Cross-Layer Peer-to-Peer Track Identification and Optimization Based on Active Networking

P2P applications appear to emerge as ultimate killer applications due to their ability to construct highly dynamic overlay topologies with rapidly-varying and unpredictable traffic dynamics, which can constitute a serious challenge even for significantly over-provisioned IP networks. As a result, ISPs are facing new, severe network management problems that are not guaranteed to be addressed by statically deployed network engineering mechanisms. As a first step to a more complete solution to these problems, this paper proposes a P2P measurement, identification and optimisation architecture, designed to cope with the dynamicity and unpredictability of existing, well-known and future, unknown P2P systems. The purpose of this architecture is to provide to the ISPs an effective and scalable approach to control and optimise the traffic produced by P2P applications in their networks. This can be achieved through a combination of different application and network-level programmable techniques, leading to a crosslayer identification and optimisation process. These techniques can be applied using Active Networking platforms, which are able to quickly and easily deploy architectural components on demand. This flexibility of the optimisation architecture is essential to address the rapid development of new P2P protocols and the variation of known protocols

Of packets and people: A user-centered approach to quality of service

Multimedia communication has gained increasing attention, both from the application side and the network provider side. While resource provisioning for QoS support in packet switched networks has lead to the design and development of sophisticated QoS architectures, notably ATM, IntServ or DiffServ, research has not exactly been user or application-context centered. In the cause of the evolution of QoS architectures, the integrated service network approach has lost momentum, and with it, the notion of QoS guarantees. Differentiation of QoS classes within the DiffServ framework is based on the definition of various per-hop behaviors. What is currently missing is a technique for specification and mapping of application and user QoS preferences onto evolving service profiles. In addition, adaptation of applications (and users) is becoming increasingly important in the face of dominating weak QoS-assurance paradigms, both in wireline and wireless environments. As a prerequisite, this paper investigates cognitive and perceptive conditioning of users and applications in a situated setting. The contribution of this paper is twofold: First, essential empirical results on user QoS preferences and QoS graduations are presented, and second, methodological foundations are laid for investigating user-centered QoS

A Solve-RD ClinVar-based reanalysis of 1522 index cases from ERN-ITHACA reveals common pitfalls and misinterpretations in exome sequencing

Purpose Within the Solve-RD project (https://solve-rd.eu/), the European Reference Network for Intellectual disability, TeleHealth, Autism and Congenital Anomalies aimed to investigate whether a reanalysis of exomes from unsolved cases based on ClinVar annotations could establish additional diagnoses. We present the results of the “ClinVar low-hanging fruit” reanalysis, reasons for the failure of previous analyses, and lessons learned. Methods Data from the first 3576 exomes (1522 probands and 2054 relatives) collected from European Reference Network for Intellectual disability, TeleHealth, Autism and Congenital Anomalies was reanalyzed by the Solve-RD consortium by evaluating for the presence of single-nucleotide variant, and small insertions and deletions already reported as (likely) pathogenic in ClinVar. Variants were filtered according to frequency, genotype, and mode of inheritance and reinterpreted. Results We identified causal variants in 59 cases (3.9%), 50 of them also raised by other approaches and 9 leading to new diagnoses, highlighting interpretation challenges: variants in genes not known to be involved in human disease at the time of the first analysis, misleading genotypes, or variants undetected by local pipelines (variants in off-target regions, low quality filters, low allelic balance, or high frequency). Conclusion The “ClinVar low-hanging fruit” analysis represents an effective, fast, and easy approach to recover causal variants from exome sequencing data, herewith contributing to the reduction of the diagnostic deadlock

A hierarchical architecture for a distributed management of P2P networks and services

We propose a management architecture for the P2P model which respects its distributed nature while building a hierarchical structure. This architecture enables the distribution of management functions, avoids an excessive centralization of the manager role and fits the dy- namic of the P2P model well. The architecture is evaluated through an implementation in the Pastry framework

Eur. J. Hum. Genet.

Mutations in PQBP1 were recently identified in families with syndromic and non-syndromic X-linked mental retardation (XLMR). Clinical features frequently associated with MR were microcephaly and/or short stature. The predominant mutations detected so far affect a stretch of six AG dinucleotides in the polar-amino-acid-rich domain (PRD), causing frameshifts in the fourth coding exon. We searched for PQBP1 exon 4 frameshifts in 57 mentally retarded males in whom initial referral description indicated at least one of the following criteria: microcephaly, short stature, spastic paraplegia or family history compatible with XLMR, and in 772 mentally retarded males not selected for specific clinical features or family history. We identified a novel frameshift mutation (23 bp deletion) in two half-brothers with specific clinical features, and performed prenatal diagnosis in this family. We also found two different 21 bp in-frame deletions (c.334–354del(21 bp) and c.393–413del(21 bp)) in four unrelated probands from various ethnic origins, each deleting one of five copies of an imperfect seven amino-acid repeat. Although such deletions have not been detected in 1180 X chromosomes from European controls, the c. 334–354del(21 bp) was subsequently found in two of 477 Xs from Indian controls. We conclude that pathogenic frameshift mutations in PQBP1 are rare in mentally retarded patients lacking specific associated signs and that the 21 bp in-frame deletions may be non-pathogenic, or alternatively could act subtly on PQBP1 function. This touches upon a common dilemma in XLMR, that is, how to distinguish between mutations and variants that may be non-pathogenic or represent risk factors for cognitive impairment

Genome sequencing identify chromosome 9 inversions disrupting ENG in 2 unrelated HHT families

International audienceHereditary hemorrhagic telangiectasia (HHT), also known as Rendu-Osler-Weber disease, is a dominant inherited vascular disorder. The clinical diagnosis is based on the Curaçao criteria and pathogenic variants in the ENG and ACVRL1 genes are responsible for most cases of HHT.Four families with a negative targeted gene panel and selected by a multidisciplinary team were selected and whole-genome sequencing was performed according to the recommendations of the French National Plan for Genomic Medicine. Structural variations were confirmed by standard molecular cytogenetic analysis (FISH).In two families with a definite diagnosis of HHT, we identified two different paracentric inversions of chromosome 9, both disrupting the ENG gene. These inversions are considered as pathogenic and causative for the HHT phenotype of the patients.This is the first time structural variations are reported to cause HHT. As such balanced events are often missed by exon-based sequencing (panel, exome), structural variations may be an under-recognized cause of HHT. Genome sequencing for the detection of these events could be suggested for patients with a definite diagnosis of HHT and in whom no causative pathogenic variant was identified

BCL11B mutations in patients affected by a neurodevelopmental disorder with reduced type 2 innate lymphoid cells.

The transcription factor BCL11B is essential for development of the nervous and the immune system, and Bcl11b deficiency results in structural brain defects, reduced learning capacity, and impaired immune cell development in mice. However, the precise role of BCL11B in humans is largely unexplored, except for a single patient with a BCL11B missense mutation, affected by multisystem anomalies and profound immune deficiency. Using massively parallel sequencing we identified 13 patients bearing heterozygous germline alterations in BCL11B. Notably, all of them are affected by global developmental delay with speech impairment and intellectual disability; however, none displayed overt clinical signs of immune deficiency. Six frameshift mutations, two nonsense mutations, one missense mutation, and two chromosomal rearrangements resulting in diminished BCL11B expression, arose de novo. A further frameshift mutation was transmitted from a similarly affected mother. Interestingly, the most severely affected patient harbours a missense mutation within a zinc-finger domain of BCL11B, probably affecting the DNA-binding structural interface, similar to the recently published patient. Furthermore, the most C-terminally located premature termination codon mutation fails to rescue the progenitor cell proliferation defect in hippocampal slice cultures from Bcl11b-deficient mice. Concerning the role of BCL11B in the immune system, extensive immune phenotyping of our patients revealed alterations in the T cell compartment and lack of peripheral type 2 innate lymphoid cells (ILC2s), consistent with the findings described in Bcl11b-deficient mice. Unsupervised analysis of 102 T lymphocyte subpopulations showed that the patients clearly cluster apart from healthy children, further supporting the common aetiology of the disorder. Taken together, we show here that mutations leading either to BCL11B haploinsufficiency or to a truncated BCL11B protein clinically cause a non-syndromic neurodevelopmental delay. In addition, we suggest that missense mutations affecting specific sites within zinc-finger domains might result in distinct and more severe clinical outcomes