Blockveranstaltung: Single-cell RNA-seq Analysis Using Python - Details

Blockveranstaltung: Single-cell RNA-seq Analysis Using Python - Details

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General information

Course name Blockveranstaltung: Single-cell RNA-seq Analysis Using Python
Subtitle
Course number 340000
Semester SoSe 2024
Current number of participants 13
maximum number of participants 12
notwendige Teilnehmeranzahl 2
Home institute Georg-August University School of Science (GAUSS) (für Mathematik und Naturwissenschaften)
participating institutes Göttinger Graduiertenzentrum für Neurowissenschaften, Biophysik und molekulare Biowissenschaften (GGNB)
Courses type Blockveranstaltung in category Teaching
First date Tuesday, 11.06.2024 09:00 - 17:00
Type/Form
Miscellanea The course will take place online via Zoom.

Rooms and times

No room preference
Tuesday, 11.06.2024 09:00 - 17:00
Wednesday, 12.06.2024 09:00 - 17:00
Thursday, 13.06.2024 09:00 - 17:00
Friday, 14.06.2024 09:00 - 17:00

Fields of study

Comment/Description

While transcriptional analysis by scRNA-seq continues to revolutionize the biological sciences, the demand for corresponding computational and statistical skills are becoming an essential skill for biologists. This course is designed for biologists with a basic skills of programming to confidently conduct the course and scRNA-seq data analysis. With a variety of scRNA-seq methodologies at our disposal, the challenge lies in using appropriate tools in the right way to draw meaningful biological conclusions. This course aims to provide an introduction to this complex landscape. In practical exercises with a real data set, you'll learn how to use computational methods and make sense of your results. Each day will start with lectures in the morning, followed by guided practical programming sessions in the afternoon to facilitate an experiential learning environment.

Day 1: Introduction to Single-cell RNA-Sequencing: including experimental design and processing raw reads to derive gene count matrices. The afternoon session will involve applied training on publicly accessible datasets and an orientation to the scverse ecosystem.

Day 2: Data Processing and Analysis: Instruction will cover quality control measures, data normalization, feature selection, batch correction and data integration, as well as methodologies for dimensionality reduction and clustering.

Day 3: Biological Data Interpretation incorporating both manual and automated cell type annotation, reference mapping, as well as differential gene expression and gene set enrichment analyses.

Day 4: Cellular Dynamics and Differentiation The session will encompass discussions on pseudotime analysis and RNA velocity, culminating in the capacity to trace and characterize cell lineage specification.

This structured, intensive course is designed to equip participants with the necessary skills to navigate and analyze single-cell RNA-sequencing data within a biological context. It is recommended that the participants have/acquire basic skills in Python.

Here is the link to an online tutorial on introduction to programming in Python: < http://swcarpentry.github.io/python-novice-gapminder/ >
Important:

Once participation has become binding after the signing-out period, cancellation is only possible via the GGNB or GAUSS Office with a) sick certificate, or b) statement by supervisor for scientific reasons. If you do not provide this, you will be excluded from courses for the next 12 months, as well as travel grants and other financial support. No exceptions.

By signing up you agree (1) to carefully check whether you will be able to attend the course (do not register for 2 courses taking place on the same dates - the above mentioned sanctions apply!), (2) to frequently check your student e-mail account, as all information on courses will exclusively be sent to that account; (3) that your name and e-mail address may be forwarded to the course instructor(s) for communication before and after the course; (4) to complete the course evaluation; (5) inform us if you no longer wish to maintain a waiting list position; (6) that you only receive credits for attending the entire workshop - you will not get partial credits for part-time attendance.

Admission settings

The course is part of admission "GGNB_Methods_2024_SoSe_April_Juni".
You can register and sign out for methods courses in June 2024 from 1-20 April 2024. The slots will be assigned around 25 April 2024.
In exceptional circumstances, you can still sign out until 30 April 2024.
Your participation becomes binding on 2 May 2024. Thereafter, cancellation is only possible via the GGNB Office with a) sick certificate, or b) statement by supervisor (for scientific reasons). If you do not provide this, you will be excluded from courses for the next 12 months, as well as travel grants and other financial support.

By signing up you agree (1) to carefully check whether you will be able to attend the course (do not register for 2 courses taking place on the same dates – the above mentioned sanctions apply!), (2) to frequently check your student e-mail account, as all information on courses will exclusively be sent to that account; (3) that your name and e-mail address may be forwarded to the course instructor(s) for communication before and after the course; (4) to complete the course evaluation.
The following rules apply for the admission:
  • At least one of these conditions must be fulfilled for enrolment:
    • Subject is Computer Science -PCS-
    • Subject is Molekulare Biologie
    • Subject is PhysicsBiologComplexSyste
    • Subject is Systems Neuroscience
    • Subject is Materialforschung Holz
    • Subject is MolecularBiology of Cells
    • Subject is Geographie
    • Subject is Environmental Informatics
    • Subject is Behavior and Cognition
    • Subject is Theoret Computat Neurosci
    • Subject is Neurowissenschaften
    • Subject is IRTG 2172 - PRoTECT
    • Subject is Psychologie
    • Subject is Molekulare Medizin
    • Subject is Umweltinformatik
    • Subject is Emerging Infect. Diseases
    • Subject is Genome Science
    • Subject is Environmental Informatics
    • Subject is Geoscience
    • Subject is Biologie
    • Subject is Genes in Development, Disease and Evolution
    • Subject is Biologische Diversität und Ökologie
    • Subject is Physik
    • Subject is Microbiology-Biochemistry
    • Subject is Mathematical Sciences
    • Subject is Geography
    • Subject is Chemie
    • Subject is BioNutz-MolwissBiotechnol
    • Subject is Biomol:Struc-Func-Dynamic
    • Subject is Cardiovascular Science
    • Subject is Catalysis Sust.Synt.CaSuS
    • Subject is SensoryMotor Neuroscience
    • Subject is MolecularPhysi oftheBrain
    • Subject is MetalSites i.Biomolecules
  • At least one of these conditions must be fulfilled for enrolment:
    • Degree is PromProgramm Cotutelle
    • Degree is PromStudiengang Cotutelle
    • Degree is Promotionsprogramm
    • Degree is Promotionsstudiengang
    • Degree is Promotion m.Abschlussprfg
    • Degree is Promotion Cotutelle
  • The enrolment is possible from 01.04.2024, 00:00 to 20.04.2024, 23:59.
  • A defined number of seats will be assigned to these courses.
    The seats in the affected courses have been assigned at 25.04.2024 on 23:59. Additional seats may be available via a wait list.
  • Enrolment is allowed for up to 2 courses of the admission set.
Assignment of courses:

Registration mode

The enrolment is binding, participants cannot unsubscribe themselves.