Co-authored publications with mentees

Shahin Rafii, MD · 25 publications across 5 mentees

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MD mentee

Spatial remodeling of bone marrow architecture defines tissue-state signatures of disease activity and therapeutic response in myelodysplastic neoplasms.
Leukemia · 2026
SRShahin RafiiCUCaitlin UnkenholzRLRalph L Nachman AKAleksandra Kopacz+18 more →SPSanjay Patel
PMID: 42380663PMCID: PMC13421341DOI
With Caitlin Unkenholz · MD mentee · Class of 2026
Single-cell spatial mapping reveals dynamic bone marrow microarchitectural alterations and enhances clinical diagnostics in MDS.
bioRxiv : the preprint server for biology · 2025
SRShahin RafiiCUCaitlin UnkenholzAKAleksandra Kopacz FSFabio Socciarelli+13 more →SPSanjay Patel
PMID: 41279873PMCID: PMC12632391DOI
With Caitlin Unkenholz · MD mentee · Class of 2026

PhD mentee

Transcription factor induction of vascular blood stem cell niches in vivo.
Developmental cell · 2023
SRShahin RafiiBKBalvir KunarJMJesus Maria Gomez Salinero
PMID: 37119815PMCID: PMC10330626DOI14 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Systems Biology Analysis of Temporal Dynamics That Govern Endothelial Response to Cyclic Stretch.
Biomolecules · 2022
SRShahin RafiiBKBalvir KunarDRDavid Redmond SYSina Y Rabbany
PMID: 36551265PMCID: PMC9775567DOI4 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Reversal of emphysema by restoration of pulmonary endothelial cells.
The Journal of experimental medicine · 2021
SRShahin RafiiBKBalvir KunarACAlexandra Christin Racanelli RSRyan Schreiner+4 more →AMAugustine M K Choi
PMID: 34287647PMCID: PMC8298104DOI82 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Human Induced Pluripotent Stem Cell-Derived Brain Endothelial Cells: Current Controversies.
Frontiers in physiology · 2021
SRShahin RafiiJGJosé Gabriel Barcia DuránDRDavid Redmond RLRaphael Lis
PMID: 33868008PMCID: PMC8044318DOI46 citations
With Jose Gabriel Barcia Duran · Physiology, Biophysics & Systems Biology (PhD) · Class of 2019
Endothelial Jak3 expression enhances pro-hematopoietic angiocrine function in mice.
Communications biology · 2021
SRShahin RafiiJGJosé Gabriel Barcia DuránRSRyan Schreiner JZJenny Zhaoying Xiang+1 more →RLRaphael Lis
PMID: 33767339PMCID: PMC7994450DOI15 citations
With Jose Gabriel Barcia Duran · Physiology, Biophysics & Systems Biology (PhD) · Class of 2019
Pluripotent stem cell-derived epithelium misidentified as brain microvascular endothelium requires ETS factors to acquire vascular fate.
Proceedings of the National Academy of Sciences of the United States of America · 2021
SRShahin RafiiJGJosé Gabriel Barcia DuránAPAndrew P MinottiDTDuc-Huy Tran Nguyen+5 more →RLRaphael Lis
PMID: 33542154PMCID: PMC7923590DOI179 citations
With Jose Gabriel Barcia Duran · Physiology, Biophysics & Systems Biology (PhD) · Class of 2019
Adaptable haemodynamic endothelial cells for organogenesis and tumorigenesis.
Nature · 2020
SRShahin RafiiBKBalvir KunarDTDuc-Huy Tran Nguyen RSRyan Schreiner YLYing Liu+13 more →
PMID: 32908310PMCID: PMC7480005DOI234 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Molecular determinants of nephron vascular specialization in the kidney.
Nature communications · 2019
SRShahin RafiiBKBalvir KunarRLRaphael LisTZTuo ZhangJMJesus Maria Gomez Salinero+6 more →
PMID: 31836710PMCID: PMC6910926DOI104 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Haematopoietic stem cell reprogramming and the hope for a universal blood product.
FEBS letters · 2019
SRShahin RafiiJGJosé Gabriel Barcia DuránRLRaphael Lis
PMID: 31725897DOI4 citations
With Jose Gabriel Barcia Duran · Physiology, Biophysics & Systems Biology (PhD) · Class of 2019
In vitro conversion of adult murine endothelial cells to hematopoietic stem cells.
Nature protocols · 2018
SRShahin RafiiJGJosé Gabriel Barcia DuránRLRaphael Lis
PMID: 30429596PMCID: PMC9923715DOI12 citations
With Jose Gabriel Barcia Duran · Physiology, Biophysics & Systems Biology (PhD) · Class of 2019
Laminar shear stress modulates endothelial luminal surface stiffness in a tissue-specific manner.
Microcirculation (New York, N.Y. : 1994) · 2018
SRShahin RafiiBKBalvir KunarBPBrisa PalikuqiSYSina Y Rabbany
PMID: 29665185PMCID: PMC6407863DOI15 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Production of BMP4 by endothelial cells is crucial for endogenous thymic regeneration.
Science immunology · 2018
SRShahin RafiiPGPeipei GuoCCChristopher C KlossBPBrisa Palikuqi+3 more →MRMarcel R M van den Brink
PMID: 29330161PMCID: PMC5795617DOI125 citations
With Peipei Guo · Physiology, Biophysics & Systems Biology (PhD) · Class of 2016
Endothelial jagged-2 sustains hematopoietic stem and progenitor reconstitution after myelosuppression.
The Journal of clinical investigation · 2017
SRShahin RafiiBKBalvir KunarPGPeipei GuoMGMichael G PoulosBPBrisa Palikuqi+6 more →
PMID: 29058691PMCID: PMC5707154DOI67 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Endothelial jagged-2 sustains hematopoietic stem and progenitor reconstitution after myelosuppression.
The Journal of clinical investigation · 2017
SRShahin RafiiPGPeipei GuoMGMichael G PoulosBPBrisa PalikuqiCRChaitanya R Badwe+6 more →
PMID: 29058691PMCID: PMC5707154DOI67 citations
With Peipei Guo · Physiology, Biophysics & Systems Biology (PhD) · Class of 2016
Activated ovarian endothelial cells promote early follicular development and survival.
Journal of ovarian research · 2017
SRShahin RafiiPGPeipei GuoAAAnate Aelion-BrauerDWDuancheng Wen+3 more →ZRZev Rosenwaks
PMID: 28927438PMCID: PMC5605973DOI13 citations
With Peipei Guo · Physiology, Biophysics & Systems Biology (PhD) · Class of 2016
Conversion of adult endothelium to immunocompetent haematopoietic stem cells.
Nature · 2017
SRShahin RafiiBKBalvir KunarRLRaphael LisMGMichael G PoulosDRDavid Redmond+9 more →
PMID: 28514438PMCID: PMC5794215DOI178 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Conversion of adult endothelium to immunocompetent haematopoietic stem cells.
Nature · 2017
SRShahin RafiiJGJose G Barcia DuranRLRaphael LisMGMichael G PoulosBKBalvir Kunar+9 more →
PMID: 28514438PMCID: PMC5794215DOI178 citations
With Jose Gabriel Barcia Duran · Physiology, Biophysics & Systems Biology (PhD) · Class of 2019
Sox17 drives functional engraftment of endothelium converted from non-vascular cells.
Nature communications · 2017
SRShahin RafiiBKBalvir KunarCRChaitanya R BadweBPBrisa PalikuqiRLRaphael Lis+2 more →
PMID: 28091527PMCID: PMC5260855DOI21 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Endothelial Cells Promote Expansion of Long-Term Engrafting Marrow Hematopoietic Stem and Progenitor Cells in Primates.
Stem cells translational medicine · 2016
SRShahin RafiiBKBalvir KunarJMJason M ButlerMGMichael G Poulos
PMID: 28297579PMCID: PMC5442761DOI26 citations
With Balvir Kunar · Physiology, Biophysics & Systems Biology (PhD)
Angiocrine factors deployed by tumor vascular niche induce B cell lymphoma invasiveness and chemoresistance.
Cancer cell · 2014
SRShahin RafiiPGPeipei GuoZCZhongwei CaoBDBi-Sen DingJMJason M Butler+3 more →
PMID: 24651014PMCID: PMC4017921DOI210 citations
With Peipei Guo · Physiology, Biophysics & Systems Biology (PhD) · Class of 2016
Divergent angiocrine signals from vascular niche balance liver regeneration and fibrosis.
Nature · 2013
SRShahin RafiiPGPeipei GuoBDBi-Sen DingZCZhongwei CaoRLRaphael Lis+2 more →
PMID: 24256728PMCID: PMC4142699DOI562 citations
With Peipei Guo · Physiology, Biophysics & Systems Biology (PhD) · Class of 2016
Endothelial Jagged-1 is necessary for homeostatic and regenerative hematopoiesis.
Cell reports · 2013
SRShahin RafiiPGPeipei GuoMGMichael G PoulosJMJason M Butler
PMID: 24012753PMCID: PMC3805263DOI221 citations
With Peipei Guo · Physiology, Biophysics & Systems Biology (PhD) · Class of 2016
Endothelial-derived angiocrine signals induce and sustain regenerative lung alveolarization.
Cell · 2011
SRShahin RafiiPGPeipei GuoBDBi-Sen DingZCZhongwei CaoZRZev Rosenwaks+4 more →
PMID: 22036563PMCID: PMC3228268DOI476 citations
With Peipei Guo · Physiology, Biophysics & Systems Biology (PhD) · Class of 2016

Postdoc mentee

Spatial remodeling of bone marrow architecture defines tissue-state signatures of disease activity and therapeutic response in myelodysplastic neoplasms.
Leukemia · 2026
SRShahin Rafii AKAleksandra Kopacz RLRalph L NachmanCUCaitlin Unkenholz+18 more →SPSanjay Patel
PMID: 42380663PMCID: PMC13421341DOI
With Aleksandra Kopacz · Postdoc mentee
Single-cell spatial mapping reveals dynamic bone marrow microarchitectural alterations and enhances clinical diagnostics in MDS.
bioRxiv : the preprint server for biology · 2025
SRShahin Rafii AKAleksandra KopaczCUCaitlin UnkenholzFSFabio Socciarelli+13 more →SPSanjay Patel
PMID: 41279873PMCID: PMC12632391DOI
With Aleksandra Kopacz · Postdoc mentee
A non-canonical aryl hydrocarbon receptor pathway authorizes and safeguards clinical-scale expansion of functional human endothelial cells.
Nature cardiovascular research · 2025
SRShahin Rafii AKAleksandra Kopacz YLYang Lin FGFuqiang Geng LKLisa K Torres+7 more →
PMID: 41087734PMCID: PMC13077724DOI1 citations
With Aleksandra Kopacz · Postdoc mentee
Single-cell atlas of human pancreatic islet and acinar endothelial cells in health and diabetes.
Nature communications · 2025
SRShahin Rafii AKAleksandra Kopacz RJRebecca J Craig-Schapiro JMJesus Maria Gomez Salinero+2 more →DRDavid Redmond
PMID: 39915484PMCID: PMC11802906DOI19 citations
With Aleksandra Kopacz · Postdoc mentee