Autor: Mateusz Kostecki

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We are happy to announce our soft skill workshop!

Organizing scientific events – workshops, summer schools, conferences, symposia – seems like a complex and overwhelming endeavor. You need to design the structure of your event, secure funding, invite guests, promote it, proceed payments and contact participants; you need to take care of catering, flights, hotels, and dates.

It is a lot, but with a proper approach, some knowledge – and people around you – you can organize a successful event even with limited resources.

During our workshop you will learn how:

• design your event, select its target and set goals
• secure funding: find sponsors, write grant applications
• promote your event on social media and mailing groups
• how to approach graphic design
• how to contact guests and prepare invitations
• how to proceed funding: event fees, grants, sponsors money
• how to ensure good atmosphere
• what to do afterwards

And much more!

The event will take place on Thursday, Nov 30th at Nencki Institute, 11 AM – 1 PM. The cost of the workshop is PLN 50. Please find the application form here: https://forms.gle/fNVBiZLibyzLde6J7

Arduino is an easy-to-learn and easy-to-use microcontroller platform that gives almost infinite possibilities. It allows you to make devices that can improve and automatize your research or hobbyist projectsn such as: temperature, light, humidity sensors that save the data on your computer or on a SD card, automated behavioral setups, lickometers, robots, drones and much more!

During the workshop, you will learn basics of Arduino; you will work with different types of sensors, diodes, motors, and other elements. The workshop will give you the knowledge and skills necessary to make useful lab devices by yourself. No previous knowledge of electronics or programming is required!

The workshop will take place 10:30AM – 4:30 AM in A room at Nencki Institute. Please find the application form here. The deadline for applications is March 6thth. The cost of the workshop is PLN 30.

We are happy to announce the second edition of our Python course!

The course will provide you with a computer hardware overview and the basics of Python programming. You will use open source tools for data analysis and visualization with packages such as NumPy, Pandas and Matplotlib (and don’t worry if these words don’t mean anything to you, we will start with the basics); the course will improve your programming and analytical skills. Towards the end of the course, you will have the opportunity to implement these skills on a group project.

The course is meant to be general, but if you have any specific questions concerning the use of Python in your everyday research practice, we will be happy to answer them!  

Prerequisites for this course are strong motivation, capacity to participate in all classes and a laptop.

Contact: openlab@nencki.edu.p

The workshop will take place 9:30 AM – 11:30 AM on Mondays, starting November 14th, until the half of February. Please find the registration form here. We wait for applications until Oct 29th.  The room will accommodate up to 10 participants. The fee is 500 PLN. If you are not eligible for any funding, just let us know, we can provide you with a discount!

Instructors:

Urszula Włodkowska (Laboratory of Spatial Memory)

Ilke Guntan (Laboratory of Epileptogenesis

Konrad Danielewski (Laboratory of Emotions Neurobiology)

Mateusz Kostecki (Laboratory of Emotions Neurobiology)

Justyna Wiśniewska (Laboratory of Neuronal Plasticity)

We would like to invite you to our next workshop! This time we will cover basics of quantitative mass spec with two instructors from Mass Spectrometry Laboratory, Institute of Biochemistry and Biophysics Polish Academy of Sciences, Bianka Świderska and Agata Malinowska. The plan for the workshop includes:

1. (1 hour) Proteomics methods and sample preparation (Bianka Świderska)

• overview of qualitative and quantitative proteomic methods
• novel possibilities available with Orbitrap Exploris 480 platform
• sample preparation methods for MS analysis
• most common contaminants
• Q&A
  break 15 min

1. (1 hour) Data analysis (Agata Malinowska)

• quantitative estimates in MS (semi-quantification, relative and absolute
  quantification)
• label-free quantification
• isotope labeling (MS/MS-based quantification)
• data-independent analysis
• targeted analysis
• quantification of post-translational modifications
• visualization
• Q&A

The workshop will take place on April 25th, 10AM – 12:30 PM. Please find the form HERE.

We are happy to announce the third edition of our ImageJ workshop!

ImageJ is an open source image processing software designed for scientific image analysis. Its most often used distribution is called Fiji. This software has a lot of built-in functions and plugins. ImageJ has its own programming language based on Java. As scientists, we often want to perform image analysis on large datasets (detecting hundreds of particles on hundreds of images). If you don’t want to click the dots for all eternity, writing a macro is the perfect solution.

During this workshop you will learn how to automate some of your analyses by writing simple macros in ImageJ. Prerequisites for this workshop are basic skills in any programming language as well as basic knowledge of what ImageJ can do.

Workshop will take place March 18th, 9AM – 3 PM. Please find the application form HERE. We wait for applications until March 18 th. The cost of the workshop is 60 PLN.

Please install Fiji before workshop (https://fiji.sc/).

Kacper Łukasiewicz PhD, is a postdoctoral scholar in the Zuo Laboratory, MCD Biology, University of California, Santa Cruz. During his PhD in the Laboratory of Molecular Basis of Behavior in Nencki Institute he worked on alcohol-induced memory impairment and analyzed hundreds of images from immunostainings (and saved hundreds of hours using ImageJ macros for this).

Due to popular demand we’re doing a second workshop on
DeepLabCut!

This pose estimation framework developed in Mackenzie Mathis Lab is used to track arbitrarily selected body parts of an animal from your video data, thus giving you an opportunity to extract much richer information about animal’s behaviour in your paradigm. Aim of this workshop will be to learn how to use DeepLabCut in multianimal pose estimation – you will be able to analyze behavioral data from social interaction between animals.

We will be creating a project either on provided or own data and will
go through the whole workflow, closely examining the most
imgo through the whole workflow, closely examining the most important steps, trying to overcome the most common new user hurdles as well as built upon our knowledge from previous DLC workshops.

To take part in our workshop, all you’ll need is a laptop (Windows, Linux, MacOS are all fine). All instructions on how to install necessary software will be provided before the workshop and participants are expected to have everything installed on the day of the workshop – contact k.danielewski@nencki.edu.pl in case of any issues.

Participants without previous experience with DLC are most
welcome! Please find the application form HERE; the cost of the workshop is 30 PLN. The workshop will be organized in a stationary manner, unless COVID situation will make us unable to do so.

Arduino is an easy-to-learn and easy-to-use microcontroller platform that gives almost infinite possibilities. It allows you to make devices that can improve and automatize your research or hobbyist projectsn such as: temperature, light, humidity sensors that save the data on your computer or on a SD card, automated behavioral setups, lickometers, robots, drones and much more!

During the workshop, you will learn basics of Arduino; you will work with different types of sensors, diodes, motors, and other elements. The workshop will give you the knowledge and skills necessary to make useful lab devices by yourself. No previous knowledge of electronics or programming is required!

The workshop will take place 10:30AM – 4:30 AM in A room at Nencki Institute. Please find the application form here. The deadline for applications is March 6thth.

The course will provide you with a computer hardware overview and the basics of Python programming. You will use open source tools for data analysis and visualization with packages such as NumPy, Pandas and Matplotlib (and don’t worry if these words don’t mean anything to you, we will start with the basics); the course will improve your programming and analytical skills. Towards the end of the course, you will have the opportunity to implement these skills on a group project.

The course is meant to be general, but if you have any specific questions concerning the use of Python in your everyday research practice, we will be happy to answer them!  

Prerequisites for this course are strong motivation, capacity to participate in all classes and a laptop. People who attend more than 80 % of the course will be eligible for 2 ECTS credits

Contact: nenckiopenlab@gmail.com

The workshop will take place 10AM – 12PM on Mondays, starting Oct 18th, until late January. Please find the registration form here. We wait for applications until Oct 12th.  The room will accommodate up to 12 participants. The fee is 750 PLN. If you are not eligible for any funding, just let us know, we can provide you with a discount!

Instructors:

Andrew Want (Laboratory of Preclinical Testing of Higher Standard)

Łucja Doradzińska (Laboratory of Brain Imaging)

Urszula Włodkowska (Laboratory of Spatial Memory)

Aleksander Zębrowski (Laboratory of Brain Imaging)

Natalia Rutkowska (Laboratory of Brain Imaging)

Ilke Guntan (Laboratory of Epileptogenesis)

Katarzyna Skowrońska (University of Warsaw)

Mateusz Kostecki (Laboratory of Emotions Neurobiology)