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| Status |
Public on May 05, 2021 |
| Title |
The molecular landscape of neural differentiation inthe developing Drosophila brain revealed by targeted scRNA-seq and multi-informatic analysis |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
In this work, Michki et. al. isolate neurons and neural progenitors from the developing Drosophila brain. Through a combination of in silico and in situ techniques, they map out the expression dynamics of a variety of molecular factors that may play a role in specifying terminal neural fates at the RNA level, and provide tools to enable similar analyses to be performed in other systems.
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| Overall design |
R9D11-Gal4 genetic driver was used with a UAS:hH2B-2xmNG reporter to label type-II neural lineages in third instar larval brains. 20 brains were dissected, dissociated, and sorted on a Sony MA900 FACS machine. 10,000 cells were sequenced in a single lane of a 10Xchromium chip using their v3 chemistry. Cells were sequenced on an Illumina NovaSeq/HiSeq4000 with 400M reads allocated to this library. 6092 cells were identified with a mean read count of 97,604 reads/cell when aligned to the BDGP6(2014-07) Drosophila genome assembly from ENSEMBL using STAR. Downstream filtering and analysis were performed using scanpy.
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| Contributor(s) |
Michki NS, Li Y, Sanjasaz K, Zhao Y, Shen F, Walker LA, Cao W, Lee C, Cai D |
| Citation(s) |
33909998 |
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| Submission date |
Jul 02, 2020 |
| Last update date |
May 05, 2021 |
| Contact name |
Sylvia N Michki |
| E-mail(s) |
michkin@chop.edu
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| Organization name |
Children's Hospital of Philadelphia
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| Department |
Pulmonary & Sleep Medicine
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| Street address |
3615 Civic Center Blvd
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| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
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| Platforms (2) |
| GPL21306 |
Illumina HiSeq 4000 (Drosophila melanogaster) |
| GPL25244 |
Illumina NovaSeq 6000 (Drosophila melanogaster) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA643805 |
| SRA |
SRP269777 |
