Skip to content

Commit

Permalink
Merge pull request #2 from CrickDataChallenge/feat-dc2023
Browse files Browse the repository at this point in the history 
website 2023 updates
  • Loading branch information
@martlj
martlj authored Jun 23, 2023
2 parents 9a75499 + 299d827 commit 58eeeef
Showing 1 changed file with 52 additions and 21 deletions.
73 changes: 52 additions & 21 deletions index.md
View file
Original file line number Diff line number Diff line change
@@ -1,34 +1,47 @@
## Our next event will be happening in Autumn 2023, check back here for updates!
[Get in touch](mailto:challenge-data@crick.ac.uk) if you would like to ask any questions about the event or would like to discuss ideas for projects.
## Our next event is 11-13th October 2023

Crick Data Challenge #6 will take place on 11-13th October 2023, in person at the Francis Crick Institute, London.

## Our last event was 12-14th October 2022
[Get in touch](mailto:challenge-data@crick.ac.uk) if you would like to ask any questions about the event or would like to discuss ideas for projects.

Crick Data Challenge #5 took place on 12-14th October 2022, in person at the Francis Crick Institute.
- Registration for Crick scientists is [available on the Crick intranet](https://intranet.crick.ac.uk/webform/crick-data-challenge-sign-form-2023) (Crick IT account required). External participants can register their interest to participate at [this link](https://forms.office.com/r/CHFWM2FB1q).

<!--- Registration for Crick scientists is [available on the Crick intranet](https://intranet.crick.ac.uk/webform/crick-data-challenge-2022) (Crick IT account required). External participants can register their interest to participate at [this link](https://forms.office.com/r/CHFWM2FB1q).) --->

#### How does it work?

#### How does this all work?
1. Crick scientists submit their projects to the data challenge.
2. The organising committee selects up to 5 hackathon-ready projects.
3. Data scientists (internal and external) sign up to the event. They're given a clue about the theme of each project, but no spoilers.
4. On day 1, project leaders introduce their problem and take questions from participants, after which participants form teams.
5. Teams go to their private space to collaborate and hack away! Every day ends with a social activity.
6. On day 3, each group gives a short wrap-up presentation on their approach to solving the problem and what they learned.

In the run up to the event in October, Crick scientists were encouraged to submit projects to us, and five projects were selected from a range of different Crick research groups.
<!-- In the run up to the event in October, Crick scientists are encouraged to submit projects to us, and five projects are selected from a range of different Crick research groups. -->

Examples of previous projects include:
* Creation of a program with a user interface to design antisense oligonucleotides.
* Integration of huge amounts of cancer RNA-Seq data in order to identify genes that could be therapeutic targets.
* Design of a method to categorise and classify spherical cell images from a magnetic tweezer microscope system.
* Investigation of Drosophila fruit preferences using chemical, behavioural and electrophysiological data sets.
* Implementation of a streamlined pipeline for analysing highly complex, multi-dimensional imaging data.

Work from previous data challenges has been published, for example
* [Characterisation of tumour microenvironment remodelling following oncogene inhibition in preclinical studies with imaging mass cytometry](https://www.nature.com/articles/s41467-021-26214-x) from Febe van Maldegem and Karishma Valand's project in the first Data Challenge.
* [Antiretroviral Treatment-Induced Decrease in Immune Activation Contributes to Reduced Susceptibility to Tuberculosis in HIV-1/Mtb Co-infected Persons](https://www.frontiersin.org/articles/10.3389/fimmu.2021.645446/full) from Katalin Wilkinson's project in the second Data Challenge.
* [OxoScan-MS: Oxonium ion scanning mass spectrometry facilitates plasma glycoproteomics in large scale](https://www.biorxiv.org/content/10.1101/2022.06.01.494393v1) from Matthew White and Christoph Messner's project in the third Data Challenge.
* Integration of multiomic datasets to identify biomarkers for non-invasive, early detection of cancer.
* Creation of a program with a user interface to design antisense oligonucleotides.
* Integration of huge amounts of cancer RNA-Seq data to identify genes that could be therapeutic targets.
* Design of a method to categorise and classify spherical cell images from a magnetic tweezer microscope system.
* Investigation of Drosophila fruit preferences using chemical, behavioural and electrophysiological data sets.
* Implementation of a streamlined pipeline for analysing highly complex, multi-dimensional imaging data.


Crick Data Challenge projects have contributed to scientific papers:

Van Maldegem, Febe, et al., (2021). Characterisation of tumour microenvironment remodelling following oncogene inhibition in preclinical studies with imaging mass cytometry. [Nature Communications](https://www.nature.com/articles/s41467-021-26214-x) (Crick Data Challenge #1)
Wilkinson, K. A., et al., (2021). Antiretroviral Treatment-Induced Decrease in Immune Activation Contributes to Reduced Susceptibility to Tuberculosis in HIV-1/Mtb Co-infected Persons. [Frontiers in Immunology](https://www.frontiersin.org/articles/10.3389/fimmu.2021.645446/full) (Crick Data Challenge #2)
White, M.E., et al., (2022). OxoScan-MS: Oxonium ion scanning mass spectrometry facilitates plasma glycoproteomics in large scale. [Nature Biomedical Engineering]((https://www.biorxiv.org/content/10.1101/2022.06.01.494393v1)) (Crick Data Challenge #3)

Many more projects have seeded ongoing collaborations and we expect to see more publications in the future!

Broad overviews of each project will be shared with registered participants shortly before the event. At the beginning of the event on Wednesday October 12th, project leads will pitch their projects to the participants. Participants will then have a chance to discuss with all the project leaders to help choose which team they want to join. That afternoon, participants will form teams and work until Friday on the project. On Friday afternoon, each group will present a short overview about what they have achieved/learned!
[![Crick Data Cahallenge](https://img.youtube.com/vi/VzwoGWMCY-U/maxresdefault.jpg)](https://www.youtube.com/watch?v=VzwoGWMCY-U)

<!-- <iframe width="560" height="315" src="https://www.youtube.com/embed/VzwoGWMCY-U" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" allowfullscreen></iframe> -->


For more information about how the event works, please check out our introductory slides from [Data Challenge #2](https://docs.google.com/presentation/d/1Ey5_b0nZZoQQO_7Mdljbz7ckRt1TbFOYxzhY6hWwFMc/edit?usp=sharing).
<!-- For more information about how the event works, please check out our introductory slides from [Data Challenge #2](https://docs.google.com/presentation/d/1Ey5_b0nZZoQQO_7Mdljbz7ckRt1TbFOYxzhY6hWwFMc/edit?usp=sharing). -->

If you have any questions at all, please email [challenge-data@crick.ac.uk](mailto:challenge-data@crick.ac.uk) and we will get back to you.

Expand All @@ -40,15 +53,33 @@ All attendees at our events must adhere to our [code of conduct](code-of-conduct

### Thoughts from previous participants...


**_Lucia Prieto-Godino, Group leader_**

>“The Crick Data Challenge is a great initiative; as soon as I heard about it I decided to join and encouraged my students to do so. We are lucky to work in such a multidisciplinary environment at the crick. Each discipline has classical ways to analyse data and we often do not go beyond these. However, by looking at our data from a different perspective we might gain novel biological insights.”
**_Febe van Maldegem, Downward lab_**

>"I can’t thank my team enough for all the effort they put into working on our project. It’s unbelievable how much we achieved in just two days. Now we can start focusing on the results, rather than the data processing.”
>“I can’t thank my team enough for all the effort they put into working on our project. It’s unbelievable how much we achieved in just two days. Now we can start focusing on the results, rather than the data processing.”
---
**_Ana Solaguren-Beascoa, Benevolent AI_**

>“Collaborating with people from the Crick was a great experience – I was so impressed by the quality of all the projects. As someone with no-biomed education, I even had a difficult time deciding which project I actually wanted to help with! I was surprised by the amount of input people from industry could contribute. For the first time since I left academia, I had the total feeling I could contribute to scientific projects outside of my expertise area, by using the technical skills I've learned in industry. I would definitely take part again!”
**_Omar El Oakley, Beale Lab - Crick Data Challenge 2021_**

>“An excellent experience! Everyone in the team was incredibly engaged and had so many creative ideas and questions - the analysis that we put together ended up giving me a whole set of new directions to pursue my research.”
**_Elé​onore Schneegans, Imperial College London - Crick Data Challenge 2022_**

>“I thought [the Data Challenge] was going to be a perfect opportunity to apply the skills that I work with on a day to day basis to another challenge. [Sofia] pitched her project first, and immediately I figured out that it was going to be useful for me to work on this data integration. I hope we'll keep this collaboration going!”
**_Christoph Messner & Matt White, Ralser Lab_**

>“For us, it was great to see how team members approached our problem from different angles and brought up ideas that we would have never thought of. It really is remarkable how much our team achieved within 2 days! The data challenge showed us the great collaborative atmosphere we have within the Crick, especially as we continue to work with our team beyond the challenge. Beside all of the scientific achievements, we had a great time and lot of fun, even though we only met most of the team members virtually.”
**_Laabiah Wasim, Tolar lab_**

>“As a wet-lab biologist, the Crick Data Challenge provided a unique opportunity to investigate an explorative question I had, but didn’t have the bioinformatics/machine-learning skills to answer. I got to work with such brilliant individuals and going back and forth with the idea as a team accelerated its development into a project we’re hoping to continue working on. It all depends on assembling the right team of individuals, which the Crick Data Challenge provided the perfect place for!”
---

0 comments on commit 58eeeef

Please sign in to comment.