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Adittya Chaudhuri (Jun 16 2026 at 14:17):I am excited to share that our submission, Emergent Feedback Loops from Crosstalk in Directed Labeled Graphs, based on our paper Motifs and Emergent Feedback in Labeled Graphs, joint work with @John Baez has been accepted for an in-person oral presentation at the Conference on Complex Systems (CCS 2026) — https://ccs26.cssociety.org.
Excited to present this work and engage with the complex systems community at CCS 2026!
Submitted abstract is attached:
CCS2026-Chaudhuri_Adittya.pdf
Adittya Chaudhuri (Aug 27 2026 at 19:26):Happy to share that my paper, Parallel transport on a Lie 2-group bundle over a Lie groupoid along Haefliger paths, j/w with my PhD supervisor Dr Saikat Chatterjee, has just been accepted for publication in the journal Applied Categorical Structures.
With this work, I am happy to share that all of my PhD work is now published!
I will soon update the arXiv version with the new revised accepted version.
New abstract of the accepted version:
Incorporating the cartesian morphism lifting property from the theory of fibered categories with the horizontal path lifting property of differential geometric connection structures, we develop a theory of parallel transport on principal Lie 2-group bundles over Lie groupoids along certain class of Haefliger paths on base Lie groupoids. We establish thin homotopy invariance and extend our theory to the framework of VB-groupoids through associated bundle construction. Throughout the paper, our results are rooted in the Grothendieck's correspondence between fibered categories and pseudofunctors.
Adittya Chaudhuri (Sep 14 2026 at 12:16):I am delighted to share that my paper A mathematical framework to study organising principles in graphical representations of biochemical processes (j/w Ralf Köhl and Olaf Wolkenhauer) has just been accepted for publication in Compositionality.
I will upload an updated version containing the referees suggestions to be added before the publication to the arXiv soon.
Following is the abstract of our paper:
The complexity of molecular and cellular processes forces experimental studies to focus
on subsystems. To study the functioning of biological systems across levels of structural
and functional organisation, we require tools to compose and organise networks with
different levels of detail and abstraction. Systems Biology Graphical Notation (SBGN)
is a standardised notational system that visualises biochemical processes as networks.
Despite their widespread adoption, SBGN languages remain purely visual and lack an
underlying mathematical framework, limiting their compositional analysis, abstraction,
and integration with formal modelling approaches. SBGN comprises three complemen-
tary visual languages—Process Description (SBGN-PD), Activity Flow (SBGN-AF),
and Entity Relationship (SBGN-ER)-each operating at a different level of abstraction.
In this manuscript, we introduce a category-theoretic formalism for SBGN-PD, a vi-
sual language to describe biochemical processes as biochemical reaction networks. Using
the theory of structured cospans, we construct a symmetric monoidal double category
whose horizontal 1-morphisms correspond to SBGN-PD diagrams. We also analyse how
a designated subnetwork influences the surrounding network and how external entities,
in turn, affect the internal reactions of the subnetwork. Our work addresses a key gap
between biological visualisation and mathematical structure. It provides precise organ-
ising principles for SBGN-PD, including compositionality, enabling the construction of
large biochemical reaction networks from smaller ones, and zooming out, allowing the
abstraction of detailed biochemical mechanisms while preserving their functional in-
terfaces. Throughout the paper, the proposed framework is illustrated using standard
SBGN-PD examples, demonstrating its applicability to large-scale biochemical reaction
networks.
Adittya Chaudhuri (Sep 25 2026 at 19:38):Today, I gave a talk on some parts of my paper with @John Baez as a part of an internal weekly Mathematical Biology seminar series organized by Claus Kadelka at his department. I am attaching the slides of my todays talk.
Math-Bio-Emergent-Feedback-loop.pdf.