2,304 Works

Establish a 5-day growth curve starting with 16,000 cells/ well

Christopher Dardis, Eric C Woolf & Adrienne C Scheck
Example 2; using R to generate LaTeX output. Intermediary .Rnw file, typeset with knitr.

Boundary extension effect is larger in tilt-shift photographs

Jiří Lukavský & Filip Děchtěrenko
In boundary extension (BE) experiments, people report remembering the content, which was originally beyond the edges of a studied view (Intraub & Richardson, 1989). Close-up views are known to yield larger BE errors compared to wide-angle views. We tested the hypothesis that larger BE is not caused by field of view, but by perceived distance. We argue that extrapolation of visual input is more useful in the proximal space, because the view of proximal space...

The SMRT way to sequence a yeast genome

Richard Edwards
We have performed PacBio single molecule real time (SMRT) sequencing of three Saccharomyces cerevisiae whole genomes. A haploid reference yeast strain (S288C) and two novel diploid strains were sequenced as part of a larger functional genomics project. For each strain, 20kb SMRT Bell library preps were performed and sequenced on two SMRT cells using the P6-C4 chemistry, generating read lengths of up to 53.3 kb. Pure PacBio whole genome de novo assemblies were generated using...

On bats, viruses and metagenome assembly

Bede Constantinides
Slides accompanying a short discussion of classification approaches for viral metagenome sequences, with reference to a study of sequenced RNA from Venezuelan bats.

Creating a multi genome graph by minimizing shanon information

Leily Rabbani & Jonas Müller
To address the challenge of representing and interrogating a large amount of sequence data, we are developing an algorithm that builds a simplified data structure and returns a graph as a multi-genome reference. It aids in representing genomes that differ over a range of diversities and tackles the bias against using only one reference genome.

Eigen-adaptation and distributed representations of 2-D phase, energy, scale and orientation in spatial vision

Keith Langley & Stephen Anderson
Distributed representations are fault tolerant, orthogonal representations derived from the signal autocorrelation function (ACF) are both efficient & optimal. Here we examine orthogonal representations via the Riesz Transform and derive a distributed representation to include a 2D phase, that allows one to pass smoothly across both isotropic and orientation tuned filters. We posit that orthogonal representations underpin visual adaptation effects, and by taking the tilt after-effect as an example, demonstrate how this can be so.

Integrating operational research into a clinical care site

Janet Ousley, Nang Thu Kyaw, Marcelo Fernandez & Liesbeth Aelbrecht
Myanmar has a dearth of published literature due to decades of isolation. Recent openings, however, mean the government is scaling up health programs. After more than ten years in the country, MSF has an enormous amount of clinical data about providing care in the context. We established an Operational Research (OR) unit in 2014 to use and learn from this data and to answer original OR questions. MSF hopes the research will have wide effects....

A rhapsody of errors: sequence exploration with nanopores

David Eccles
I'm David Eccles, the semi-resident bioinformagician at the Malaghan Institute of Medical Research. The Malaghan Institute does a lot of flow cytometry and experimental work, but have only recently been looking into high-throughput sequencing. I was encouraged to give a talk at this conference, telling you about my experience at the Institute with next generation sequencing.

Consider this presentation a technology preview. I'll give you a jumble of different exciting nibbles from the sequencing process, which...

UPRup genes - enriched pathways

Ravi Kiran Reddy Kalathur, Joaquin Giner-Lamia, Susana Machado, Kameshwar R S Ayasolla & Matthias E. Futschik
List of all the pathways that are enriched among upregulated UPR genes.

Gastric neuroendocrine tumors with manifestations of Zollinger-Ellison syndrome

Nikolay Karnaukhov & Irina Derizhanova
Objective. Perform the screening of the ZES manifestations аt stomach NEO, to study their clinical and morphological features. Methods. The histories of morbid and biopsied and surgical specimens of 21 patients with stomach NET were investigated. The usual methods and the IHC study were used. Results. 62% of patients were conducted 2 – 6 biopsies from the stomach mucosa. Hyperplastic epithelial, muscle and endocrine cells changes were revealed. 18 tumors were regarded as G1, 3...

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