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100th Annual Meeting of the Pacific Branch of the Entomological Society of America (ESA), Honolulu, HI

Dear VectorBasers,

We will have a poster during the 100th Annual Meeting of the Pacific Branch of the Entomological Society of America (ESA), Honolulu, HI. Save the date, April 3 - 6, 2016.

For more details about the meeting please follow this link: http://www.entsoc.org/pacific/2016-pacific-branch-annual-meeting

Hope to see you all there,
The VectorBase team

Honolulu, HI
Meeting Date: 
Sunday, April 3, 2016 - 12:30 to Wednesday, April 6, 2016 - 21:30
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10th Arthropod genomics symposium (AGS) & arthropod bioinformatics workshop

Follow this link for more information about both the symposium and the workshop: https://globalhealth.nd.edu/10th-annual-arthropod-genomics-symposium/. Early stage investigators whose research focuses on arthropod vectors of disease will be eligible to apply for a travel grant to attend the meeting.

This year the VectorBase team at Notre Dame has partnered up with a group of researchers from diverse backgrounds to provide a more inclusive, joint workshop led by scientists from some of the most widely used arthropod informatics resources, these resources and the instructors for the workshop are:

  • Anthony Bretaudeau, PhD (AphidBase)
  • Chris Childers, PhD (i5k Workspace@NAL)
  • Chris Elsik, PhD (Hymenoptera Genome Database)
  • Gloria I. Giraldo-Calderón, PhD (VectorBase)
  • Sujai Kumar, PhD (Lepbase)
  • Daniel Lawson, PhD (Ensembl Genome Browser & VectorBase)
  • Alistair Miles (Panoptes; Anopheles gambiae 1000 genomes project)
  • Monica Muñoz-Torres, PhD (Apollo, GO, i5k)
  • Monica Poelchau, PhD (i5k Workspace@NAL)
  • Robert Waterhouse, PhD (OrthoDB, BUSCO, i5k)


Symposium and workshop location

McKenna Hall, University of Notre Dame, Notre Dame, IN. This building has no physical address, for location purposes follow this link for a campus map.


VectorBase workshop


Instructors

Daniel (Dan) Lawson, PhD, VectorBase Principal Investigator

Gloria I. Giraldo-Calderón, PhD, VectorBase Scientific Liaison/Outreach Manager


Guest Lecture

Alistair Miles, Panoptes, https://www.malariagen.net/apps/ag1000g/phase1-AR3/index.html


Agenda


On day 2, there is not a specific topic titled 'Genome Browser' but this tool will be present throughout the agenda


Day 1 - June 7, 2017 - Wednesday Afternoon 12:30 pm - 4:30 pm


VectorBase (10 min)
  • overview of VectorBase's remit, tools and data,
  • website navigation and available data types,
  • automatic annotation of genomes at VectorBase (gene set predictions, functional annotation and projecting gene descriptions)


Ensembl Genome Browser (10 min)

Overview of this tool layout and how it works (e.g., query, browse, data upload and download, images export etc). Click here to know the list of species hosted in Ensembl (& VectorBase) Genome Browser.


Day 2 - June 8, 2017 - Thursday Morning 8:30 am - 11:30 am


Finding data/information, query, browse and download

With VectorBase you can retrieve information from a few genes or genome wide using a web interface (no programming required).

  • Search (40 min)
  • BioMart (40 min)

Break (20 min)


Sequence tools:
  • BLAST (40 min)
  • (Clustal and) Hmmer (40 min)

Lunch (1 h, 30 min)


Day 2 - June 8, 2017 - Thursday Afternoon 1:00 pm - 4:00 pm


Panoptes, Anopheles gambiae 1000 genomes project browser (40 min)


Population Biology, PopBio (40 min)

PopBio data comes from lab and field samples and includes insecticide resistance, population abundance and any biology, ecology or behavior trait. It als has genomic variation data such as microsatellites and single nucleotide polymorphisms, SNPs.

  • Simple search and browse; Map-based search and analysis; Advanced Search
  • Sample Explorer

Break (20 min)


Comparative genomics (40 min)
  • genomic alignments
  • gene trees, orthology & paralogy

Functional genomics - microarray and RNAseq data (40 min)
  • expression browser
  • expression tracks in the genome browser

Wrap up: Q&A and exit questionnaire


Computer and Internet access

A room with computers will not be provided. Please bring your own laptop and ensure your web browser meets the following requirements. Users should either have the latest Firefox or Google Chrome browser installed, or, if using a system-provided browser, please note that Mac users will need Safari 7 or higher (available since OS X 10.9 "Mavericks") and Windows users will require Internet Explorer 11.

Notre Dame, IN
Meeting Date: 
Wednesday, June 7, 2017 - 16:30 to Sunday, June 11, 2017 - 23:00
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11th Arthropod Genomics Symposium (AGS)

The University of Illinois at Urbana-Champaign will host the Arthropod Genomics Symposium (AGS), Thursday to Saturday, June 7-9, 2018. Follow this link for more information about the event: http://arthropod.igb.illinois.edu/. More details about VectorBase participation will be provided soon.

Urbana, IL, USA
Meeting Date: 
Thursday, June 7, 2018 - 11:00 to Saturday, June 9, 2018 - 23:00
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16 Anopheles Genomes Cluster Meeting at ASTMH

You are cordially invited to attend a public forum regarding the status of the 16 Anopheles Genomes Cluster project to be held in conjunction with the upcoming ASTMH meeting in Atlanta:

Please join us on Monday, November 12, 2012, 12:30pm-1:30pm in Hilton Room 211.

We will summarize the project and its management team, present a tentative timeline for resource delivery, opportunities for community analysis of biological themes, and publication strategy. We will be available to answer your questions.

For those unable to attend and for all who are interested in following our progress, please note that this information will be available on the Broad and VectorBase web sites. We will continue to update it throughout the project.

Atlanta, Georgia
Meeting Date: 
Monday, November 12, 2012 - 17:30 to 18:30
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2013 Mosquito Kolymbari meeting, Greece

We are pleased to announce the opening of registrations for the 2013 Mosquito Kolymbari meeting that will take place in Kolymbari, Crete, Greece on July 15-19, 2013. The call will close on March 15. As in previous years, places will be limited, therefore we may not be able to accept all the applications. Applications will be reviewed by the organising committee both on the basis of abstracts and with the aim to ensure broad participation. All the applicants will be informed about the success of their application soon after the deadline.

Please find the link to the webpage and registration: http://events.embo.org/13-mosquito.

Note the following changes compared to previous years:

  • There are 9 thematic sessions. When you register, you will be requested to indicate 2 sessions to which your paper may fit best.
  • Both short talks and posters are accepted.

Also note that there will be a number of travel fellowships and reduced registration fees for scientists from Low/Middle Income and Disease Endemic Countries (DECs) as well as for early stage researchers (e.g. PhD students).

Please propagate this announcement and encourage your colleagues in DECs and the best of your students to apply.

Best wishes,

The organising committee:

George Christophides (main organiser)

Anthony James (main organiser)

John Vontas (main organiser)

Abdoulaye Diabate

Barry Beaty

Alessandra della Torre

Catherine Hill

Didier Fontenille

Humberto Lanz Mendoza

Jake Tu

Tom Scott

Luna Kamau

Pedro de Oliveira

Robert Sinden

Maureen Coetzee

Nora Besansky

Janet Hemingway

Yeya Toure

John Vontas

Kolymbari, Crete, Greece
Meeting Date: 
Monday, July 15, 2013 - 08:00 to Friday, July 19, 2013 - 18:00
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2018 ESA, ESC, and ESBC Joint Annual Meeting (Entomology 2018)

We will be attending the Entomological Society of America (ESA) annual meeting, which this year is in conjunction with the Entomological Society of Canada (ESC) and Entomological Society of British Columbia (ESBC). Click here for details. We will participate with a talk and a VectorBase (independently organized) workshop.

VectorBase Hands-on Workshop

November 10, 2018

Simon Fraser University, downtown campus

Vancouver, British Columbia, Canada




Instructor

Gloria I. Giraldo-Calderón, PhD
VectorBase Scientific Liaison/Outreach Manager

Official language

The official language of the workshop will be English.


About the workshop

VectorBase is a Bioinformatics Resource Center (BRC) focused on invertebrate vectors of human pathogens. This BRC currently hosts sequence data from 40 genomes. VectorBase also provides transcriptomic, proteomic and population biology data from colony and field specimens for an even broader selection of species. The goal of this one-day workshop is to offer the opportunity to scientists working in medical entomology and vector biology, hands-on practical sessions with VectorBase data, tools and resources.

Below you will find a link to apply. If you are accepted to participate, via email you will receive information about the required pre-workshop homework. The assignment may include: short videos (of up to 15 min each) with a few questions to asses your understanding of them; omics background questions; or other activities to asses your understanding of some key points. Your responses are due on Monday, October 29, 2018. The homework is not optional because is meant to provide you with an introduction and foundation to the material to be covered during the workshop, which will facilitate to start the work and discussion on site. During the day of the workshop, we aim to provide opportunities for hands-on activities, discussions and practice exercises, for each of the tools and topics listed in the agenda below.

The outcome of this training relies heavily on your dedication and effort, which includes the time invested before and during the workshop. After the workshop, you are invited to send follow up questions to the instructor, via info@vectorbase.org.


Schedule and Location

November 10, 8:00 am to 5:30 pm.

SFU has two campus in this area, the workshop is in the downtown, within a walking distance from the ESA meeting venue

Harbour Centre

515 West Hastings Street

Vancouver, B.C.

Canada V6B 5K3

Room number: 2250 Westcoast Energy Meeting Room



Agenda

(subject to change)


8:00 am – 5:30 pm


8:00 – 8:30 am: General introduction to omics (lecture)

8:30 – 9:45 am: Overview of VectorBase's remit, data, tools and resources (lecture + demo)

9:45 – 10:15 am: Automatic annotation of genomes at VectorBase: gene set predictions, functional annotation and projecting gene descriptions (lecture)

10:15 – 10:35 am: Coffee Break

10:35 am – 12:00 pm: Search, Genome Browser, BLAST

12:00 - 1:00 pm: Lunch

1:00 - 2:30 pm: Clustal, Hmmer, Comparative genomics, Apollo

2:30 – 2:50 pm: Coffee Break

2:50 – 4:00 pm: Advanced Search, Expression Browser, Genome Browser, BioMart

4:00 – 5:00 pm: Population Biology map

5:00 – 5:30 pm: Wrap up: Group photo, exit questionnaire, workshop certificates


Computer and Internet access

A room with computers will not be provided, please bring your own laptop. You should have the latest Firefox, Google Chrome, Safari or Internet Explorer version installed.


Registration

  • Number of course participants: maximum 20 people
  • Applications may be made via this web form.
  • Application deadline: September 3, 2018
  • Acceptance notification: September 10, 2018
  • Acceptance confirmation: September 17, 2018. If you have been accepted to attend, please reply to your acceptance notification with a short email to info@vectorbase.org. If you do not reply we will assume that you are unable to attend and will award your place to another applicant
  • Who should apply: The ideal candidate should have a need to learn how to use VectorBase and presumably has a research question that involves this database to help to solve it
  • Evaluation of applications will focus heavily on applicants' responses to the questionnaire in the application form

Costs and fees

The registration has no cost to you thanks to the SFU and VectorBase. The registration includes the hand-out materials, coffee breaks and lunch.

Each attendee is expected to provide their other meals (breakfast and dinner), accommodation (hotel or other) and transportation. At your request, we can email to you a letter to facilitate the solicitation of outside travel funds or scholarships.


Hotel Accommodations

If you are accepted to participate and need a hotel, click here for the ESA suggested housing options.


Questions?

Please direct inquiries or comments to info@vectorbase.org


Sponsored and organized by:

Dr. Carl Lowenberger, Biological Sciences, SFU, Burnaby Campus (Click here for info about the Lowenberger lab)

VectorBase, Bioinformatics Resource for Invertebrate Vectors of Human Pathogens. VectorBase have been funded in whole or in part with Federal funds from the National Institute of Allergy and Infectious Diseases and National Institutes of Health, NIAID/NIH

Vancouver, BC, Canada
Meeting Date: 
Saturday, November 10, 2018 - 12:00 to Wednesday, November 14, 2018 - 12:00
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7th Annual Arthropod Genomics Symposium, Notre Dame, IN

  • VectorBase Workshop: June 12-June 13, 2013.
  • AGS: June 13-June 15, 2013.

Follow this link for more details:

7th Annual Arthropod Genomics Symposium (AGS)

VectorBase Hands-on Workshop

McKenna Hall, University of Notre Dame, Notre Dame, IN (Follow this link for a campus map)

Instructors

Gloria I. Giraldo-Calderón (University of Notre Dame)

Andrew Sheehan (University of Notre Dame)

Dan Lawson (European Molecular Biology Laboratory, EMBL - European Bioinformatics Institute, EBI)

Scott Emrich (University of Notre Dame)

Bob MacCallum (Imperial College London)

Robert M. Waterhouse (University of Geneva Medical School - Massachusetts Institute of Technology, MIT)

About the VectorBase Hands-on Workshop

The goal of the workshop is to present a brief overview of the (NEW) VectorBase website and offer a training and data analysis opportunity to users. This two-day event will comprise a mixture of lectures and hands-on practical sessions where users can discuss their own data sets/problems with the instructors and fellow attendees. The instructors will be vector bioinformaticians and biologists.

Computer and Internet Access

The training room will not provide computers for participants. You are encouraged to bring your own laptop to use. Arrive early in order to get access to the Internet.

Registration

Seating is limited to 30 people. Please register early to ensure a seat. To register please follow this link . After you register please contact Gloria Giraldo-Calderon at ggiraldo@nd.edu and include the following in your email: your 1) research interest detailing your aims, hypotheses, research questions, gene or genes of interest; 2) data type you work with or would like to work with, e.g. RNA-seq, re-sequencing, SNP calls, insecticide resistance data; 3) data status, e.g. raw, processed or ready for submission and; 4) up to three specific questions about VectorBase that would help you with your research (300 words maximum).

Agenda

Wednesday, June 12, 2013, 1:00 – 5:00 pm

11:00 am – 1:00 pm: Poster Set-up

1:00 – 1:30 pm: VectorBase (NEW) website navigation

1:30 – 3:00 pm: Finding, visualizing and exporting data (tutorial and exercises)

  • Available data types: VectorBase data and external data sets
  • Search
  • BioMart

3:00 – 3:30 pm: Break

3:30 – 5:00 pm: Poster session (5 or 10 min presentation from each participant/lab/group)

5:00 pm – 5:30 pm: Remove posters

Thursday, June 13, 2013, 8:30 am – 5:00 pm

8:30 am – 10:00 am: Finding, visualizing and uploading data (tutorial and exercises)

  • Browsing genomes: visualizing and adding tracks
  • Ontology Browser
  • Insecticide resistance database
  • Population biology browser (beta)

10:00 – 10:30 pm : Break

10:30 – 12:00 pm: How to contribute to VectorBase and get community visibility for your research work?

  • Curate and submit genes
  • Link genes to publications
  • Add (submit) transcript or protein data

12:00 - 1:00 pm: Lunch

1:00 - 2:00 pm: Invited speaker: Dr. William Gelbart (FlyBase & Harvard University), Mining FlyBase for Gene Function.

2:00 – 3:00 pm: Annotation of vector genomes at VectorBase (tutorial)

3:00 - 3:30 pm: Break

3:30 - 5:00 pm: Be a VectorBase “power user”

  • Using HMMER versus BLAST to find homologs
  • How to make the best use of your data, VectorBase data, tools and resources to analyze and publish your research?
  • Hands on session with attendees’ datasets.
  • Opportunity to interact with other VectorBase bioinformaticians and biologists using VectorBase contact us form or sending us an email directly to info@vectorbase.org.

NOTE:

You are strongly encouraged to bring your own data for all the sessions to make the best out of the hands-on sessions of each of the workshop topics.

University of Notre Dame, Notre Dame, IN
Meeting Date: 
Wednesday, June 12, 2013 - 17:00 to Saturday, June 15, 2013 - 21:30
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82nd American Mosquito Control Association (AMCA) annual meeting, Savannah, GA

Dear VectorBasers,

We will have a poster during the 82nd American Mosquito Control Association (AMCA) annual meeting, in Savannah, GA. Save the date, February 7 - 11, 2016.

For more details about the meeting please follow this link: http://www.mosquito.org/annual-meeting

Hope to see you all there,
The VectorBase team

Savannah, GA
Meeting Date: 
Sunday, February 7, 2016 - 13:30 to Thursday, February 11, 2016 - 22:30
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89th Annual Fall Meeting 2017 - Florida Mosquito Control Association Meeting

Duck Key, FL
Meeting Date: 
Sunday, November 12, 2017 - 12:00 to Wednesday, November 15, 2017 - 23:00
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8th Annual Arthropod Genomics Symposium, Urbana, IL

Are you attending AGS? We will be there from June 11 to 14, Wednesday to Saturday.

You can send us an email to info@vectorbase.org and schedule an appointment to discuss a specific question about VectorBase or a topic related with your project. Your feedback and suggestions are also welcome. Or just stop by our poster to say hi!

8th Annual Arthropod Genomics Symposium, AGS
University of Illinois at Urbana-Champaign
Urbana, IL 61801

For more information about AGS follow this link: http://conferences.igb.illinois.edu/arthropod/welcome

Urbana, IL
Meeting Date: 
Wednesday, June 11, 2014 - 18:00 to Saturday, June 14, 2014 - 21:00
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