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Series GSE136154 Query DataSets for GSE136154
Status Public on Oct 08, 2019
Title Calcitonin gene related peptide negatively regulates alarmin-driven type 2 innate lymphoid cell responses
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Neuroimmune interactions have emerged as critical modulators of allergic inflammation, and type 2 innate lymphoid cells (ILC2s) are an important cell type for mediating these interactions. Here, we show that ILC2s expressed both the neuropeptide CGRP (Calcitonin Gene-Related Peptide) and its receptor. CGRP potently inhibited alarmin-driven type 2 cytokine production and proliferation by lung ILC2s both in vitro and in vivo. CGRP induced marked changes in ILC2 expression programs in vivo and in vitro, attenuating alarmin-driven proliferative and effector responses. A distinct subset of ILCs scored highly for a CGRP-specific gene signature after in vivo alarmin stimulation, suggesting CGRP regulated this response. Finally, we observed increased ILC2 proliferation and type 2 cytokine production and exaggerated responses to alarmins in mice lacking the CGRP receptor. Together, these data indicate that endogenous CGRP is a critical negative regulator of ILC2 responses in vivo.
Overall design For in vitro bulk RNA-seq experiments, there are 32 samples total, representing 2 biological replicates, each split into 2 technical replicates, of 4 conditions at 2 time points. For in vivo scRNA-seq experiments, there are 8 samples total, representing 2 biological replicates of 4 conditions at 1 time point. For in vitro ATAC-seq experiments, there are 6 samples total, representing 3 replicates of 2 conditions at 1 time point.
Contributor(s) Wallrapp A, Burkett PR, Riesenfeld SJ, Kim S, Christian E, Abdulnour RE, Thakore PI, Schnell A, Lambden C, Herbst R, Khan P, Tsujikawa K, Chiu IM, Levy BD, Regev A, Kuchroo VK
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Submission date Aug 21, 2019
Last update date Oct 08, 2019
Contact name Samantha Riesenfeld
Organization name Broad Institute
Lab Regev
Street address 415 Main St
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
Platforms (3)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL21273 HiSeq X Ten (Mus musculus)
GPL21626 NextSeq 550 (Mus musculus)
Samples (46)
GSM4041722 Invitro_Tpt3D_IL7_A1
GSM4041723 Invitro_Tpt3D_IL7_A2
GSM4041724 Invitro_Tpt3D_IL7_CGRP_A1
BioProject PRJNA561400
SRA SRP219030

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE136154_ATAC_all.normalized_counts.txt.gz 3.1 Mb (ftp)(http) TXT 1.5 Mb (ftp)(http) TAB
GSE136154_Bulk_all.matrix.abundance_TPM.txt.gz 1.6 Mb (ftp)(http) TXT
GSE136154_Bulk_all.matrix.counts.txt.gz 1.2 Mb (ftp)(http) TXT
GSE136154_CGRP_1.filtered_feature_bc_matrix.h5 11.3 Mb (ftp)(http) H5
GSE136154_CGRP_2.filtered_feature_bc_matrix.h5 12.7 Mb (ftp)(http) H5
GSE136154_IL33_1.filtered_feature_bc_matrix.h5 16.3 Mb (ftp)(http) H5
GSE136154_IL33_2.filtered_feature_bc_matrix.h5 17.3 Mb (ftp)(http) H5
GSE136154_IL33_CGRP_1.filtered_feature_bc_matrix.h5 13.1 Mb (ftp)(http) H5
GSE136154_IL33_CGRP_2.filtered_feature_bc_matrix.h5 14.3 Mb (ftp)(http) H5
GSE136154_PBS_1.filtered_feature_bc_matrix.h5 12.3 Mb (ftp)(http) H5
GSE136154_PBS_2.filtered_feature_bc_matrix.h5 10.9 Mb (ftp)(http) H5
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Raw data are available in SRA
Processed data are available on Series record

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