Search results for "WEB SERVER"
showing 10 items of 45 documents
KnotGenome: a server to analyze entanglements of chromosomes.
2018
Abstract The KnotGenome server enables the topological analysis of chromosome model data using three-dimensional coordinate files of chromosomes as input. In particular, it detects prime and composite knots in single chromosomes, and links between chromosomes. The knotting complexity of the chromosome is presented in the form of a matrix diagram that reveals the knot type of the entire polynucleotide chain and of each of its subchains. Links are determined by means of the Gaussian linking integral and the HOMFLY-PT polynomial. Entangled chromosomes are presented graphically in an intuitive way. It is also possible to relax structure with short molecular dynamics runs before the analysis. Kn…
dAPE: a web server to detect homorepeats and follow their evolution.
2016
Abstract Summary Homorepeats are low complexity regions consisting of repetitions of a single amino acid residue. There is no current consensus on the minimum number of residues needed to define a functional homorepeat, nor even if mismatches are allowed. Here we present dAPE, a web server that helps following the evolution of homorepeats based on orthology information, using a sensitive but tunable cutoff to help in the identification of emerging homorepeats. Availability and Implementation dAPE can be accessed from http://cbdm-01.zdv.uni-mainz.de/∼munoz/polyx. Supplementary information Supplementary data are available at Bioinformatics online.
VISMapper: ultra-fast exhaustive cartography of viral insertion sites for gene therapy
2017
The possibility of integrating viral vectors to become a persistent part of the host genome makes them a crucial element of clinical gene therapy. However, viral integration has associated risks, such as the unintentional activation of oncogenes that can result in cancer. Therefore, the analysis of integration sites of retroviral vectors is a crucial step in developing safer vectors for therapeutic use. Here we present VISMapper, a vector integration site analysis web server, to analyze next-generation sequencing data for retroviral vector integration sites. VISMapper can be found at: http://vismapper.babelomics.org . Because it uses novel mapping algorithms VISMapper is remarkably faster t…
Improving clustering of Web bot and human sessions by applying Principal Component Analysis
2019
View references (18) The paper addresses the problem of modeling Web sessions of bots and legitimate users (humans) as feature vectors for their use at the input of classification models. So far many different features to discriminate bots’ and humans’ navigational patterns have been considered in session models but very few studies were devoted to feature selection and dimensionality reduction in the context of bot detection. We propose applying Principal Component Analysis (PCA) to develop improved session models based on predictor variables being efficient discriminants of Web bots. The proposed models are used in session clustering, whose performance is evaluated in terms of the purity …
Transcriptome-wide identification of transient RNA G-quadruplexes in human cells
2018
Guanine-rich RNA sequences can fold into four-stranded structures, termed G-quadruplexes (G4-RNAs), whose biological roles are poorly understood, and in vivo existence is debated. To profile biologically relevant G4-RNA in the human transcriptome, we report here on G4RP-seq, which combines G4-RNA-specific precipitation (G4RP) with sequencing. This protocol comprises a chemical crosslinking step, followed by affinity capture with the G4-specific small-molecule ligand/probe BioTASQ, and target identification by sequencing, allowing for capturing global snapshots of transiently folded G4-RNAs. We detect widespread G4-RNA targets within the transcriptome, indicative of transient G4 formation in…
ESB: Ext2 Split Block Device
2012
Solid State Disks (SSDs) start to replace rotating media (hard disks, HDD) in many areas, but are still not as cost efficient concerning capacity to completely replace them. One approach to use their superior performance properties is to use them as a cache for magnetic disks to speed up overall storage operations. In this paper, we present and evaluate a file system level optimization based on ext2. We split metadata and data and store the metadata on a SDD while the data remains on a common HDD. We evaluate our system with filebench under a file server, web server, and web proxy scenario and compare the results with flashcache. We find that many of the scenarios do not contain enough meta…
Efficiency Analysis Of Resource Request Patterns In Classification Of Web Robots And Humans
2018
The paper deals with the problem of classification of Web traffic generated by robots and humans on e-commerce websites. Due to the still growing proliferation and specialization of bots, a large body of research into characterization and recognition of their traffic has been conducted so far. In particular, some approaches to classify bot and human sessions on websites have been proposed in the literature. In this paper we verify and discuss the efficiency of such recently proposed approach, which uses differences in resource request patterns of bots and humans. We reconstructed Web sessions from actual HTTP log data for three different e-commerce sites, varying in the traffic intensity an…
Improving Web Prefetching by Making Predictions at Prefetch
2007
Most of the research attempts to improve Web prefetching techniques have focused on the prediction algorithm with the objective of increasing its precision or, in the best case, to reduce the user's perceived latency. In contrast, to improve prefetching performance, this work concentrates in the prefetching engine and proposes the Prediction at Prefetch (P@P) technique. This paper explains how a prefetching technique can be extended to include our P@P proposal on real world conditions without changes in the web architecture or HTTP protocol. To show how this proposal can improve prefetching performance an extensive performance evaluation study has been done and the results show that P@P can…
Efficient Switches with QoS Support for Clusters
2007
Current interconnect standards providing hardware support for quality of service (QoS) consider up to 16 virtual channels (VCs) for this purpose. However, most implementations do not offer so many VCs because they increase the complexity of the switch and the scheduling delays. We have shown that this number of VCs can be significantly reduced, because it is enough to use two VCs for QoS purposes at each switch port. In this paper, we cover the weaknesses of that proposal and, not only we reduce VCs, but we also improve performance due to the flexibility assigning buffer memory.
Mobile Search - Social Network Search Using Mobile Devices Demonstration
2008
Mobile search prototype demonstrates the possibilities of social network search in N800 mobile devices. Search is initiated from a N800 mobile device to search the contacts in mobile device's addressbook. The contacts can be other N800 mobile devices running mobile Web server or normal Web servers in the Internet with Drupal content management system. Mobile device users can select which of their personal information such as phone numbers, calendar data etc. to share via a mobile Web server. The proposed search mechanism has many benefits compared to centralized Web search engines like Google. The search can locate information which is not referenced anywhere and thus allows hidden or rare …