Effectiveness of multi-stage cooling processes in improving the CH4-hydrate saturation uniformity in sandy laboratory samples

Laboratory-created samples of methane hydrate (MH)-bearing media are a necessity because of the rarity and difficulty of obtaining naturally-occurring samples. The hypothesis that the inevitable heterogeneity in the phase saturations of the laboratory samples may lead to unreliable and non-repeatable results provided the impetus for this study, which aimed to determine the conditions under which maximum uniformity can be achieved. To that end, we designed four experiments involving different multi-stage cooling regimes (in terms of their duration and number of stages) to induce MH formation under excess-water conditions. In the absence of direct visualization capabilities, we analysed the experimental results by means of numerical simulation, which provided high-resolution predictions of the spatial distributions of the phase saturations in the cores and enabled the estimation of the parameters controlling the kinetic MH-formation behaviour through history-matching. Analysis of the numerical results indicated that, under the conditions of the experiments and with the design of the reactor, significant heterogeneities in phase saturation distributions were observed in all cases, leading to the conclusion that it is not possible to obtain cores with uniform phase saturation. Additionally, contrary to expectations, heterogeneities increased with the number of cooling stages and the duration of cooling, and this was attributed to imperfect insulation of the upper part of the reactor. A set of simulations involving perfect insulation of the reactor top confirmed the validity of this assumption: (a) predicting the formation of high-uniformity MH-bearing cores that became more homogeneous as the number of cooling stages and the length of the cooling period increased; and (b) providing important information for the improvement of the standard design of the experimental apparatus for the laboratory creation of MH-bearing cores using the excess water method

Pan-cancer analysis of whole genomes

Cancer is driven by genetic change, and the advent of massively parallel sequencing has enabled systematic documentation of this variation at the whole-genome scale(1-3). Here we report the integrative analysis of 2,658 whole-cancer genomes and their matching normal tissues across 38 tumour types from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). We describe the generation of the PCAWG resource, facilitated by international data sharing using compute clouds. On average, cancer genomes contained 4-5 driver mutations when combining coding and non-coding genomic elements; however, in around 5% of cases no drivers were identified, suggesting that cancer driver discovery is not yet complete. Chromothripsis, in which many clustered structural variants arise in a single catastrophic event, is frequently an early event in tumour evolution; in acral melanoma, for example, these events precede most somatic point mutations and affect several cancer-associated genes simultaneously. Cancers with abnormal telomere maintenance often originate from tissues with low replicative activity and show several mechanisms of preventing telomere attrition to critical levels. Common and rare germline variants affect patterns of somatic mutation, including point mutations, structural variants and somatic retrotransposition. A collection of papers from the PCAWG Consortium describes non-coding mutations that drive cancer beyond those in the TERT promoter(4); identifies new signatures of mutational processes that cause base substitutions, small insertions and deletions and structural variation(5,6); analyses timings and patterns of tumour evolution(7); describes the diverse transcriptional consequences of somatic mutation on splicing, expression levels, fusion genes and promoter activity(8,9); and evaluates a range of more-specialized features of cancer genomes(8,10-18).Peer reviewe

Reticular synthesis of porous molecular 1D nanotubes and 3D networks

Synthetic control over pore size and pore connectivity is the crowning achievement for porous metal–organic frameworks (MOFs). The same level of control has not been achieved for molecular crystals, which are not defined by strong, directional intermolecular coordination bonds. Hence, molecular crystallization is inherently less controllable than framework crystallization, and there are fewer examples of ‘reticular synthesis’, in which multiple building blocks can be assembled according to a common assembly motif. Here we apply a chiral recognition strategy to a new family of tubular covalent cages to create both 1D porous nanotubes and 3D diamondoid pillared porous networks. The diamondoid networks are analogous to MOFs prepared from tetrahedral metal nodes and linear ditopic organic linkers. The crystal structures can be rationalized by computational lattice-energy searches, which provide an in silico screening method to evaluate candidate molecular building blocks. These results are a blueprint for applying the ‘node and strut’ principles of reticular synthesis to molecular crystals

Effectiveness of multi-stage cooling processes in improving the CH4-hydrate saturation uniformity in sandy laboratory samples

Laboratory-created samples of methane hydrate (MH)-bearing media are a necessity because of the rarity and difficulty of obtaining naturally-occurring samples. The hypothesis that the inevitable heterogeneity in the phase saturations of the laboratory samples may lead to unreliable and non-repeatable results provided the impetus for this study, which aimed to determine the conditions under which maximum uniformity can be achieved. To that end, we designed four experiments involving different multi-stage cooling regimes (in terms of their duration and number of stages) to induce MH formation under excess-water conditions. In the absence of direct visualization capabilities, we analysed the experimental results by means of numerical simulation, which provided high-resolution predictions of the spatial distributions of the phase saturations in the cores and enabled the estimation of the parameters controlling the kinetic MH-formation behaviour through history-matching. Analysis of the numerical results indicated that, under the conditions of the experiments and with the design of the reactor, significant heterogeneities in phase saturation distributions were observed in all cases, leading to the conclusion that it is not possible to obtain cores with uniform phase saturation. Additionally, contrary to expectations, heterogeneities increased with the number of cooling stages and the duration of cooling, and this was attributed to imperfect insulation of the upper part of the reactor. A set of simulations involving perfect insulation of the reactor top confirmed the validity of this assumption: (a) predicting the formation of high-uniformity MH-bearing cores that became more homogeneous as the number of cooling stages and the length of the cooling period increased; and (b) providing important information for the improvement of the standard design of the experimental apparatus for the laboratory creation of MH-bearing cores using the excess water method

Numerical analysis of experimental studies of methane hydrate dissociation induced by depressurization in a sandy porous medium

Methane Hydrates (MHs) are a promising energy source abundantly available in nature. Understanding the complex processes of MH formation and dissociation is critical for the development of safe and efficient technologies for energy recovery. Many laboratory and numerical studies have investigated these processes using synthesized MH-bearing sediments. A near-universal issue encountered in these studies is the spatial heterogeneous hydrate distribution in the testing apparatus. In the absence of direct observations (e.g. using X-ray computed tomography) coupled with real time production data, the common assumption made in almost all numerical studies is a homogeneous distribution of the various phases. In an earlier study (Yin et al., 2018) that involved the numerical description of a set of experiments on MH-formation in sandy medium using the excess water method, we showed that spatially heterogeneous phase distribution is inevitable and significant. In the present study, we use as a starting point the results and observations at the end of the MH formation and seek to numerically reproduce the laboratory experiments of depressurization-induced dissociation of the spatially-heterogeneous MH distribution. This numerical study faithfully reproduces the geometry of the laboratory apparatus, the initial and boundary conditions of the system, and the parameters of the dissociation stimulus, capturing accurately all stages of the experimental process. Using inverse modelling (history-matching) that minimized deviations between the experimental observations and numerical predictions, we determined the values of all the important flow, thermal, and kinetic parameters that control the system behaviour, which yielded simulation results that were in excellent agreement with the measurements of key monitored variables, i.e. pressure, temperature, cumulative production of gas and water over time. We determined that at the onset of depressurization (when the pressure drop – the driving force of dissociation – is at its maximum), the rate of MH dissociation approaches that of an equilibrium reaction and is limited by the heat transfer from the system surroundings. As the effect of depressurization declines over time, the dissociation reaction becomes kinetically limited despite significant heat inflows from the boundaries, which lead to localized temperature increases in the reactor