CZI BioHub sequencing effort for the FCA

The FCA is planning a collaborative effort to perform single-cell RNA-seq and single-nucleus RNA-seq on a large number of Drosophila tissues, supported by the CZI Biohub. On 29th of August, we will have an organisational FCA meeting from 8-11am (Pacific time) hosted at the Biohub. In addition to new data that will be generated for ~250,000 cells, we envision a data integration effort to integrate existing and future data into the FCA, to map data sets from various labs onto this "backbone", and to import FCA data into the HCA. To get an overview of existing data and ongoing efforts, and to estimate the required depth of coverage for each tissue, we kindly call for participation in this questionnaire.

Meetings

Follow us on Twitter to stay up-to-date on upcoming meetings.

  • Fly Cell Atlas workshop 2019

    Sep. 2019 EDRC meeting

    FCA is organizing a workshop on Single cell approaches in Drosophila research at the EDRC in Lausanne, on Thursday, September 5th.

  • Biohub meeting 2019

    Aug. 2019 Biohub meeting

    CZI Biohub meeting 2019 organised by Liqun Luo to discuss collaboritive data generation. The meeting will take place on Thursday, August 29th (8-11am (Pacific time)).

  • Fly Cell Atlas 2019

    Mar. 2019 FCA meeting

    The second Fly Cell Atlas meeting was held at Janelia Farm, March 24-26 2019.

    Download Fly Cell Atlas meeting 2019 progam.

  • Fly Cell Atlas 2017

    Dec. 2017 FCA meeting

    The first Fly Cell Atlas meeting was held at the Gasthuisberg campus of the University of Leuven (Belgium) on December 8th 2017.

    Download Fly Cell Atlas meeting 2017 progam.

Tissues

Embryo

Embryo

Publications:

  • The Drosophila embryo at single-cell transcriptome resolution. Karaiskos N, Wahle P, Alles J, Boltengagen A, Ayoub S, Kipar C, Kock C, Rajewsky N, Zinzen RP. Science 2017.

Adult brain

Adult brain

Publications:

  • STRIPAK Members Orchestrate Hippo and Insulin Receptor Signaling to Promote Neural Stem Cell Reactivation. Gil-Ranedo J, Gonzaga E, Jaworek KJ, Berger C, Bossing T, Barros CS. Cell Reports 2019.
  • A Single-Cell Transcriptome Atlas of the Aging Drosophila Brain.. Davie K, Janssens J, Koldere D, De Waegeneer M, Pech U, Kreft Ł, Aibar S, Makhzami S, Christiaens V, Bravo González-Blas C, Poovathingal S, Hulselmans G, Spanier KI, Moerman T, Vanspauwen B, Geurs S, Voet T, Lammertyn J, Thienpont B, Liu S, Konstantinides N, Fiers M, Verstreken P, Aerts S. Cell 2018.
  • Phenotypic Convergence: Distinct Transcription Factors Regulate Common Terminal Features. Konstantinides N, Kapuralin K, Fadil C, Barboza L, Satija R, Desplan C. Cell 2018.
  • Cellular diversity in the Drosophila midbrain revealed by single-cell transcriptomics. Croset V, Treiber CD, Waddell S. eLife 2018.
  • Classifying Drosophila Olfactory Projection Neuron Subtypes by Single-Cell RNA Sequencing. Li H, Horns F, Wu B, Xie Q, Li J, LI T, Luginbuhl DJ, Quake SR, Luo L. Cell 2017.

Gut

Gut

Publications:

  • A cell atlas of the adult Drosophila midgut. Hung RJ, Hu Y, Kirchner R, Li F, Xu C, Comjean A, Tattikota SG, Song WR, Sui SH, Perrimon N. bioRxiv 2018.

Muscle

Muscle

Publications:

Eye disc

Eye disc

Publications:

  • Single cell RNA-sequencing identifies a metabolic aspect of apoptosis in Rbf mutant. Aris MM, Islam ABMMK, Critcher M, Zappia MP, Frolov MV. Nature Communications 2018.

Wing disc

Wing disc

Publications:

  • Gene expression atlas of a developing tissue by single cell expression correlation analysis. Bageritz J, Willnow P, Valentini E, Leible S, Boutros M, Teleman AA. Nature Methods 2019.

Tumour

Tumour

Publications:

Gonads

Gonads

Publications:

  • Testis single-cell RNA-seq reveals the dynamics of de novo gene transcription and germline mutational bias in Drosophila. Witt E, Benjamin S, Svetec N, Zhao L. bioRxiv 2019.

Fly Cell Atlas Consortium

If you are interested in joining the Fly Cell Atlas consortium, you can state through this form which organ and developmental stages, which genetic background, sequencing technology, and computational methods are you using (or are you planning to use). After filling in the interest form, you can also join the FCA Slack.

Founders

Stein Aerts

VIB-KU Leuven Center for Brain & Disease Research, Belgium

Website

Bart Deplancke

École Polytechnique Fédérale de Lausanne, Switzerland

Website

Robert Zinzen

Max Delbrück Center for Molecular Medicine, Germany

Website