310 Lec1

•

0 likes•383 views

This document provides information about the FISH 310 - Biology of Shellfishes course at the University of Washington including the instructors, teaching assistants, contact information, website, grading policy, and expectations for class participation through discussions, labs, assignments, and an online message board.

Technology Business

FISH 310- Biology of Shellfishes

Instructors: Dr. Carolyn Friedman Dr. Steven Roberts
222B FSH (Fisheries Sciences Bldg) 232 FTR (Fisheries Teaching Bldg)
Tel: 206-543-9519 Tel: 206-685-3742
carolynf@u.washington.edu sr320@u.washington.edu

TAs: Lisa Crosson and Kristi Straus
FSH 234
Tel: 206-616-6341
lisa418@u.washington.edu; kmstraus@u.washington.edu

Abstract Technology has significantly changed how research is done in biology. Along with this shift, it is increasingly easier and advantageous to operate in an open science framework. In this presentation I will begin by providing an overview of our research efforts with particularly attention to challenges in data analysis. Research in our lab focuses on characterizing physiological responses of shellfish to environmental change, examining impacts and adaptive potential from the nucleotide to organism level. A core component of this includes investigating the functional relationship of genetics, epigenetics, and transcription. In our research we leverage several computing infrastructure solutions that I will describe. In addition, our lab practices Open Notebook Science. I will describe the practical aspects of how we accomplish this including addressing some of the concerns and realized advantages. Beyond online lab notebooks, we are continually experimenting with different ways to use online resources to engage with a larger audience and improve science communication. I have found this is a complex balance of time and effort versus impact and will discuss how our lab group attempts to reach this balance. Bio Steven Roberts is an Associate Professor in the School of Aquatic and Fishery Sciences where his research centers around characterizing the response of aquatic organisms to environmental change. Prior to coming to the University of Washington, in 2007 he was at the Marine Biological Laboratory in Woods Hole, Massachusetts and received his PhD from the University of Notre Dame. In graduate school he spent most of his time transferring agarose gels, and now he spends most of his time transferring files.

Short read sequencing and shellfish

sr320

FISH441: Oysters, acidification and methylation

sr320

FISH441: Oyster acidification: gene and protein expression

sr320

FISH441: Oyster Hypoxia and acclimation

sr320

Timmins Schiffman PCSGA 2011

sr320

Viewers also liked

Wera 2008 Uw

sr320

Icbf08 Robertssr320

Roberts GRC

sr320

Diner_oyster

sr320

Gavery Fish546

sr320

Roberts Insightsr320

Jensen FISH495

sr320

NSA2012 Short reads and Oyster Genome Resources

sr320

Timmins-Schiffman P2010sr320

Identifying Local Olympia Oyster Stocks Useful for Restoration

sr320

Epigenetic and Environmental Influences on the Shellfish Immune Response

sr320

Science Communication and Impact: A Researcher's Perspective

sr320

Genomic approaches to assessing ecosystem health

sr320

Lec16 Realtime PCRsr320

Viewers also liked (14)

Wera 2008 Uw

Icbf08 Roberts

Roberts GRC

Diner_oyster

Gavery Fish546

Roberts Insight

Jensen FISH495

NSA2012 Short reads and Oyster Genome Resources

Timmins-Schiffman P2010

Identifying Local Olympia Oyster Stocks Useful for Restoration

Epigenetic and Environmental Influences on the Shellfish Immune Response

Science Communication and Impact: A Researcher's Perspective

Genomic approaches to assessing ecosystem health

Lec16 Realtime PCR

Recently uploaded

20240607 QFM018 Elixir Reading List May 2024

Matthew Sinclair

National Security Agency - NSA mobile device best practices

Quotidiano Piemontese

20240605 QFM017 Machine Intelligence Reading List May 2024

Matthew Sinclair

Large Language Model (LLM) and it’s Geospatial Applications

Rohit Gautam

Free Complete Python - A step towards Data Science

RinaMondal9

20240609 QFM020 Irresponsible AI Reading List May 2024

Matthew Sinclair

Removing Uninteresting Bytes in Software Fuzzing

Aftab Hussain

Imagine a world where software fuzzing, the process of mutating bytes in test seeds to uncover hidden and erroneous program behaviors, becomes faster and more effective. A lot depends on the initial seeds, which can significantly dictate the trajectory of a fuzzing campaign, particularly in terms of how long it takes to uncover interesting behaviour in your code. We introduce DIAR, a technique designed to speedup fuzzing campaigns by pinpointing and eliminating those uninteresting bytes in the seeds. Picture this: instead of wasting valuable resources on meaningless mutations in large, bloated seeds, DIAR removes the unnecessary bytes, streamlining the entire process. In this work, we equipped AFL, a popular fuzzer, with DIAR and examined two critical Linux libraries -- Libxml's xmllint, a tool for parsing xml documents, and Binutil's readelf, an essential debugging and security analysis command-line tool used to display detailed information about ELF (Executable and Linkable Format). Our preliminary results show that AFL+DIAR does not only discover new paths more quickly but also achieves higher coverage overall. This work thus showcases how starting with lean and optimized seeds can lead to faster, more comprehensive fuzzing campaigns -- and DIAR helps you find such seeds. - These are slides of the talk given at IEEE International Conference on Software Testing Verification and Validation Workshop, ICSTW 2022.

LF Energy Webinar: Electrical Grid Modelling and Simulation Through PowSyBl -...

DanBrown980551

Do you want to learn how to model and simulate an electrical network from scratch in under an hour? Then welcome to this PowSyBl workshop, hosted by Rte, the French Transmission System Operator (TSO)! During the webinar, you will discover the PowSyBl ecosystem as well as handle and study an electrical network through an interactive Python notebook. PowSyBl is an open source project hosted by LF Energy, which offers a comprehensive set of features for electrical grid modelling and simulation. Among other advanced features, PowSyBl provides: - A fully editable and extendable library for grid component modelling; - Visualization tools to display your network; - Grid simulation tools, such as power flows, security analyses (with or without remedial actions) and sensitivity analyses; The framework is mostly written in Java, with a Python binding so that Python developers can access PowSyBl functionalities as well. What you will learn during the webinar: - For beginners: discover PowSyBl's functionalities through a quick general presentation and the notebook, without needing any expert coding skills; - For advanced developers: master the skills to efficiently apply PowSyBl functionalities to your real-world scenarios.

Alt. GDG Cloud Southlake #33: Boule & Rebala: Effective AppSec in SDLC using ...

James Anderson

Effective Application Security in Software Delivery lifecycle using Deployment Firewall and DBOM The modern software delivery process (or the CI/CD process) includes many tools, distributed teams, open-source code, and cloud platforms. Constant focus on speed to release software to market, along with the traditional slow and manual security checks has caused gaps in continuous security as an important piece in the software supply chain. Today organizations feel more susceptible to external and internal cyber threats due to the vast attack surface in their applications supply chain and the lack of end-to-end governance and risk management. The software team must secure its software delivery process to avoid vulnerability and security breaches. This needs to be achieved with existing tool chains and without extensive rework of the delivery processes. This talk will present strategies and techniques for providing visibility into the true risk of the existing vulnerabilities, preventing the introduction of security issues in the software, resolving vulnerabilities in production environments quickly, and capturing the deployment bill of materials (DBOM). Speakers: Bob Boule Robert Boule is a technology enthusiast with PASSION for technology and making things work along with a knack for helping others understand how things work. He comes with around 20 years of solution engineering experience in application security, software continuous delivery, and SaaS platforms. He is known for his dynamic presentations in CI/CD and application security integrated in software delivery lifecycle. Gopinath Rebala Gopinath Rebala is the CTO of OpsMx, where he has overall responsibility for the machine learning and data processing architectures for Secure Software Delivery. Gopi also has a strong connection with our customers, leading design and architecture for strategic implementations. Gopi is a frequent speaker and well-known leader in continuous delivery and integrating security into software delivery.

Climate Impact of Software Testing at Nordic Testing Days

Kari Kakkonen

My slides at Nordic Testing Days 6.6.2024 Climate impact / sustainability of software testing discussed on the talk. ICT and testing must carry their part of global responsibility to help with the climat warming. We can minimize the carbon footprint but we can also have a carbon handprint, a positive impact on the climate. Quality characteristics can be added with sustainability, and then measured continuously. Test environments can be used less, and in smaller scale and on demand. Test techniques can be used in optimizing or minimizing number of tests. Test automation can be used to speed up testing.

UiPath Test Automation using UiPath Test Suite series, part 6

DianaGray10

Welcome to UiPath Test Automation using UiPath Test Suite series part 6. In this session, we will cover Test Automation with generative AI and Open AI. UiPath Test Automation with generative AI and Open AI webinar offers an in-depth exploration of leveraging cutting-edge technologies for test automation within the UiPath platform. Attendees will delve into the integration of generative AI, a test automation solution, with Open AI advanced natural language processing capabilities. Throughout the session, participants will discover how this synergy empowers testers to automate repetitive tasks, enhance testing accuracy, and expedite the software testing life cycle. Topics covered include the seamless integration process, practical use cases, and the benefits of harnessing AI-driven automation for UiPath testing initiatives. By attending this webinar, testers, and automation professionals can gain valuable insights into harnessing the power of AI to optimize their test automation workflows within the UiPath ecosystem, ultimately driving efficiency and quality in software development processes. What will you get from this session? 1. Insights into integrating generative AI. 2. Understanding how this integration enhances test automation within the UiPath platform 3. Practical demonstrations 4. Exploration of real-world use cases illustrating the benefits of AI-driven test automation for UiPath Topics covered: What is generative AI Test Automation with generative AI and Open AI. UiPath integration with generative AI Speaker: Deepak Rai, Automation Practice Lead, Boundaryless Group and UiPath MVP

zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs

Alex Pruden

This paper presents Reef, a system for generating publicly verifiable succinct non-interactive zero-knowledge proofs that a committed document matches or does not match a regular expression. We describe applications such as proving the strength of passwords, the provenance of email despite redactions, the validity of oblivious DNS queries, and the existence of mutations in DNA. Reef supports the Perl Compatible Regular Expression syntax, including wildcards, alternation, ranges, capture groups, Kleene star, negations, and lookarounds. Reef introduces a new type of automata, Skipping Alternating Finite Automata (SAFA), that skips irrelevant parts of a document when producing proofs without undermining soundness, and instantiates SAFA with a lookup argument. Our experimental evaluation confirms that Reef can generate proofs for documents with 32M characters; the proofs are small and cheap to verify (under a second). Paper: https://eprint.iacr.org/2023/1886

GraphSummit Singapore | Neo4j Product Vision & Roadmap - Q2 2024

Neo4j

GridMate - End to end testing is a critical piece to ensure quality and avoid...

ThomasParaiso2

UiPath Test Automation using UiPath Test Suite series, part 5

DianaGray10

The Art of the Pitch: WordPress Relationships and Sales

Laura Byrne

Clients don’t know what they don’t know. What web solutions are right for them? How does WordPress come into the picture? How do you make sure you understand scope and timeline? What do you do if sometime changes? All these questions and more will be explored as we talk about matching clients’ needs with what your agency offers without pulling teeth or pulling your hair out. Practical tips, and strategies for successful relationship building that leads to closing the deal.

Artificial Intelligence for XMLDevelopment

Octavian Nadolu

In the rapidly evolving landscape of technologies, XML continues to play a vital role in structuring, storing, and transporting data across diverse systems. The recent advancements in artificial intelligence (AI) present new methodologies for enhancing XML development workflows, introducing efficiency, automation, and intelligent capabilities. This presentation will outline the scope and perspective of utilizing AI in XML development. The potential benefits and the possible pitfalls will be highlighted, providing a balanced view of the subject. We will explore the capabilities of AI in understanding XML markup languages and autonomously creating structured XML content. Additionally, we will examine the capacity of AI to enrich plain text with appropriate XML markup. Practical examples and methodological guidelines will be provided to elucidate how AI can be effectively prompted to interpret and generate accurate XML markup. Further emphasis will be placed on the role of AI in developing XSLT, or schemas such as XSD and Schematron. We will address the techniques and strategies adopted to create prompts for generating code, explaining code, or refactoring the code, and the results achieved. The discussion will extend to how AI can be used to transform XML content. In particular, the focus will be on the use of AI XPath extension functions in XSLT, Schematron, Schematron Quick Fixes, or for XML content refactoring. The presentation aims to deliver a comprehensive overview of AI usage in XML development, providing attendees with the necessary knowledge to make informed decisions. Whether you’re at the early stages of adopting AI or considering integrating it in advanced XML development, this presentation will cover all levels of expertise. By highlighting the potential advantages and challenges of integrating AI with XML development tools and languages, the presentation seeks to inspire thoughtful conversation around the future of XML development. We’ll not only delve into the technical aspects of AI-powered XML development but also discuss practical implications and possible future directions.

Communications Mining Series - Zero to Hero - Session 1

DianaGray10

This session provides introduction to UiPath Communication Mining, importance and platform overview. You will acquire a good understand of the phases in Communication Mining as we go over the platform with you. Topics covered: • Communication Mining Overview • Why is it important? • How can it help today’s business and the benefits • Phases in Communication Mining • Demo on Platform overview • Q/A

PCI PIN Basics Webinar from the Controlcase Team

ControlCase

Securing your Kubernetes cluster_ a step-by-step guide to success !

KatiaHIMEUR1

Today, after several years of existence, an extremely active community and an ultra-dynamic ecosystem, Kubernetes has established itself as the de facto standard in container orchestration. Thanks to a wide range of managed services, it has never been so easy to set up a ready-to-use Kubernetes cluster. However, this ease of use means that the subject of security in Kubernetes is often left for later, or even neglected. This exposes companies to significant risks. In this talk, I'll show you step-by-step how to secure your Kubernetes cluster for greater peace of mind and reliability.

Recently uploaded (20)

20240607 QFM018 Elixir Reading List May 2024

National Security Agency - NSA mobile device best practices

20240605 QFM017 Machine Intelligence Reading List May 2024

Large Language Model (LLM) and it’s Geospatial Applications

Free Complete Python - A step towards Data Science

20240609 QFM020 Irresponsible AI Reading List May 2024

Removing Uninteresting Bytes in Software Fuzzing

LF Energy Webinar: Electrical Grid Modelling and Simulation Through PowSyBl -...

Alt. GDG Cloud Southlake #33: Boule & Rebala: Effective AppSec in SDLC using ...

Climate Impact of Software Testing at Nordic Testing Days

UiPath Test Automation using UiPath Test Suite series, part 6

zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs

GraphSummit Singapore | Neo4j Product Vision & Roadmap - Q2 2024

GridMate - End to end testing is a critical piece to ensure quality and avoid...

UiPath Test Automation using UiPath Test Suite series, part 5

The Art of the Pitch: WordPress Relationships and Sales

Artificial Intelligence for XMLDevelopment

Communications Mining Series - Zero to Hero - Session 1

PCI PIN Basics Webinar from the Controlcase Team

Securing your Kubernetes cluster_ a step-by-step guide to success !

310 Lec1

1. FISH 310- Biology of Shellfishes Instructors: Dr. Carolyn Friedman Dr. Steven Roberts 222B FSH (Fisheries Sciences Bldg) 232 FTR (Fisheries Teaching Bldg) Tel: 206-543-9519 Tel: 206-685-3742 carolynf@u.washington.edu sr320@u.washington.edu TAs: Lisa Crosson and Kristi Straus FSH 234 Tel: 206-616-6341 lisa418@u.washington.edu; kmstraus@u.washington.edu

2. fish.washington.edu/classes/fish310

3. Syllabus

4. Grading

5. 7

6. 8

7. 9