Arda Halu, PhD - Publications

Please see my Google Scholar page for my current list of publications.

Submitted/In revision

(* denotes equal contribution)

25. Conserved and divergent modulation of calcification in atherosclerosis and aortic valve disease by tissue extracellular vesicles (submitted)

M. C. Blaser, F. Buffolo, A. Halu, F. Schlotter, H. Higashi, L. Pantano, L. A. Saddic, S. K. Atkins, M. A. Rogers, T. Pham, E. Shvartz, G. K. Sukhova, S. Monticone, G. Camussi, S. C. Body, J. D. Muehlschlegel, S. A. Singh, M. Aikawa, E. Aikawa

https://www.biorxiv.org/content/10.1101/2020.04.02.022525v1

24. Novel disease driver population of human calcific aortic valves identified via single cell and proteomic profiling (submitted)

J. L. Decano, Y. Iwamoto, S. Goto, P. Vyas, L. H. Lee, H. Higashi, J. Y. Lee, B. Pieper, A. Halu, J. S. Nicolau, J. Wang, M. Blaser, E. Gostjeva, S. C. Body, S. A. Singh, M. Aikawa, E. Aikawa

23. The PPARa selective agonist pemafibrate suppresses macrophage activation and experimental arterial lesion formation (submitted)

H. Iwata, K. Murakami , A. Halu, L. H. Lee, P. Ricchiuto, A. Mojcher, Y. Yamazaki, P. Libby, A. Sharma, S.A. Singh, E.Aikawa, M. Aikawa

22. Annexin tethers extracellular vesicles and promotes human cardiovascular calcification (submitted)

M. Rogers, F. Buffolo, F. Schlotter, L. H. Lee, A. Halu, M. Blaser, E. Tsolaki, H. Higashi, S. Atkins, C. Bouten, S. Body, S. Singh, S. Bertazzo, M. Aikawa, E. Aikawa

Accepted/Published

(* denotes equal contribution)

21. Multi-organ systems study reveals Igfbp7 as a suppressor of gluconeogenesis after gastric bypass surgery (to appear in the Journal of Proteome Research)

N. Arima, Y. Sasaki, L. H. Lee, H. Zhang, J.-L. Figueiredo, A. Mlynarchik, J. Qiao, I. Yamada, H. Higashi, A. Ha, A. Halu, K. Mizuno, S. Singh, Y. Yamazaki, M. Aikawa

20. The multiplex network of human diseases

A. Halu*, M. De Domenico*, A. Arenas, A. Sharma

npj Systems Biology and Applications, 5 (1) pp: 15 (2019) / bioRxiv (2017): 100370

19. Exploring the cross-phenotype network region of disease modules reveals concordant and discordant pathways between chronic obstructive pulmonary disease and idiopathic pulmonary fibrosis

A. Halu, S. Liu, S. H. Baek, B. D. Hobbs, G. M. Hunninghake, M. H. Cho, E. K. Silverman, A. Sharma

Human Molecular Genetics (2019) (ahead of print)

18. XINA: A workflow for the integration of multiplexed proteomics kinetics data with network analysis

L. H. Lee, A. Halu, S. Morgan, H. Iwata, M. Aikawa, S. Singh

Journal of Proteome Research, 18 (2) pp: 775-781 (2019)

17. Uremic toxin indoxyl sulfate promotes pro-inflammatory macrophage activation via the interplay of OATB2B1 and Dll4-Notch signaling: potential mechanism for accelerated atherogenesis in chronic kidney disease

T. Nakano, S. Katsuki, M. Chen, J. L. Decano, A. Halu, L. H. Lee, D. V. S. Pestana, A. S. T. Kum, R. K. Kuromoto, W. S. Golden, M. S. Boff, G. C. Guimaraes, H. Higashi, K. J. Kauffman, T. Maejima, T. Suzuki, H. Iwata, A.-L. Barabási, J. C. Aster, D. G. Anderson, A. Sharma, S. A. Singh, E. Aikawa, M. Aikawa

Circulation, 139 (1), 78-96 (2019)

16. Context-enriched interactome powered by proteomics helps the identification of novel regulators of macrophage activation

A. Halu, J. Wang, H. Iwata, A. Mojcher, A. L. Abib, S. A. Singh, M. Aikawa*, A. Sharma*

eLife, 7, e37059 (2018)

15. The transcriptional signature of growth in human fetal aortic valve development

D. Gottlieb Sen, A. Halu, M. A. Razzaque, J. M. Gorham, J. Hartnett, J. G. Seidman, E. Aikawa*, C. E. Seidman*

The Annals of Thoracic Surgery, 106(6), 1834-1840 (2018)

14. Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes

A. Sharma*, A. Halu*, J. L. Decano, M. Padi, Y.-Y. Liu, R. B. Prasad, J. Fadista, M. Santolini, J. Menche, S. T. Weiss, M. Vidal, E. K. Silverman, M. Aikawa, A.-L. Barabasi, L. Groop, J. Loscalzo

npj Systems Biology and Applications 4, 25 (2018) / bioRxiv (2017): 226456

13. A systems approach to refine disease taxonomy by integrating phenotypic and molecular networks

X. Zhou*, L. Lei*, J. Liu*, A. Halu*, Y. Zhang, B. Li, Z. Guo, G. Liu, C. Sun, J. Loscalzo, A. Sharma*, Z. Wang*

EBioMedicine 31, 79–91 (2018) / bioRxiv (2017): 219089

12. Spatiotemporal multi-omics mapping generates a molecular atlas of the aortic valve and reveals networks driving disease

F. Schlotter*, A. Halu*, S. Goto, M. C. Blaser, S. C. Body, L. H. Lee, H. Higashi, D. M. DeLaughter, J. D. Hutcheson, P. Vyas, M. A. Rogers, T. Pham, J. R. Wen, A. Sharma, C. E. Seidman, J. Loscalzo, J. G. Seidman, M. Aikawa, S. A. Singh, E. Aikawa

Circulation, 138 (4), 377-393 (2018) / Editorial

11. Regulation of nuclear receptor interacting protein 1 (NRIP1) gene expression in response to weight loss and exercise in humans

Y. D. Marinis, J. Sun, P. Bompada, J. D. Omella, C. Luan, A. Halu, E. Renström, A. Sharma, M. Ridderstråle

Obesity 25.8: 1400-1409 (2017)

10. PARP9 and PARP14 cross-regulate macrophage activation via STAT1 ADP-ribosylation

H. Iwata, C. Goettsch, A. Sharma, P. Ricchiuto, W.W.B. Goh, A. Halu, I. Yamada, H. Yoshida, T. Hara, M. Wei, N. Inoue, D. Fukuda, A. Mojcher, P.C. Mattson, A.-L. Barabasi, M. Boothby, E. Aikawa, S.A. Singh, M. Aikawa.

Nature Communications 7, 12849 (2016)

9. Data-driven modeling of solar-powered urban microgrids

A. Halu, A. Scala, A. Khiyami, M. C. Gonzalez

Science Advances, 2(1), e1500700 (2016)

Featured in The Atlantic's CityLab

8. Dynamics of and on Complex Networks

A. Halu

PhD Thesis, Northeastern University (2014)

Advisor: Ginestra Bianconi

Thesis Committee: Albert-László Barabási, Alain Karma, Alessandro Vespignani

7. Emergence of overlap in ensembles of spatial multiplexes and statistical mechanics of spatial interacting network ensembles

A. Halu, S. Mukherjee, G. Bianconi