From Bachelor to future

整理了从本科到研究生（目前）的学习内容，相关资源与研究进展，包括但不仅限于，[BS]物联网工程，[MS]计算机技术，python，mooc资源，机器学习，深度学习，cryo-em[冷冻电子显微镜]，3D reconstruction[三维重建]，Computational Vison。

目录

• 版权问题
• 联系与Feedback
• Contents

版权问题

总体上采用 Creative Commons BY-NC-SA 4.0 International License, 同时遵守具体的某个创作的协议. 如有冲突, 以作品本本身的协议为准.

• 对于贡献者, 请遵守如上约定, 尊重创作者的劳动成果, 有来源的需要注明资源的来源(原创者, 网址等等).
• 对于创作者, 如果我们遗漏了你的授权(有些资源无法找到来源)或者损害了你的权益, 对此感到抱歉, 请联系协商或者删除.

联系与Feedback

• issue
• email

Contents

• MOOC
  • Platform
  • CS-COURSE
  • Additional-Courses
• Python
  • Beijing-Institute-of-Technology
  • University-of-MICHIGAN
• Artificial-Intelligence
  • Hardware-Environment-deploy
  • Machine-learning
  • DeepLearning
  • TensorFlow
• Cryo-em
  • Software
  • Papers-Tutorial
  • Lab
  • Related
• Computer-Vision
  • Courses
  • Lab

MOOC

As a beginner,utilize a high efficient platform for self-study is a key step for further improvement.MOOC(Massive Open Online Courses) is a good choice.

Platform

For University

• edx

• coursera

• xuetangx

• 中国大学mooc

For Career Promotion

-Udacity

-网易云课堂

对于CS专业，强烈推荐以下基础课，并附上MOOC网址(亲测）

CS-COURSE

Additional-Courses(补充）

Python

Beijing Institute of Technology

Python数据分析与展示

Python网络爬虫与信息提取

Python云端系统开发入门

Python游戏开发入门

Python机器学习应用

Python科学计算三维可视化

Python语言程序设计

University of MICHIGAN

• Programming for Everybody (Getting Started with Python)
• Python Data Structures
• Using Databases with Python
• Using Python to Access Web Data

Courses

Resource material

University of Michigan that use Python:

• EECS/SI 182 - Building Applications for Information Environments
• SI 502 - Networked Computing: Storage, Communication, and Processing
• SI 539 - Design of Complex Web Sites.

Artificial Intelligence

Hardware Environment-deploy

Recommend Blog ----- A Full Hardware Guide to Deep Learning

Machine Learning

DeepLearning

TensorFlow

Cryo-em

Intro

REVIEW-Single-particle cryo-EM—How did it get here and where will it go -Yifan Cheng

Software

1. Relion

• REgularised LIkelihood OptimisatioN
• Download
• Author-Sjors Scheres
• Lab Visualising molecular machines

2. EMAN2.22

3. CryoSPARC

   • the state-of-the-art platform used globally for obtaining 3D structural information from single particle cryo-EM data.
   • stochastic gradient descent (SGD)
   • branch-and-bound maximum likelihood optimization algorithms

4. UCSF

   • visualization and analysis of molecular structures

5. THUNDER

• A particle-filter framework for robust cryoEM 3D reconstruction

6. SIMPLE

• Single-particle IMage Processing Linux Engine is a program package for cryo-EM image processing, focusing on ab initio 3D reconstruction of low-symmetry single-particles.

7. PHENIX

• Python-based Hierarchical ENvironment for Integrated Xtallography
• a software suite for the automated determination of molecular structures using X-ray crystallography and other methods.

Papers & Tutorial

1. CVPR 2015 paper "Building Proteins in a Day" Source Code
2. New tools for automated high-resolution cryo-EM structure determination in RELION-3 eLife 7:e42166, bioRxiv 421123
3. "Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2"eLife 5:e18722, bioRxiv 059717
4. "RELION: Implementation of a Bayesian approach to cryo-EM structure determination" J. Struc. Biol. 180, 519-530.
5. cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination Nature Methods 14, 290-296 (2017)
6. A particle-filter framework for robust cryo-EM 3D reconstruction,Nature Methods volume 15, pages1083–1089 (2018)

Lab

1. MRC-LMB

• The MRC Laboratory of Molecular Biology (LMB) is a research institute dedicated to the understanding of important biological processes at the levels of atoms, molecules, cells and organisms.

2. STAN(https://cryoem.slac.stanford.edu/)
3. The Intel® Parallel Computing Center for Structural Biology

• Intel® PCCSB is an innovation-oriented research center hosted at Dana-Farber Cancer Institute DFCI and Harvard Medical School HMS. Laboratory for Cryo-Electron Microscopy

4. Cambridge Institute for Medical Research
5. Paul D. Adams
6. (http://kinemage.biochem.duke.edu/)
7. Thomas C. Terwilliger

• Laboratory Fellow, Los Alamos National Laboratory

8. Structural Medicine

• part of the Department of Haematology in the University of Cambridge and the Cambridge Institute for Medical Research (CIMR)

Related

1. EM-course
2. vedio

• relion workshop

3. AlphaFold: Using AI for scientific discovery

• apply cutting-edge techniques to predict the 3D structure of a protein based solely on its genetic sequence.

4. MODEL-Scientific data visualization

Computer-Vision

Courses

https://web.stanford.edu/class/cs231a/

Lab

1. Stanford CVGL
2. Stanford Vision Lab
3. Caltech Computational Vision

Outlook

Due to the future plan,i decide not to keep this track for phd.