This document summarizes work to improve the chicken genome and transcriptome references using RNA sequencing and long read sequencing techniques. Digital normalization of RNAseq data helped recover genes missing from the current reference by evening out coverage. Preliminary results using PacBio long reads helped resolve repeats and heterozygous regions that fragmented the reference assembly. The work aims to combine Illumina, RNAseq, and PacBio data to iteratively improve the chicken gene models and genome reference.
This document summarizes challenges in assembling large DNA sequence data sets and strategies to address them.
1. The cost to generate DNA sequence data is decreasing rapidly, creating data sets too large for most computers to assemble. Hundreds to thousands of such data sets are generated each year.
2. Techniques like streaming compression and low-memory probabilistic data structures allow assembly memory usage to scale linearly with the sample size rather than the total data, enabling assembly of larger datasets.
3. Benchmarking different computational platforms revealed that while some platforms have faster processors, the ability to store large amounts of data locally is also important for assembly tasks. Scaling algorithms, rather than just optimizing code, is key to addressing
Este documento presenta 47 preguntas de opción múltiple sobre conceptos básicos de sistemas de ecuaciones lineales, incluyendo la identificación de matrices como la de coeficientes, incógnitas, términos independientes y ampliada. También cubre conceptos como sistemas homogéneos vs no homogéneos, rango de matrices, equivalencia de sistemas, y tipos de soluciones como única, infinita y trivial.
The document discusses several items from Texas A&M Health Science Center related to medicine including a family medicine residency completion certificate, a 2009 reunion invite and reply card, and two conference brochures from Coastal Bend Health Education Center.
This document is the 2006 German Photography Annual. It likely contains photographs from German photographers that year as well as information about the photography industry and community in Germany for 2006. In 3 sentences or less, it summarizes key events, photographers, exhibitions, or trends within German photography during that year.
This document summarizes work to improve the chicken genome and transcriptome references using RNA sequencing and long read sequencing techniques. Digital normalization of RNAseq data helped recover genes missing from the current reference by evening out coverage. Preliminary results using PacBio long reads helped resolve repeats and heterozygous regions that fragmented the reference assembly. The work aims to combine Illumina, RNAseq, and PacBio data to iteratively improve the chicken gene models and genome reference.
This document summarizes challenges in assembling large DNA sequence data sets and strategies to address them.
1. The cost to generate DNA sequence data is decreasing rapidly, creating data sets too large for most computers to assemble. Hundreds to thousands of such data sets are generated each year.
2. Techniques like streaming compression and low-memory probabilistic data structures allow assembly memory usage to scale linearly with the sample size rather than the total data, enabling assembly of larger datasets.
3. Benchmarking different computational platforms revealed that while some platforms have faster processors, the ability to store large amounts of data locally is also important for assembly tasks. Scaling algorithms, rather than just optimizing code, is key to addressing
Este documento presenta 47 preguntas de opción múltiple sobre conceptos básicos de sistemas de ecuaciones lineales, incluyendo la identificación de matrices como la de coeficientes, incógnitas, términos independientes y ampliada. También cubre conceptos como sistemas homogéneos vs no homogéneos, rango de matrices, equivalencia de sistemas, y tipos de soluciones como única, infinita y trivial.
The document discusses several items from Texas A&M Health Science Center related to medicine including a family medicine residency completion certificate, a 2009 reunion invite and reply card, and two conference brochures from Coastal Bend Health Education Center.
This document is the 2006 German Photography Annual. It likely contains photographs from German photographers that year as well as information about the photography industry and community in Germany for 2006. In 3 sentences or less, it summarizes key events, photographers, exhibitions, or trends within German photography during that year.
A coalition brings together various community and government sectors to develop and carry out strategies to impact the whole community on issues like substance abuse. The document discusses data from surveys that show high rates of underage drinking and binge drinking among youth. It provides definitions of binge drinking and notes that younger adolescents reach risky blood alcohol levels from fewer drinks. The document advocates for environmental strategies and policy changes to restrict alcohol availability and marketing to reduce substance abuse problems in communities. These include policies around retail outlets, taxes, advertising, and server training.
PPP Project Development Fund Initiative-PbyRAkwu OKOLO
This document discusses using a payment by result model to close funding gaps for developing public-private partnership (PPP) projects in Nigeria. It proposes using this model to competitively procure transaction advisory services to develop three candidate PPP projects: a land swap deal to redevelop Ikoyi Prison; upgrading the heavily trafficked Lagos-Ibadan Road; and developing brownfield power projects. The payment by result model pays transaction advisors a percentage of any entry fee paid by a procured PPP partner upon reaching financial close, incentivizing advisors to fully develop bankable projects. However, Nigeria's legal and regulatory PPP framework needs strengthening first to attract top advisors and give partners confidence.
"Mythbusters: Employment Law Edition" was presented by Kailee Goold on November 18, 2014 for the Women Presidents' Organization (Columbus, Ohio chapter).
Kailee discussed the two most common employment law mistakes, misclassifying employees as independent contractors and which employees are exempt from wage and hour laws. She then examined how companies can prevent or fix those common mistakes.
This document provides an overview of metagenome assembly from a lecture given by C. Titus Brown. It begins with introductions and definitions related to bioinformatics and metagenomics. It then discusses challenges with annotating individual short reads from metagenomes and why assembly is preferable. An example study assembling 454 shotgun reads from soil metagenomes to analyze the impact of land management on microbial communities is described. Finally, challenges with assembling human-associated and high-complexity soil metagenomes are discussed.
Point Dynamics provides content management software and services that help organizations save money. Their product is used by companies in various industries including banking, real estate, and consulting. It allows users to organize, secure, deliver, and control content from anywhere while reducing expenses associated with paper, storage, and technical support. Their software integrates features like content protection, version control, automated workflows, and collaboration tools at a price point they claim is competitive.
The document discusses the benefits of exercise for mental health. Regular physical activity can help reduce anxiety and depression and improve mood and cognitive function. Exercise causes chemical changes in the brain that may help protect against mental illness and improve symptoms.
On August 16, 2016 Jeff Nein, Brendan Feheley, and Steve Barsotti presented Protecting Your Business' Secrets in the Modern Era at the office of Kegler Brown Hill + Ritter.
The agenda was as follows:
8:30-9:00 a.m. Jeff Nein identified what a trade secret is and methods that companies have done to protect their intellectual property. He also discussed the recently enacted Defend Trade Secrets Act and provided action steps employers can implement to maximize protection under the new Act.
9:00 - 9:30 a.m. Brendan Fehley discussed the importance of contractual language that protects your intellectual property and confidential information, both internally in contracts with employees and externall in contracts with vendors and contractors.
9:30 - 10:00 a.m. Steve Barsotti discussed how effective intellectual property protection fits into any company's broader intellectual property strategy.
"Cuba's Current Energy Situation, Future Plans + Challenges" was presented by Luis Alcalde at the Florida International Bar Association on November 20-21, 2014.
In this presentation, Luis discussed what the U.S. legal and business community needs to know about Cuba's energy situation. He examined energy policies, oil production and the energy challenges Cuba may face.
This document introduces khmer, a platform for scalable sequence analysis. It discusses how khmer uses k-mers to provide implicit read alignments and assemble sequences using de Bruijn graphs. It also describes some of the challenges with k-mers, such as each sequencing error resulting in novel k-mers. The document outlines khmer's data structures and algorithms for efficiently counting k-mers and represents de Bruijn graphs. It discusses how khmer has been applied to real biological problems and highlights areas of current research using khmer, such as error correction, variant calling, and assembly-free comparisons of data sets.
This document outlines the steps in the Kalamazoo Metagenomics Pipeline for analyzing metagenomic sequencing data. The steps include: 1) adapter trimming and quality filtering of reads, 2) normalization of read coverage using Diginorm, 3) partitioning reads into groups and re-inflating groups, 4) assembling reads into contigs, 5) mapping reads back to the assembly, and 6) annotating contigs with abundance information using tools like MG-RAST.
A coalition brings together various community and government sectors to develop and carry out strategies to impact the whole community on issues like substance abuse. The document discusses data from surveys that show high rates of underage drinking and binge drinking among youth. It provides definitions of binge drinking and notes that younger adolescents reach risky blood alcohol levels from fewer drinks. The document advocates for environmental strategies and policy changes to restrict alcohol availability and marketing to reduce substance abuse problems in communities. These include policies around retail outlets, taxes, advertising, and server training.
PPP Project Development Fund Initiative-PbyRAkwu OKOLO
This document discusses using a payment by result model to close funding gaps for developing public-private partnership (PPP) projects in Nigeria. It proposes using this model to competitively procure transaction advisory services to develop three candidate PPP projects: a land swap deal to redevelop Ikoyi Prison; upgrading the heavily trafficked Lagos-Ibadan Road; and developing brownfield power projects. The payment by result model pays transaction advisors a percentage of any entry fee paid by a procured PPP partner upon reaching financial close, incentivizing advisors to fully develop bankable projects. However, Nigeria's legal and regulatory PPP framework needs strengthening first to attract top advisors and give partners confidence.
"Mythbusters: Employment Law Edition" was presented by Kailee Goold on November 18, 2014 for the Women Presidents' Organization (Columbus, Ohio chapter).
Kailee discussed the two most common employment law mistakes, misclassifying employees as independent contractors and which employees are exempt from wage and hour laws. She then examined how companies can prevent or fix those common mistakes.
This document provides an overview of metagenome assembly from a lecture given by C. Titus Brown. It begins with introductions and definitions related to bioinformatics and metagenomics. It then discusses challenges with annotating individual short reads from metagenomes and why assembly is preferable. An example study assembling 454 shotgun reads from soil metagenomes to analyze the impact of land management on microbial communities is described. Finally, challenges with assembling human-associated and high-complexity soil metagenomes are discussed.
Point Dynamics provides content management software and services that help organizations save money. Their product is used by companies in various industries including banking, real estate, and consulting. It allows users to organize, secure, deliver, and control content from anywhere while reducing expenses associated with paper, storage, and technical support. Their software integrates features like content protection, version control, automated workflows, and collaboration tools at a price point they claim is competitive.
The document discusses the benefits of exercise for mental health. Regular physical activity can help reduce anxiety and depression and improve mood and cognitive function. Exercise causes chemical changes in the brain that may help protect against mental illness and improve symptoms.
On August 16, 2016 Jeff Nein, Brendan Feheley, and Steve Barsotti presented Protecting Your Business' Secrets in the Modern Era at the office of Kegler Brown Hill + Ritter.
The agenda was as follows:
8:30-9:00 a.m. Jeff Nein identified what a trade secret is and methods that companies have done to protect their intellectual property. He also discussed the recently enacted Defend Trade Secrets Act and provided action steps employers can implement to maximize protection under the new Act.
9:00 - 9:30 a.m. Brendan Fehley discussed the importance of contractual language that protects your intellectual property and confidential information, both internally in contracts with employees and externall in contracts with vendors and contractors.
9:30 - 10:00 a.m. Steve Barsotti discussed how effective intellectual property protection fits into any company's broader intellectual property strategy.
"Cuba's Current Energy Situation, Future Plans + Challenges" was presented by Luis Alcalde at the Florida International Bar Association on November 20-21, 2014.
In this presentation, Luis discussed what the U.S. legal and business community needs to know about Cuba's energy situation. He examined energy policies, oil production and the energy challenges Cuba may face.
This document introduces khmer, a platform for scalable sequence analysis. It discusses how khmer uses k-mers to provide implicit read alignments and assemble sequences using de Bruijn graphs. It also describes some of the challenges with k-mers, such as each sequencing error resulting in novel k-mers. The document outlines khmer's data structures and algorithms for efficiently counting k-mers and represents de Bruijn graphs. It discusses how khmer has been applied to real biological problems and highlights areas of current research using khmer, such as error correction, variant calling, and assembly-free comparisons of data sets.
This document outlines the steps in the Kalamazoo Metagenomics Pipeline for analyzing metagenomic sequencing data. The steps include: 1) adapter trimming and quality filtering of reads, 2) normalization of read coverage using Diginorm, 3) partitioning reads into groups and re-inflating groups, 4) assembling reads into contigs, 5) mapping reads back to the assembly, and 6) annotating contigs with abundance information using tools like MG-RAST.
