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"Clark, Matthew"
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One-Dimensional Convolutional Neural Network Land-Cover Classification of Multi-Seasonal Hyperspectral Imagery in the San Francisco Bay Area, California
In this study, a 1-D Convolutional Neural Network (CNN) architecture was developed, trained and utilized to classify single (summer) and three seasons (spring, summer, fall) of hyperspectral imagery over the San Francisco Bay Area, California for the year 2015. For comparison, the Random Forests (RF) and Support Vector Machine (SVM) classifiers were trained and tested with the same data. In order to support space-based hyperspectral applications, all analyses were performed with simulated Hyperspectral Infrared Imager (HyspIRI) imagery. Three-season data improved classifier overall accuracy by 2.0% (SVM), 1.9% (CNN) to 3.5% (RF) over single-season data. The three-season CNN provided an overall classification accuracy of 89.9%, which was comparable to overall accuracy of 89.5% for SVM. Both three-season CNN and SVM outperformed RF by over 7% overall accuracy. Analysis and visualization of the inner products for the CNN provided insight to distinctive features within the spectral-temporal domain. A method for CNN kernel tuning was presented to assess the importance of learned features. We concluded that CNN is a promising candidate for hyperspectral remote sensing applications because of the high classification accuracy and interpretability of its inner products.
Journal Article
Small wonders : Jean-Henri Fabre & his world of insects
\"Meet Jean-Henri Fabre, one of the most important naturalists of all time, whose own life was as unusual as the lives of the creatures he studied\"--Front jacket flap.
Book
Nanopore adaptive sampling: a tool for enrichment of low abundance species in metagenomic samples
Adaptive sampling is a method of software-controlled enrichment unique to nanopore sequencing platforms. To test its potential for enrichment of rarer species within metagenomic samples, we create a synthetic mock community and construct sequencing libraries with a range of mean read lengths. Enrichment is up to 13.87-fold for the least abundant species in the longest read length library; factoring in reduced yields from rejecting molecules the calculated efficiency raises this to 4.93-fold. Finally, we introduce a mathematical model of enrichment based on molecule length and relative abundance, whose predictions correlate strongly with mock and complex real-world microbial communities.
Journal Article
Lighter than air : Sophie Blanchard, the first woman pilot
Shares the life of the first female to work as a professional balloonist, making more than sixty ascents until 1819, when she became the first woman to die in an aviation accident.
Book
Plant gene editing through de novo induction of meristems
Plant gene editing is typically performed by delivering reagents such as Cas9 and single guide RNAs to explants in culture. Edited cells are then induced to differentiate into whole plants by exposure to various hormones. The creation of edited plants through tissue culture is often inefficient, time-consuming, works for only limited species and genotypes, and causes unintended changes to the genome and epigenome. Here we report two methods to generate gene-edited dicotyledonous plants through de novo meristem induction. Developmental regulators and gene-editing reagents are delivered to somatic cells of whole plants. This induces meristems that produce shoots with targeted DNA modifications, and gene edits are transmitted to the next generation. The de novo induction of gene-edited meristems sidesteps the need for tissue culture and promises to overcome a bottleneck in plant gene editing.Methods to induce edited somatic plant cells to form meristems circumvent tissue culture and enable genome editing of a wider set of plant species.
Journal Article
The next red wave : how conservatives can beat leftist aggression, RINO betrayal & deep state subversion
\"Popular radio host and conservative legal and political commentator Jordan Sekulow offers an action plan that will bring real change to government and help secure the future of our nation. The next red wave is coming: November 3, 2020. We face battles on many fronts. The Deep State bureaucracy will stop at nothing to undermine the conservative agenda, even when that's the agenda chosen by the American voter. The liberal bureaucracy will continue to work alongside former liberal government officials from, yes, the Obama Administration and Team Clinton. In this election, the Left's prized goal - exclusively - will be defeating President Donald Trump by whatever means necessary. A red wave that surpasses the turnout and figures of the historic 2016 election will be the only way to win. Our opponents won't be caught off guard by President Trump again. I promise you, the DNC and liberal activists organizations began working on plans to defeat President Trump in 2020 before he was even inaugurated in 2017. In fact, we have evidence of FBI officials attempting to undermine President Trump as he was preparing to take the Oath of Office. So-called \"progressives\" and the radical Left relentlessly force their liberal agenda on the American people. Even when Republican majorities control both houses of Congress, the deck can feel stacked against us. The confirmation hearings for Justice Kavanaugh are a good reminder about the chaos liberals can cause even when they are in the minority. Now, Democrats control the House of Representatives while Republicans maintain control of the U.S. Senate. We deserve better. All Americans deserve better. We deserve politicians who keep their promises. The only way to force action and hold our elected officials accountable is to know the issues and engage the political process. But it's more than just fulfilling our civic duty at the ballot box. It's being actively engaged in public discourse in between elections. Battles - important battles - are won far more often in the court of public opinion than in any federal courtroom. These battles affect our lives every single day. It's time to fight back and come together to generate the next red wave. We can't wait another moment. Now is the time to do it. It really is up to us. The clock is ticking.\" -- Provided by publisher.
Book
A world of opportunities with nanopore sequencing
Oxford Nanopore Technologies’ MinION sequencer was launched in pre-release form in 2014 and represents an exciting new sequencing paradigm. The device offers multi-kilobase reads and a streamed mode of operation that allows processing of reads as they are generated. Crucially, it is an extremely compact device that is powered from the USB port of a laptop computer, enabling it to be taken out of the lab and facilitating previously impossible in-field sequencing experiments to be undertaken. Many of the initial publications concerning the platform focused on provision of tools to access and analyse the new sequence formats and then demonstrating the assembly of microbial genomes. More recently, as throughput and accuracy have increased, it has been possible to begin work involving more complex genomes and metagenomes. With the release of the high-throughput GridION X5 and PromethION platforms, the sequencing of large genomes will become more cost efficient, and enable the leveraging of extremely long (>100 kb) reads for resolution of complex genomic structures. This review provides a brief overview of nanopore sequencing technology, describes the growing range of nanopore bioinformatics tools, and highlights some of the most influential publications that have emerged over the last 2 years. Finally, we look to the future and the potential the platform has to disrupt work in human, microbiome, and plant genomics.
Journal Article
Superman : American alien
\"Hollywood screenwriter and Eisner Award nominee Max Landis (Chronicle, American Ultra, Adventures of Superman) joins forces with top comics artists including Jock, Francis Manapul and Jae Lee to bring you Superman: American Alien, a new epic that chronicles the life of Clark Kent and his development into the archetypal hero he will eventually become. But these are not the stories of the iconic \"Superman\" as you know him, but of the soft-spoken, charming, often-funny Kansas farm-boy behind the Man of Steel. With the tone of each issue ranging from heartwarming and simple, to frighteningly gritty and violent, to sexy, sun-kissed and funny, Superman: American Alien is unlike anything you've seen before.\"-- Provided by publisher.
Book
Topoclimates, refugia, and biotic responses to climate change
Plant distributions are strongly influenced by both climate and topography. In an analysis of geographic and topographic distributions for selected tree species in California, we found that tree populations are increasingly restricted to extreme topographic positions as they approach the edge of their geographic ranges, occupying cooler, pole-facing slopes (at the warm and dry edge) and warmer, equator-facing slopes (at the cool and moist edge). At a local scale, species distributions across topographic gradients also correlate with species geographic ranges (species that occupy cooler locations within the landscape have cooler, moister geographic distributions, and vice versa). Model outputs indicated that species found on pole-facing slopes and equator-facing slopes will experience population declines and population increases, respectively, in response to a warmer and drier future. As such, tree species occupying cooler landscape locations, which are viewed as refugia in some contexts, may be most threatened by anthropogenic climate change.
Journal Article