PointCloudExplore 2: Visual exploration of 3D gene expression

To better understand how developmental regulatory networks are defined inthe genome sequence, the Berkeley Drosophila Transcription Network Project (BDNTP)has developed a suite of methods to describe 3D gene expression data, i.e.,the output of the network at cellular resolution for multiple time points. To allow researchersto explore these novel data sets we have developed PointCloudXplore (PCX).In PCX we have linked physical and information visualization views via the concept ofbrushing (cell selection). For each view dedicated operations for performing selectionof cells are available. In PCX, all cell selections are stored in a central managementsystem. Cells selected in one view can in this way be highlighted in any view allowingfurther cell subset properties to be determined. Complex cell queries can be definedby combining different cell selections using logical operations such as AND, OR, andNOT. Here we are going to provide an overview of PointCloudXplore 2 (PCX2), thelatest publicly available version of PCX. PCX2 has shown to be an effective tool forvisual exploration of 3D gene expression data. We discuss (i) all views available inPCX2, (ii) different strategies to perform cell selection, (iii) the basic architecture ofPCX2., and (iv) illustrate the usefulness of PCX2 using selected examples

A review of physical supply and EROI of fossil fuels in China

This paper reviews China’s future fossil fuel supply from the perspectives of physical output and net energy output. Comprehensive analyses of physical output of fossil fuels suggest that China’s total oil production will likely reach its peak, at about 230 Mt/year (or 9.6 EJ/year), in 2018; its total gas production will peak at around 350 Bcm/year (or 13.6 EJ/year) in 2040, while coal production will peak at about 4400 Mt/year (or 91.9 EJ/year) around 2020 or so. In terms of the forecast production of these fuels, there are significant differences among current studies. These differences can be mainly explained by different ultimately recoverable resources assumptions, the nature of the models used, and differences in the historical production data. Due to the future constraints on fossil fuels production, a large gap is projected to grow between domestic supply and demand, which will need to be met by increasing imports. Net energy analyses show that both coal and oil and gas production show a steady declining trend of EROI (energy return on investment) due to the depletion of shallow-buried coal resources and conventional oil and gas resources, which is generally consistent with the approaching peaks of physical production of fossil fuels. The peaks of fossil fuels production, coupled with the decline in EROI ratios, are likely to challenge the sustainable development of Chinese society unless new abundant energy resources with high EROI values can be found

PointCloudExplore 2: Visual exploration of 3D gene expression

To better understand how developmental regulatory networks are defined in the genome sequence, the Berkeley Drosophila Transcription Network Project (BDNTP) has developed a suite of methods to describe 3D gene expression data, i.e., the output of the network at cellular resolution for multiple time points. To allow researchers to explore these novel data sets we have developed PointCloudXplore (PCX). In PCX we have linked physical and information visualization views via the concept of brushing (cell selection). For each view dedicated operations for performing selection of cells are available. In PCX, all cell selections are stored in a central management system. Cells selected in one view can in this way be highlighted in any view allowing further cell subset properties to be determined. Complex cell queries can be defined by combining different cell selections using logical operations such as AND, OR, and NOT. Here we are going to provide an overview of PointCloudXplore 2 (PCX2), the latest publicly available version of PCX. PCX2 has shown to be an effective tool for visual exploration of 3D gene expression data. We discuss (i) all views available in PCX2, (ii) different strategies to perform cell selection, (iii) the basic architecture of PCX2., and (iv) illustrate the usefulness of PCX2 using selected examples

Renewable and low-carbon energies as mitigation options of climate change for China

This article discusses how renewable and low-carbon energies can serve as mitigation options of climate change in China’s power sector. Our study is based on scenarios developed in PowerPlan, a bottom-up model simulating a countries’ power sector and its emissions. We first adjusted the model to China’s present-day economy and power sector. We then developed different scenarios based on story lines for possible future developments in China. We simulated China’s carbon-based electricity production system of today and possible future transitions towards a low-carbon system relying on renewable and low-carbon energies. In our analysis, we compare the business-as-usual scenarios with more sustainable energy scenarios. We found that by increasing the share of renewable and nuclear energies to different levels, between 17% and 57% of all CO2 emissions from the power sector could be avoided by 2030 compared to the business-as-usual scenario. We also found that electricity generation costs increase when more sustainable power plants are installed. As a conclusion, China has two options: choosing for high climate change mitigation and high costs or choosing for moderate climate change mitigation and moderate costs. In case high climate change mitigation will be chosen, development assistance is likely to be needed to cover the costs.