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| Status |
Public on Apr 19, 2024 |
| Title |
A role of DDR2 and substrate stiffness on cancer cell transcriptome and proliferation |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Extracellular matrix (ECM) regulates carcinogenesis. As a major ECM component, collagen interacts with integrin and a non-typical receptor discoidin domain receptor tyrosine kinase 2 (DDR2), but how DDR2 regulates cancer progression is poorly understood. Apart from its signaling function, ECM provides a mechanical environment for cancer, but the impact of biomechanics on cancer remains enigmatic. Here, we performed RNA-seq of a human neuroblastoma cell line SH-SY5Y. We found that DDR2 knockdown, but not increasing substrate stiffness, upregulated pro-proliferative genes and down-regulated axonogenesis genes. Surprisingly, despite no transcriptome changes, increasing of stiffness attenuates SH-SY5Y cell proliferation, an effect also observed after DDR2 knockdown. Our results indicate that two ECM effectors, DDR2 and biomechanics, could control cancer cell proliferation through different mechanisms.
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| Overall design |
To investigate how DDR2 regulates cancer progresion, we did DDR2 knock down in SH-SY5Y cell line, then followed by RNA-seq.
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| Contributor(s) |
Vessella T, Xiang S, Xiao C, Wen Q |
| Citation(s) |
38538106 |
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| Submission date |
Oct 30, 2023 |
| Last update date |
Apr 20, 2024 |
| Contact name |
Cong Xiao |
| E-mail(s) |
xiaocong3333@gmail.com
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| Phone |
7743124519
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| Organization name |
University of Massachusetts Medical School Medical School
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| Street address |
Lazare MedLRB 760B, 364 Plantation Street, Worcester, MA 01605
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| City |
Worcester |
| State/province |
MA |
| ZIP/Postal code |
01605 |
| Country |
USA |
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| Platforms (1) |
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| Samples (12)
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| GSM7871141 |
SH-SY5Y cell line, shCTRL, 24h, 2kPa, bioreplicate 1 |
| GSM7871142 |
SH-SY5Y cell line, shCTRL, 24h, 2kPa, bioreplicate 2 |
| GSM7871143 |
SH-SY5Y cell line, shCTRL, 24h, 2kPa, bioreplicate 3 |
| GSM7871144 |
SH-SY5Y cell line, shDDR2, 24h, 2kPa, bioreplicate 1 |
| GSM7871145 |
SH-SY5Y cell line, shDDR2, 24h, 2kPa, bioreplicate 2 |
| GSM7871146 |
SH-SY5Y cell line, shDDR2, 24h, 2kPa, bioreplicate 3 |
| GSM7871147 |
SH-SY5Y cell line, shCTRL, 24h, 20kPa, bioreplicate 1 |
| GSM7871148 |
SH-SY5Y cell line, shCTRL, 24h, 20kPa, bioreplicate 2 |
| GSM7871149 |
SH-SY5Y cell line, shCTRL, 24h, 20kPa, bioreplicate 3 |
| GSM7871150 |
SH-SY5Y cell line, shDDR2, 24h, 20kPa, bioreplicate 1 |
| GSM7871151 |
SH-SY5Y cell line, shDDR2, 24h, 20kPa, bioreplicate 2 |
| GSM7871152 |
SH-SY5Y cell line, shDDR2, 24h, 20kPa, bioreplicate 3 |
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| Relations |
| BioProject |
PRJNA1033608 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE246550_RAW.tar |
1.2 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
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