paper reading list

Connectome

connectome dataset

technology of connectome

connection reconsturction

connectome analysis

connectome and gene

review

computational methods

experimental test

data:

other methods to reconstruct connectome

human connectome

Neocortical projection neurons
alt text|80

experiment support

cell-cell communication and interaction

protein interaction

experiment support

deep learning methods

result verification

alt text|30%

data mapping between transcriptome and connectome

neural type

morphology

maximum weighted independent set (MWIS)

Graph compression or sparsification

Maximum Dispersion

Maximum Diversity Problem (MDP)

connectome visualization

human connectome

gene data

nature neuroscience review 2024

gene data for Drosophila

analysis

logical gene for connectome

gene regulatory network

 Gene pairs  scCOPs ¬ scCOPs  bulkCOPs 3132993¬ bulkCOPs 3245232603\begin{array}{|c|c|c|} \hline \text { Gene pairs } & \text { scCOPs } & \neg \text { scCOPs } \\ \hline \text { bulkCOPs } & 313 & 2993 \\ \hline \neg \text { bulkCOPs } & 3245 & 232603 \\ \hline \end{array}

review paper

sota models

application

gene normalization

Spiking neural network

functional and structure conenctome

other connectome model:

Modelling brain connectomes networks: Solv is a worthy competitor to hyperbolic geometry! https://openreview.net/forum?id=dqWobzlAGb

graph

https://paperswithcode.com/task/link-prediction

review

Graph Embedding

review

disease gene

dynamics system & Ripple

connectome inspired neural network
html connectome inspired neural network

single neuron dynamics

Models constrained only by BAC firing may fail to respond properly to perisomatic step current.

HH model

Hodgkin & Huxley 1952

LIF

synapse

tool

review

other

olfactory system

NeuroAI

Connectome & ANN

connectome inspired neural network
html connectome inspired neural network

geometry

Brain simulation / activity prediction

model

Network analysis

BOOK Fundamentals of Brain Network Analysis

BOOK Chapter 3 - Connectivity Matrices and Brain Graphs

Review Neural Networks With Motivation

synapse plasticity

STDP

nearest neighbor STDP (Izhikevich, 2003)

neural data recording

whole brain imaging

drosophila data

other data

cell tracking

wormid

neural data analysis

reivew

high dimensional data

dimensional reduction

Phate: - Visualizing structure and transitions in high-dimensional biological data Phate

manifold reconstriction

activity analysis

encoding and decoding

deep learning method

fundation model

?

diffusion model/ visual Stimulus

behavior

oscilation

place cell and grid cell

vision

drosophila

others

hippocamus

gene

p(yQ,f)e12fMf+yQfp(\mathbf{y} \mid Q, \mathbf{f}) \propto e^{-\frac{1}{2} \mathbf{f}^{\prime} \mathbf{M f}+\mathbf{y}^{\prime} Q \mathbf{f}}

cognition

attention

learning and memory

decision making

DS & OR

Quadratic assignment problem

similarity matrix

ML

NAS

CNN kernel

Clustering convolutional kernels

sparse decoding

UFLDL Tutorial

others

wiki

TODO