awesomenetworkembedding
Also called network representation learning, graph embedding, knowledge embedding, etc.
The task is to learn the representations of the vertices from a given network.
CALL FOR HELP: I'm planning to reorganize the papers with clear classification index in the near future. Please feel free to submit a commit if you find any interesting related work:)
Paper References with the implementation(s)

GraphGym
 A platform for designing and evaluating Graph Neural Networks (GNN), NeurIPS 2020
 [Paper]
 [Python]

FEATHER

HeGAN
 Adversarial Learning on Heterogeneous Information Networks, KDD 2019
 [Paper]
 [Python]

NetMF

GL2Vec

NNSED

SymmNMF

RECT
 Network Embedding with CompletelyImbalanced Labels, TKDE 2020
 [Paper]
 [Python]

GEMSEC

AmpliGraph
 Library for learning knowledge graph embeddings with TensorFlow
 [Project]
 [code]

jodie
 Predicting Dynamic Embedding Trajectory in Temporal Interaction Networks, KDD'19
 [Project]
 [Code]

PyTorchBigGraph
 PytorchBigGraph  a distributed system for learning graph embeddings for large graphs, SysML'19
 [github]

ATP
 ATP: Directed Graph Embedding with Asymmetric Transitivity Preservation, AAAI'19
 [paper]
 [code]

MUSAE

SEALCI

NGCN and MixHop

CapsGNN

Splitter

REGAL
 REGAL: Representation Learningbased Graph Alignment. International Conference on Information and Knowledge Management, CIKM'18
 [arxiv]
 [paper]
 [code]

PyTorch Geometric

TuckER

HypER

GWNN

APPNP

role2vec

AttentionWalk

GAT

SINE

SGCN

TENE

DANMF

BANE

GCN Insights
 Deeper Insights into Graph Convolutional Networks for SemiSupervised Learning, AAAI'18
 [Project]
 [code]

PCTADW
 Learning Embeddings of Directed Networks with TextAssociated Nodeswith Applications in Software Package Dependency Networks
 [paper]
 [Python]
 [dataset]

LGCN
 LargeScale Learnable Graph Convolutional Networks, KDD'18
 [paper]
 [Python]

AspEm
 AspEm: Embedding Learning by Aspects in Heterogeneous Information Networks
 [paper]
 [Python]

Walklets

gat2vec

FSCNMF

SIDE

AWE

BiNE

HOPE

VERSE
 VERSE, Versatile Graph Embeddings from Similarity Measures

[Arxiv] [[WWW 2018]]
 [Python]

AGNN

SEANO
 Semisupervised Embedding in Attributed Networks with Outliers

[Paper] (SDM 2018)
 [Python]

Hyperbolics

DGCNN

structure2vec
 Discriminative Embeddings of Latent Variable Models for Structured Data
 [Arxiv]
 [Python]

Decagon

DHNE

Ohmnet

SDNE

STWalk
 STWalk: Learning Trajectory Representations in Temporal Graphs]
 [Arxiv]
 [Python]

LoNGAE

RSDNE

FastGCN

diff2vec

Poincare

PEUNE

ASNE

GraphWave

StarSpace

proNetcore
 VertexContext Sampling for Weighted Network Embedding, arxiv'17

[arxiv] [code]

struc2vec

ComE
 Learning Community Embedding with Community Detection and Node Embedding on Graphs, CIKM'17
 [Python]

BoostedNE

MNMF

GraphSAGE

ICE

GuidedHeteEmbedding
 Taskguided and pathaugmented heterogeneous network embedding for author identification, WSDM'17

[paper] [code]

metapath2vec

GCN

GAE

CANE
 CANE: ContextAware Network Embedding for Relation Modeling, ACL'17

[paper] [Python]

TransNet
 TransNet: TranslationBased Network Representation Learning for Social Relation Extraction, IJCAI'17
 [Python Tensorflow]

cnn_graph
 Convolutional Neural Networks on Graphs with Fast Localized Spectral Filtering, NIPS'16
 [Python]

ConvE

node2vec

DNGR

HolE

ComplEx

MMDW
 MaxMargin DeepWalk: Discriminative Learning of Network Representation, IJCAI'16

[paper] [Java]

planetoid
 Revisiting Semisupervised Learning with Graph Embeddings, ICML'16

[arxiv] [Python]

graph2vec

PowerWalk

LINE

PTE

GraRep

KB2E

TADW

DeepWalk

GEM
 Graph Embedding Techniques, Applications, and Performance: A Survey

[arxiv] [Python]

DNESBP
 Deep Network Embedding for Graph Representation Learning in Signed Networks

[paper] [Code]
Paper References
A Comprehensive Survey on Graph Neural Networks, arxiv'19
Hierarchical Graph Representation Learning with Differentiable Pooling, NIPS'18
SEMAC, Link Prediction via Subgraph EmbeddingBased Convex Matrix Completion, AAAI 2018, Slides
MILE, MILE: A MultiLevel Framework for Scalable Graph Embedding, arxiv'18
MetaGraph2Vec, MetaGraph2Vec: Complex Semantic Path Augmented Heterogeneous Network Embedding
PinSAGE, Graph Convolutional Neural Networks for WebScale Recommender Systems
Curriculum Learning for Heterogeneous Star Network Embedding via Deep Reinforcement Learning, WSDM '18
Adversarial Network Embedding, arxiv
Role2Vec, Learning Rolebased Graph Embeddings
edge2vec, Feature Propagation on Graph: A New Perspective to Graph Representation
Learning
MINES, MultiDimensional Network Embedding with Hierarchical Structure
WalkSteered Convolution for Graph Classification
Deep Feature Learning for Graphs, arxiv'17
Fast Linear Model for Knowledge Graph Embeddings, arxiv'17
Network Embedding as Matrix Factorization: Unifying DeepWalk, LINE, PTE, and node2vec, arxiv'17
A Comprehensive Survey of Graph Embedding: Problems, Techniques and Applications, arxiv'17
Representation Learning on Graphs: Methods and Applications, IEEE DEB'17
CONE, CONE: Community Oriented Network Embedding, arxiv'17
LANE,
Label Informed Attributed Network Embedding, WSDM'17
Graph2Gauss,
Deep Gaussian Embedding of Attributed Graphs: Unsupervised Inductive Learning via Ranking, arxiv
[Bonus Animation]
Scalable Graph Embedding for Asymmetric Proximity, AAAI'17
Querybased Music Recommendations via Preference Embedding, RecSys'16
Triparty deep network representation, IJCAI'16
Heterogeneous Network Embedding via Deep Architectures, KDD'15
Neural Word Embedding As Implicit Matrix Factorization, NIPS'14
Distributed largescale natural graph factorization, WWW'13
From Node Embedding To Community Embedding, arxiv
Walklets: Multiscale Graph Embeddings for Interpretable Network Classification, arxiv
Comprehend DeepWalk as Matrix Factorization, arxiv
Conference & Workshop
Graph Neural Networks for Natural Language Processing, EMNLP'19
SMORe : Modularize Graph Embedding for Recommendation, RecSys'19
13th International Workshop on Mining and Learning with Graphs, MLG'17
WWW18 Tutorial Representation Learning on Networks, WWW'18
Related List
awesomegraphclassification
awesomecommunitydetection
awesomeembeddingmodels
Mustread papers on network representation learning (NRL) / network embedding (NE)
Mustread papers on knowledge representation learning (KRL) / knowledge embedding (KE)
Network Embedding Resources
awesomeembeddingmodels
2vectype embedding models
Mustread papers on GNN
LiteratureDL4Graph
awesomegraphclassification
Related Project
Stanford Network Analysis Project website
StellarGraph Machine Learning Library website GitHub