# AI with Advanced Math helps in discovering new drugs

https://theconversation.com/i-build-mathematical-programs-that-could-discover-the-drugs-of-the-future-110689?from=timeline Advanced Mathematical Methods with AI is a powerful tool:

• Algebraic Topology (Persistent Homology)
• Differential Geometry
• Graph Theory

https://sinews.siam.org/Details-Page/mathematical-molecular-bioscience-and-biophysics-1 # 代 数拓扑 Algebraic Topology (Part 1/3)

Excellent Advanced Math Lecture Series (Part 1 to 3) by 齊震宇老師

（2012.09.10) Part I:

History: 1900 H. Poincaré invented Topology from Euler Characteristic (V -E + R = 2)

Motivation of Algebraic Topology : Find Invariants of various topological spaces (in higher dimension). 求拓扑空间的“不变量” eg.

• Vector Space (to + – , × ÷ by multiplier Field scalars);
• Ring (to + x) in co-homology
• etc.

then apply algebra (Linear Algebra, Matrices) with computer to compute these invariants  (homology, co-homology, etc).  A topological space can be formed by a “Big Data” Point Set, e.g. genes, tumors, drugs, images, graphics, etc. By finding (co)- / homology – hence the intuitive Chinese term (上) /同调  – is to find “holes” in the Big Data in the 10,000 (e.g.) dimensional space the hidden information (co-relationship, patterns, etc).
Note:  Analogy of an”Invariant” in Population: eg. “Age” is an invariant can be added in the “Population Space” as the average age of the citizens.

Side Reading (Very Clear) : Invariant and the Fundamental Group Primer

Note : Homology 同调 = same “tune”.

“谁谓古今殊，异代可同调

(希腊 homo = 同, -logy = 知识 / 调)

– “Reading an ancient text  allows us to think “in tune” (or resonant) with the ancient author.”

[温习] Category Theory Foundation – 3 important concepts:

• Categories
• Functors
• Natural Transformation

[Skip if you are familiar with Category Theory Basics: Video 16:30 mins to 66:00 mins.]

[主题] Singular Homology Groups 奇异同调群  (See excellent writeup in Wikipedia) (Video 66:20 mins to end)

1. Singular Simplices 奇异 单纯
2. Singular Chain Groups 奇异 链 群
3. Boundary Operation 边界
4. Singular Chain Complex 奇异 单纯复形
5.  Part 1/3 Video (Whole) :

# Simplicial Homology 单纯同调

Continued from Computational Topology (1 ~4):

MATH 496/696 2016/02/10 Lecture

Homology from another angle: $\displaystyle H_{k}$ = coKernel $(m)$ ○ kernel $(d_{k}) \:$ ${(C_{k})}$ Simplicial Homology:

1. Define Chain Space C•(X)
2. Define Boundary Map d•
3. Define Simplicial Chain Complex (C•(X), d•) # Homotopy 同伦 & Fundamental Groups

NJ Wildberger AlgTop24: The fundamental group Homotopy 同伦: When playing skip rope, the 2 ends of the rope are held by 2 persons while a 3rd person jumping over the “swings of rope” – these swings at any instant are  homotopic.  Fundamental Group of Surface $\pi (M; \alpha)$

Fundamental Group of Torus $\pi (T) = Z.Z$

Fundamental Group of Projective Plane (Torsion ) $\pi (P) =Z_{2}$

# Darcy Lecture 5 ~ 9: Applied Algebraic Topology

Lecture 5: 4/9/2013 (三)  Clustering Via Persistent Homology

Lecture 7: 6/9/2013 (五) Calculating Homology using matrix

Lecture 8: Column Space and Null Space of a matrix

Lecture 9: 9/9/2013 (一)  Create your own Homology: (Important lecture in Applied Algebraic Topology)

# Circle in Different Representations

1-Dimensional Objects:
Affine Line: ${\mathbb {A}^1}$
Circle: ${\mathbb {S}^1}$

Six Representations of a Circle: ${\mathbb {S}^1}$
1) Euclidean Geometry (O-level Math)
Unit Circle : $x^2 + y^2 = 1$

2) Curve: (A-level Math)
Transcendental Parameterization : $\boxed { e(\theta) = (\cos \theta, \sin \theta) \qquad 0 \leq \theta \leq 2\pi }$

Rational Parameterisation : $\boxed { e(h) = \left(\frac {1-h^2} {1+h^2} \: , \: \frac {2h} {1+h^2}\right) \quad \text { h any number or } \infty }$

3) Affine Plane (French Baccalaureate – equivalent A-level – Math) ${\mathbb {A}^2}$
1-Dim Sub-spaces = Projective Lines thru’ Origin 5) Identifying Intervals: (closed loop) (Undergraduate Math) 6) $\text {Translation } (\tau, {\tau}^{-1}) \text { on a Line }$ ${\mathbb {A}^1}$

[Using Quotient Group Notation]: $\boxed { {\mathbb {S}^1} \simeq {\mathbb {A}^1 } \Big/ { \langle \tau , {\tau}^{-1} \rangle} }$ ${\mathbb {S}^1} = \text { Space of all orbits}$

Question:
Are Circle and Line the same 1-dimensional object, i.e. are they Homeomorphic (同胚) in Topology ?

Answer: To be continued in the next blog “Homeomorphism

# Algebraic Topology 代数拓扑与孙悟空72变

How to turn a doughnut to a coffee mug ? They are the ‘same’ (homeomorphic 同胚) when the former is deformed continously into the later (the hole in doughnut becomes the cup’s handle).  Algebraic Topology: using algebra (eg. Group Theory) to study geometrical shapes.

Difference between Algebraic Topology and Algebraic Geometry (see the previous blog):

AlgTop1: One-dimensional objects: http://youtu.be/oYFZaqArf54

AlgTop2: Homeomorphism and the group structure on…: http://youtu.be/R_gDV17X7pc

AlgTop3: Two-dimensional surfaces: the sphere: http://youtu.be/tv0XlHfX9r0

AlgTop4: More on the sphere: http://youtu.be/GQ0torqFx8Y

AlgTop5: Two-dimensional objects- the torus and g…: http://youtu.be/4U9XzZjxMFI

AlgTop6: Non-orientable surfaces—the Mobius band: http://youtu.be/vlcdqPWg34k

AlgTop7: The Klein bottle and projective plane: http://youtu.be/ibg5KiG46nk

AlgTop8: Polyhedra and Euler’s formula: http://youtu.be/IY1VyUb44yE

AlgTop9: Applications of Euler’s formula and grap…: http://youtu.be/WxXg49jLkWc

AlgTop10: More on graphs and Euler’s formula: http://youtu.be/AfSBSucXFDM