Back

Neuroendocrinology of the lung revealed by single cell RNA sequencing

Kuo, C. S.; Darmanis, S.; Diaz de Arce, A.; Liu, Y.; Almanzar, N.; Wu, T. T. H.; Quake, S. R.; Krasnow, M. A.

2022-03-10 bioinformatics
10.1101/2022.03.08.483399 bioRxiv
Show abstract

Pulmonary neuroendocrine cells (PNECs) are sensory epithelial cells that transmit airway status to the brain via sensory neurons and locally via CGRP and GABA. Several other neuropeptides and neurotransmitters have been detected in various species, but the number, targets, functions, and conservation of PNEC signals are largely unknown. We used scRNAseq to profile hundreds of the rare mouse and human PNECs. This revealed >40 PNEC neuropeptide and peptide hormone genes, most cells expressing unique combinations of 5-18 genes. Peptides are packaged in separate vesicles, release presumably regulated by the distinct, multimodal combinations of sensors expressed by each PNEC. Expression of cognate receptors predicts an array of local targets, and we show the new PNEC signal angiotensin directly activates innervating sensory neurons. Many signals lack lung targets so may have endocrine activity like those of PNEC- derived carcinoid tumors. PNECs are an extraordinarily rich and diverse signaling hub rivaling the enteroendocrine system.

Matching journals

The top 4 journals account for 50% of the predicted probability mass.

1
Cell
○ 431 papers in training set
Top 0.1%
15.3%
Similar papers in this journal
2
Nature Communications
○ 5641 papers in training set
Top 13%
13.1%
Similar papers in this journal
3
eLife
● 5828 papers in training set
Top 7%
12.1%
Similar papers in this journal
4
Cell Reports
○ 1498 papers in training set
Top 2%
9.9%
Similar papers in this journal
50% of probability mass above
5
Science Immunology
● 88 papers in training set
Top 0.1%
9.9%
Similar papers in this journal
6
Science Advances
● 1243 papers in training set
Top 3%
6.8%
7
iScience
○ 1154 papers in training set
Top 3%
4.4%
8
Proceedings of the National Academy of Sciences
● 2444 papers in training set
Top 20%
2.5%
9
American Journal of Respiratory and Critical Care Medicine
◐ 43 papers in training set
Top 0.4%
2.4%
10
JCI Insight
● 277 papers in training set
Top 5%
1.5%
11
PLOS Biology
● 486 papers in training set
Top 6%
1.5%
12
Science
● 477 papers in training set
Top 7%
1.1%
13
Cell Genomics
○ 172 papers in training set
Top 3%
1.1%
14
Nature Biotechnology
○ 172 papers in training set
Top 3%
1.1%
15
Development
● 497 papers in training set
Top 4%
1.1%
16
Neuron
○ 337 papers in training set
Top 4%
1.0%
17
Gastroenterology
○ 42 papers in training set
Top 1.0%
0.9%
18
Current Biology
○ 665 papers in training set
Top 10%
0.9%
19
Disease Models & Mechanisms
139 papers in training set
Top 3%
0.6%
20
Cell Research
○ 51 papers in training set
Top 2%
0.6%
21
Nature Genetics
○ 286 papers in training set
Top 5%
0.6%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.