Dataset: UNRAVELING A NOVEL TRANSCRIPTION FACTOR CODE INDUCTIVE FOR THE HUMAN ARTERIAL-SPECIFIC ENDOTHELIAL CELL SIGNATURE
Endothelial cells (EC) lining arteries and veins have distinct molecular and functional signatures. The (epi)genetic regulatory...
Endothelial cells (EC) lining arteries and veins have distinct molecular and functional signatures. The (epi)genetic regulatory mechanisms underlying this heterogeneity in human EC are incompletely understood. Using genome-wide microarray screening we established a specific fingerprint of freshly isolated arterial (HUAEC) and venous EC (HUVEC) from human umbilical cord comprising 64 arterial and 12 venous genes, representing distinct functions and pathways. Among the arterial genes were 8 transcription factors, including HEY2, a downstream target of Notch signaling and the current ‘golden standard’ pathway for arterial EC specification. Short-term culture of HUAEC or HUVEC abrogated differential gene expression resulting in a default state. Erasure of arterial gene expression was at least in part due to loss of canonical Notch activity and HEY2 expression. Notably, nCounter analysis revealed that restoring HEY2 expression or Delta-like 4 (Dll4)-induced Notch signaling in cultured HUVEC or HUAEC only partially reinstated the arterial EC gene signature while combined overexpression of the 8 transcription factors restored this fingerprint much more robustly. Each transcription factor had a different impact on gene regulation, with some stimulating only few and others boosting a large proportion of arterial genes. Interestingly, although there was some overlap and cross-regulation, the transcription factors largely complemented each other in regulating the arterial EC gene profile. Thus, our study showed that Notch signaling determines only part of the arterial EC signature and identified additional novel and complementary transcriptional players in the complex regulation of human arteriovenous EC identity To identify an arteriovenous (AV) fingerprint in human endothelial cells (EC) across different vascular beds, we used microarrays on RNA from 38 EC samples corresponding to 6 cultured human arterial-EC types (hepatic artery EC or HHAEC, N=3; aorta EC or HAEC, N=2; coronary artery EC or HCAEC, N=2; iliac artery EC or HIAEC, N=2; pulmonary artery EC or HPAEC, N=3; and umbilical artery EC or HUAEC-C, N=5), 4 cultured human venous-EC types (hepatic vein EC or HHVEC, N=3; iliac vein EC or HIVEC, N=3; pulmonary vein EC or HPVEC, N=2; and umbilical vein EC or HUVEC-C, N=5), freshly isolated HUAEC (HUAEC-F, N=4) and freshly isolated HUVEC (HUVEC-F, N=4). Due to the difficulty to obtain biopsies from healthy donors, we did not have access to freshly isolated aEC or vEC matched for all cultured EC types.
- Species:
- human
- Samples:
- 38
- Source:
- E-GEOD-43475
- PubMed:
- 24108462
- Updated:
- Dec.12, 2014
- Registered:
- Jul.11, 2014
| Sample | ISOLATION METHOD | CELL CULTURE BANK | CELL TYPE |
|---|---|---|---|
| GSM10634 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured hepatic vein endothelial cells |
| GSM10634 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured hepatic vein endothelial cells |
| GSM10634 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured hepatic vein endothelial cells |
| GSM1063408 | human umbilical vein endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical vein endothelial cells |
| GSM1063408 | human umbilical vein endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical vein endothelial cells |
| GSM1063408 | human umbilical vein endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical vein endothelial cells |
| GSM1063408 | human umbilical vein endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical vein endothelial cells |
| GSM1063404 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical vein endothelial cells |
| GSM1063404 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical vein endothelial cells |
| GSM1063404 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical vein endothelial cells |
| GSM1063404 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical vein endothelial cells |
| GSM1063404 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical vein endothelial cells |
| GSM1063399 | human umbilical artery endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical artery endothelial cells |
| GSM1063399 | human umbilical artery endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical artery endothelial cells |
| GSM1063399 | human umbilical artery endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical artery endothelial cells |
| GSM1063399 | human umbilical artery endothelial cells were magnetically purified using CD34 antibody and check for EC purity by CD31, CD34 and CD45 FACS analysis. Samples were directly processed for RNA extraction without any kind of culture | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | freshly isolated umbilical artery endothelial cells |
| GSM1063395 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical artery endothelial cells |
| GSM1063395 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical artery endothelial cells |
| GSM1063395 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical artery endothelial cells |
| GSM1063395 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical artery endothelial cells |
| GSM1063395 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured umbilical artery endothelial cells |
| GSM1063390 | non-applicable | ATCC CatN� CRL-2607 | cultured pulmonary vein endothelial cells |
| GSM1063390 | non-applicable | ATCC CatN� CRL-2607 | cultured pulmonary vein endothelial cells |
| GSM1063388 | non-applicable | ATCC CatN� CRL-2598 | cultured pulmonary artery endothelial cells |
| GSM1063388 | non-applicable | ATCC CatN� CRL-2598 | cultured pulmonary artery endothelial cells |
| GSM1063388 | non-applicable | ATCC CatN� CRL-2598 | cultured pulmonary artery endothelial cells |
| GSM1063385 | non-applicable | ATCC CatN� CRL-2606 | cultured iliac vein endothelial cells |
| GSM1063385 | non-applicable | ATCC CatN� CRL-2606 | cultured iliac vein endothelial cells |
| GSM1063385 | non-applicable | ATCC CatN� CRL-2606 | cultured iliac vein endothelial cells |
| GSM1063382 | non-applicable | ATCC CatN� CRL-2475 | cultured iliac artery endothelial cells |
| GSM1063382 | non-applicable | ATCC CatN� CRL-2475 | cultured iliac artery endothelial cells |
| GSM1063380 | non-applicable | Lonza CatN� CC-2585 | cultured coronary artery endothelial cells |
| GSM1063380 | non-applicable | Lonza CatN� CC-2585 | cultured coronary artery endothelial cells |
| GSM1063378 | non-applicable | Lonza CatN� CC-2535 | cultured aorta endothelial cells |
| GSM1063378 | non-applicable | Lonza CatN� CC-2535 | cultured aorta endothelial cells |
| GSM1063376 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured hepatic artery endothelial cells |
| GSM1063376 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured hepatic artery endothelial cells |
| GSM1063376 | Corresponding vessel was perfused with Collagenase Type I. Harvested cells were cultured for 24 hours, washed to discard non-attached cells, grown until 100% confluence and split 1:3 every 3-4 days | Cells were isolated in Clinica Universidad de Navarra after obtaining informed consent | cultured hepatic artery endothelial cells |