyze the key features and parameters of the ARQ mechanism. In particular, we consider a choice for the ARQ feedback type, a scheduling of the ARQ feedbacks and retransmissions, the ARQ block rearrangement, ARQ transmission window and ARQ block size. We run a number of simulation scenarios to study these parameters and how they impact a performance of application protocols. The simulation results reveal that the ARQ mechanism plays an important role in transmitting data over wireless channels in the IEEE 802.16 networks.

Performance comparison of HARQ and ARQ mechanisms in IEEE 802.16 networks

2008

The IEEE 802.16 technology defines several link level mechanisms to retransmit erroneous data. In this paper we compare the performance of the ARQ and HARQ mechanisms in the IEEE 802.16 networks. Our simulations results show that in general HARQ provides a better performance. However, ARQ can compete successfully with it due to a smaller signaling overhead. Furthermore, since ARQ does not require a dedicated uplink signaling channel for the acknowledgments messages, it results in better resources utilization in the uplink direction.