Abbas Karimi

As a visiting researcher at the Center For Complex Networks & Social Data Science (CCNSD) of SBU, I work on an inference problem, a topic at the interface of physics, computer science, and systems biology. My project aims to use physics-inspired methods to find structure data sets and determine when these structures are statistically significant. We are developing physics-based algorithms which can point to hidden connections between spatially disparate nodes of a network!

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FIELDS OF INTEREST

Complex Systems, Network Science, and Data Science

Projects at CCNSD

EDUCATION

  • Master of Science in Physics,  Complex Systems & Nonlinear Dynamics: 2016-2018, SBU
  • Bachelor of Science, Solid State Physics: 2012-2016, SBU

RESEARCH EXPERIENCES

  • My thesis: Inferring Interaction Matrices of Evolving Complex Networks, 2017 – 2018, Center for Complex Networks & Social Data Science (CCNSD),  SBU, Tehran, Iran
  • Differences between the collective behaviors of genes in the normal and cancerous cells from the perspective of Inverse Statistical Physics, 2018, CCNSD, SBU, Tehran, Iran
  • Dynamics‬‬ ‫‪of‬‬ ‫‪Growth‬‬ ‫‪in‬‬ ‫‪Social‬‬ ‫‪Networks‬‬ ‫‪in‬‬ ‫‪Accordance‬‬ ‫‪with‬‬ ‫‪Preferential‬‬ ‫‪Attachment‬‬ ‫‪and‬‬ ‫‪Tension‬‬ ‫‪in‬‬ ‫‪the‬‬ ‫‪Network‬‬/ Supervised by Dr. G.R. Jafari, 2015, CCNSD, SBU, Tehran, Iran. Accepted as a poster in the “8th Conference on Statistical Physics, Soft Condensed Matters, and Complex Systems”

About My Master’s Thesis

Almost all the studies about cancers are based on finding effective genes for each cancer and neglecting the collective behavior of the genes emerged from the regulatory effects of them on each other in a cell. In our study, we have considered each gene as a spin in a spin-glass (multivariate Gaussian) model and the gene-gene interaction as the coupling between each pair of the spins. By applying the principle of max. entropy, we have inferred the network of interactions from RNA-Seq data of genes expression levels in the case of Breast Cancer. This network is a signed weighted network, so according to the framework of Balance Theory, we could assign energy to the triads and the entire network.

Our results show that (i) for each type of triads in the network, whether frustrated or relaxed, their energy distributions are of a power-law form. Besides, (ii) the energy pattern in the normal case is more localized and more assortative. (iii) The energy level of the normal network is higher than the cancerous one, meaning the normal cell has more tendency toward frustration. From a dynamical point of view, it seems that there are some collective modes in the cancerous cell which we are interested to study in the future.

TALKS, SEMINARS & WORKSHOPS

TEACHING & SCIENTIFIC EXPERIENCES

  • Physics of Complex Systems TA – Shahid Beheshti University (SBU)- Spring  2018, SBU, Tehran, Iran
  • Statistical Mechanics TA- Shahid Beheshti University (SBU)- Fall 2017,  SBU, Tehran, Iran
  • Physics III TA – Shahid Beheshti University (SBU)- Winter 2016- Spring 2017,  SBU, Tehran, Iran
  • Juror – 8th Persian Young Physicists Tournament – 2015,  Kharazmi University, Tehran, Iran
  • Physics III TA – Shahid Beheshti University (SBU)- 2013 – 2014,  SBU, Tehran, Iran
  • Physics Teacher – Allameh Tabataba’i High School: – 2013 – 2014, Tehran, Iran
  • Juror of Science and Technology Program – Allameh Helli High School (National Organization for Development of Exceptional Talents): – 2013-Present, Tehran, Iran

SCIENCE COMMUNICATION & OUTREACH, MAGAZINES & WEBSITES

“Sitpor.org”: Science Writer and Journalist, 2013 – Present

“RadioPhysics.ir”: Audio Physics Podcasts, 2015- Present

@ Shahid Beheshti University (SBU):

  • Quanta Magazine:  Science Writer 2014- 2017
  • Salam Magazine: Popular Science Writer 2015 – Present, SBU, Tehran, Iran

Supergroups and Channels in Telegram: