MolabIS - An integrated information system for storing and managing molecular genetics data

BACKGROUND: Long-term sample storage, tracing of data flow and data export for subsequent analyses are of great importance in genetics studies. Therefore, molecular labs do need a proper information system to handle an increasing amount of data from different projects. RESULTS: We have developed a molecular labs information management system (MolabIS). It was implemented as a web-based system allowing the users to capture original data at each step of their workflow. MolabIS provides essential functionality for managing information on individuals, tracking samples and storage locations, capturing raw files, importing final data from external files, searching results, accessing and modifying data. Further important features are options to generate ready-to-print reports and convert sequence and microsatellite data into various data formats, which can be used as input files in subsequent analyses. Moreover, MolabIS also provides a tool for data migration. CONCLUSIONS: MolabIS is designed for small-to-medium sized labs conducting Sanger sequencing and microsatellite genotyping to store and efficiently handle a relative large amount of data. MolabIS not only helps to avoid time consuming tasks but also ensures the availability of data for further analyses. The software is packaged as a virtual appliance which can run on different platforms (e.g. Linux, Windows). MolabIS can be distributed to a wide range of molecular genetics labs since it was developed according to a general data model. Released under GPL, MolabIS is freely available at http://www.molabis.org

Google/CNIL - Hof van Justitie EU 24 september 2019, ECLI:EU:C:2019:772, In zaak C‑507/17

Hof van Justitie EU10Effective Protection of Fundamental Rights in a pluralist worl

Verkenning sensorgestuurde dosering van loofdodingsmiddelen in pootaardappelen

In 2008 is een verkenning gedaan naar haalbaarheid van sensorgestuurde dosering van loofdodingsmiddelen in pootgoedteelt van aardappelen. Er werd een prototype gebouwd en getest waarmee Finale pleksgewijs gedoseerd werd d.m.v. Greenseeker-sensoren op een klap-spuit-combinatie en een rekenregel die plaatspecifieke meetwaarden doorvertaalde in een minimum effectieve dosering. Ook werden dosis-response proeven uitgevoerd. De eerste resultaten met het prototype en systeem waren positief. Met de sensoren konden variatie in gewasstand in kaart gebracht worden, en deze bleek groter dan verwacht. Bovendien kon de dosering effectief gestuurd worden met de sensormeetwaarden. Het onderzoek laat zien dat reductie in loofdodingsmiddel met sensorsturing mogelijk is. In het onderzoek bleken ras en dosering van Finale geen effect te hebben op verkleuring van navels van knollen. Nader onderzoek aan de beslisregels, validatie in de praktijk inclusief effecten op kwaliteit van de aardappelen is nodig voor implementatie in de praktij

Renormalization Group Study of the soliton mass on the (lambda Phi^4)_{1+1} lattice model

We compute, on the $(\lambda \Phi^4)_{1+1}$ model on the lattice, the soliton mass by means of two very different numerical methods. First, we make use of a ``creation operator'' formalism, measuring the decay of a certain correlation function. On the other hand we measure the shift of the vacuum energy between the symmetric and the antiperiodic systems. The obtained results are fully compatible. We compute the continuum limit of the mass from the perturbative Renormalization Group equations. Special attention is paid to ensure that we are working on the scaling region, where physical quantities remain unchanged along any Renormalization Group Trajectory. We compare the continuum value of the soliton mass with its perturbative value up to one loop calculation. Both quantities show a quite satisfactory agreement. The first is slightly bigger than the perturbative one; this may be due to the contributions of higher order corrections.Comment: 19 pages, preprint DFTUZ/93/0

Ultrafast quasiparticle relaxation dynamics in normal metals and heavy fermion materials

We present a detailed theoretical study of the ultrafast quasiparticle relaxation dynamics observed in normal metals and heavy fermion materials with femtosecond time-resolved optical pump-probe spectroscopy. For normal metals, a nonthermal electron distribution gives rise to a temperature (T) independent electron-phonon relaxation time at low temperatures, in contrast to the T^{-3}-divergent behavior predicted by the two-temperature model. For heavy fermion compounds, we find that the blocking of electron-phonon scattering for heavy electrons within the density-of-states peak near the Fermi energy is crucial to explain the rapid increase of the electron-phonon relaxation time below the Kondo temperature. We propose the hypothesis that the slower Fermi velocity compared to the sound velocity provides a natural blocking mechanism due to energy and momentum conservation laws.Comment: 10 pages, 11 figure

Predicting outcome of rethoracotomy for suspected pericardial tamponade following cardio-thoracic surgery in the intensive care unit

<p>Abstract</p> <p>Objectives</p> <p>Pericardial tamponade after cardiac surgery is difficult to diagnose, thereby rendering timing of rethoracotomy hard. We aimed at identifying factors predicting the outcome of surgery for suspected tamponade after cardio-thoracic surgery, in the intensive care unit (ICU).</p> <p>Methods</p> <p>Twenty-one consecutive patients undergoing rethoracotomy for suspected pericardial tamponade in the ICU, admitted after primary cardio-thoracic surgery, were identified for this retrospective study. We compared patients with or without a decrease in severe haemodynamic compromise after rethoracotomy, according to the cardiovascular component of the sequential organ failure assessment (SOFA) score.</p> <p>Results</p> <p>A favourable haemodynamic response to rethoracotomy was observed in 11 (52%) of patients and characterized by an increase in cardiac output, and less fluid and norepinephrine requirements. Prior to surgery, the absence of treatment by heparin, a minimum cardiac index < 1.0 L/min/m²and a positive fluid balance (> 4,683 mL) were predictive of a beneficial haemodynamic response. During surgery, the evacuation of clots and > 500 mL of pericardial fluid was associated with a beneficial haemodynamic response. Echocardiographic parameters were of limited help in predicting the postoperative course, even though 9 of 13 pericardial clots found at surgery were detected preoperatively.</p> <p>Conclusion</p> <p>Clots and fluids in the pericardial space causing regional tamponade and responding to surgical evacuation after primary cardio-thoracic surgery, are difficult to diagnose preoperatively, by clinical, haemodynamic and even echocardiographic evaluation in the ICU. Only absence of heparin treatment, a large positive fluid balance and low cardiac index predicted a favourable haemodynamic response to rethoracotomy. These data might help in deciding and timing of reinterventions after primary cardio-thoracic surgery.</p

Increased permeability-oedema and atelectasis in pulmonary dysfunction after trauma and surgery: a prospective cohort study

<p>Abstract</p> <p>Background</p> <p>Trauma and surgery may be complicated by pulmonary dysfunction, acute lung injury (ALI) and acute respiratory distress syndrome (ARDS), but the mechanisms are incompletely understood.</p> <p>Methods</p> <p>We evaluated lung capillary protein permeability non-invasively with help of the ⁶⁷Ga-transferrin pulmonary leak index (PLI) technique and extravascular lung water (EVLW) by the transpulmonary thermal-dye dilution technique in consecutive, mechanically ventilated patients in the intensive care unit within 24 h of direct, blunt thoracic trauma (n = 5, 2 with ARDS), and within 12 h of indirect trauma by transhiatal oesophagectomy (n = 8), abdominal surgery for cancer (n = 6) and bone surgery (n = 4). We studied transfusion history, haemodynamics, oxygenation and mechanics of the lungs. The lung injury score (LIS, 0–4) was calculated. Plain radiography was also done to judge densities and atelectasis.</p> <p>Results</p> <p>The PLI and EVLW were elevated above normal in 61 and 30% of patients, respectively, and the PLI directly related to the number of red cell concentrates given (r_s= 0.69, P < 0.001), without group differences. Oxygenation, lung mechanics, radiographic densities and thus the LIS (1.0 [0.25–3.5]) did not relate to PLI and EVLW. However, groups differed in oxygenation and airway pressures and impaired oxygenation related to the number of radiographic quadrants with densities (r_s= 0.55, P = 0.007). Thoracic trauma patients had a worse oxygenation requiring higher airway pressures and thus higher LIS than the other patient groups, unrelated to PLI and EVLW but attributable to a higher cardiac output and thereby venous admixture. Finally, patients with radiographic signs of atelectasis had more impaired oxygenation and more densities than those without.</p> <p>Conclusion</p> <p>The oxygenation defect and radiographic densities in mechanically ventilated patients with pulmonary dysfunction and ALI/ARDS after trauma and surgery are likely caused by atelectasis rather than by increased permeability-oedema related to red cell transfusion.</p