VectorBase 2018 webinar series: Species/group specific

If you want to learn more about VectorBase data and tools, or to know when and which resources are available with an emphasis to a species or group, this VectorBase webinar series is for you. Each session will be accompanied by practice exercises and their corresponding answer key. The topics to be discussed will include:

  • Why for some species, e.g., Aedes aegypti, Ae. albopictus, Anopheles coluzzii, An. gambiae, An. sinensis and An. stephensi, there is more than one genome strain sequenced?
    • why not all have an assembly or a gene set?
    • where to investigate the characteristics of each one of these genomes?
    • how can you choose the best one for your research question?
    • what are the implications for your research of having these multiple genomes?
  • For each genome with a gene set there is comparative genomics pre-computed analyses, with protein and DNA data. Learn how to query and use these data sets.
  • In cases with more than one genome species sequenced per genus, i.e., Anopheles (19 species), Aedes (2) and Glossina (6), what type of studies are possible to do?
  • For all species with a genome, there are in silico transcriptomes and proteomes, but were you aware that for some species there is also in vivo data? Find and use these different data types
  • In some cases, e.g., G. austeni, G. brevipalpis, G. fuscipes, G. pallidipes, G. palpalis, Stomoxys calcitrans, Lutzomyia longipalpis and Phlebotomus papatasi , the genome data and other omic data types are deposited in VectorBase, but the genome paper has not been published. Can you use the data of any of these genomes for your research? What you can and cannot do with the data until its genome papers are published?
  • If you are part of a genome sequencing consortium and/or part of the authors generating the data for the genome paper, what do you need to do to make sure you data analyses are in VectorBase before publication? e.g., how can you obtain gene IDs for your newly discovered genes?
  • Other available data type for each species with a gene set, population biology
  • How data that is in the public repositories or databases archives, published or unpublished, can be submitted to VectorBase?
  • A specific 'how to cite' section, with details directly related to each species and its available data types. This will help you reference data sets in your paper for readers' easy access and understand how to find data mentioned in the scientific literature.

Prior to attending the webinar of your interest, we encourage you to attend VectorBase webinar series: Tool/resource specific, as you will have a complete and comprehensive overview of VectorBase. These (seven) webinars are 1 hour sessions scheduled from March 14 to July 18, 2018. The VectorBase species/group specific webinar series will be held every two weeks from August 1st to November 7th, 2018. The webinars will take place on Wednesdays at 1 pm Eastern/10 am Pacific (United States time), for 1 hour each. You can click here for a link to the webinar start time in your timezone. This is the schedule and brief overview of each species data sets, also to be covered during each webinar:

  1. Aedes & Culex, August 1, 2018. There are eight Aedes aegypti genome strains in VectorBase. The most recent of these genomes has a preprint article and genome available since December 2017, in VectorBase and bioRxiv respectively. There are also genomes for Ae. albopictus and Culex quinquefasciatus, the first one of which has sequence data for three strains and a transcriptome. Do VectorBase host Ae. aegypti and Cx. quinquefasciatus Hi-C genome assemblies too? Microarray and RNAseq data and, transcripts for differential expression experiments are also available for Ae. aegypti, Ae. albopictus and Cx. quinquefasciatus. Population Biology data includes these and other culicines. Variation data (SNP and INDEL calls) are only available for Ae. aegypti.

  2. Anopheles, August 15, 2018. We host 21 Anopheles genomes, representing 19 major, minor and non-vector species. Four of these species, An. coluzzii, An. gambiae, An. sinensis and An. stephensi, have more than one strain sequenced. Microarrays and RNAseq transcripts and differential expression experiments, are also available for most of these 19 Anopheles species. There is transcriptome data for seven of the 19 genome species and, also for three new additional species. Seven proteomes are available for An. gambiae. Population biology data include these and other anophelines. Variation data (SNP and INDEL calls) are available for 13 species.

  3. Biomphalaria, August 29, 2018. There is one assembly and gene set for Biomphalaria glabrata. RNAseq data is available as tracks in the genome browser.

  4. Rhodnius & Cimex, September 12, 2018. We host two members from the Hemiptera order, Rhodnius prolixus and Cimex lectularius. The former species, in addition to its own in vivo transcriptome, has seven in vivo transcriptomes from three Triatoma species. The expression data includes RNAseq available as genome browser tracks. There is data for one PopBio study too. For the latter species, transcript data includes RNAseq and also an experiment showing genes under differential expression.

  5. Glossina, Musca & Stomoxys, September 26, 2018. There is one strain sequenced for each one of the six Glossina species available. Four species, G. austeni, G. breviplapis, G. pallidipes and G. morsitans, have RNAseq transcript data available as tracks in the genome browser; this last species also has two experiments showing transcripts under differential expression. Musca domestica has a transcriptome, RNAseq data and an experiment showing transcripts under differential expression. Stomoxys calcitrans, has a transcriptome and RNAseq data.

  6. Lutzomyia & Phlebotomus, October 10, 2018. These two sandflies, Lutzomyia longipalpis and Phlebotomus papatasi, each have one genome strain sequenced and RNAseq data.

  7. Ixodes & Sarcoptes, October 24, 2018. In this session, we will group together two Acari members, the tick Ixodes scapularis and the mite Sarcoptes scabiei var. canis. The former species transcript data includes RNAseq, an experiment showing genes under differential expression, a transcriptome and a proteome. Ixodes scalularis, in addition to its own in vivo transcriptome, has four in vivo transcriptomes from Ix. ricinus. This species also has a PopBio and variation (SNP and INDEL calls) data. The latter species, has RNAseq data.

  8. Pediculus, November 7, 2018. There is one assembly and gene set for Pediculus humanus.

To have a fully interactive format, you will have the opportunity to ask questions in real-time to the webinar presenter and other members of the team. Additionally, we welcome any questions from you, before, during or after the webinar session to our helpdesk email,

Sing up

Sign up is required but attendance is free. Registration ends 48 hours before each webinar session, moment at which registered participants will receive an email with connection details. Follow this link to sign up (or here if you are in China).

Who should attend?

In each webinar, attendance from both new and current users is encouraged. If your knowledge and experience with VectorBase go beyond what we will cover in the species webinar(s) that you are interested in, please contact the help desk, A senior member of our team will get back to you, and depending on each case, we may be able to schedule a private webinar.

Meeting Date: 
Wednesday, August 1, 2018 - 11:00 to Wednesday, November 7, 2018 - 12:00