A citation-based method for searching scientific literature

Md Amir Hossain, Guilai Liu, Beiying Dai, Yaxuan Si, Qitao Yang, Junaid Wazir, Lutz Birnbaumer, Yong Yang. Med Res Rev 2021
Times Cited: 10







List of co-cited articles
9 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


clusterProfiler: an R package for comparing biological themes among gene clusters.
Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He. OMICS 2012
20

STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets.
Damian Szklarczyk, Annika L Gable, David Lyon, Alexander Junge, Stefan Wyder, Jaime Huerta-Cepas, Milan Simonovic, Nadezhda T Doncheva, John H Morris, Peer Bork,[...]. Nucleic Acids Res 2019
20

The updated landscape of tumor microenvironment and drug repurposing.
Ming-Zhu Jin, Wei-Lin Jin. Signal Transduct Target Ther 2020
94
20

Tumor Microenvironment in Ovarian Cancer: Function and Therapeutic Strategy.
Yanfei Yang, Yang Yang, Jing Yang, Xia Zhao, Xiawei Wei. Front Cell Dev Biol 2020
21
20

Tumor-Infiltrating Regulatory T-cell Accumulation in the Tumor Microenvironment Is Mediated by IL33/ST2 Signaling.
Jimin Son, Jae-Won Cho, Hyo Jin Park, Jihyun Moon, Seyeon Park, Hoyoung Lee, Jeewon Lee, Gamin Kim, Su-Myeong Park, Sergio A Lira,[...]. Cancer Immunol Res 2020
7
28

Global cancer statistics 2018: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries.
Freddie Bray, Jacques Ferlay, Isabelle Soerjomataram, Rebecca L Siegel, Lindsey A Torre, Ahmedin Jemal. CA Cancer J Clin 2018
20

The immune contexture and Immunoscore in cancer prognosis and therapeutic efficacy.
Daniela Bruni, Helen K Angell, Jérôme Galon. Nat Rev Cancer 2020
167
20

The PD-1 expression balance between effector and regulatory T cells predicts the clinical efficacy of PD-1 blockade therapies.
Shogo Kumagai, Yosuke Togashi, Takahiro Kamada, Eri Sugiyama, Hitomi Nishinakamura, Yoshiko Takeuchi, Kochin Vitaly, Kota Itahashi, Yuka Maeda, Shigeyuki Matsui,[...]. Nat Immunol 2020
91
20

Global characterization of T cells in non-small-cell lung cancer by single-cell sequencing.
Xinyi Guo, Yuanyuan Zhang, Liangtao Zheng, Chunhong Zheng, Jintao Song, Qiming Zhang, Boxi Kang, Zhouzerui Liu, Liang Jin, Rui Xing,[...]. Nat Med 2018
380
20

Gene ontology analysis for RNA-seq: accounting for selection bias.
Matthew D Young, Matthew J Wakefield, Gordon K Smyth, Alicia Oshlack. Genome Biol 2010
10

INMEX--a web-based tool for integrative meta-analysis of expression data.
Jianguo Xia, Christopher D Fjell, Matthew L Mayer, Olga M Pena, David S Wishart, Robert E W Hancock. Nucleic Acids Res 2013
103
10

Staphylococcal Superantigen-Like Protein 1 and 5 (SSL1 & SSL5) Limit Neutrophil Chemotaxis and Migration through MMP-Inhibition.
Kirsten J Koymans, Adinda Bisschop, Mignon M Vughs, Kok P M van Kessel, Carla J C de Haas, Jos A G van Strijp. Int J Mol Sci 2016
20
10


ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks.
Gabriela Bindea, Bernhard Mlecnik, Hubert Hackl, Pornpimol Charoentong, Marie Tosolini, Amos Kirilovsky, Wolf-Herman Fridman, Franck Pagès, Zlatko Trajanoski, Jérôme Galon. Bioinformatics 2009
10

TIMER: A Web Server for Comprehensive Analysis of Tumor-Infiltrating Immune Cells.
Taiwen Li, Jingyu Fan, Binbin Wang, Nicole Traugh, Qianming Chen, Jun S Liu, Bo Li, X Shirley Liu. Cancer Res 2017
10

MMP-9-cleaved osteopontin isoform mediates tumor immune escape by inducing expansion of myeloid-derived suppressor cells.
Lijuan Shao, Bo Zhang, Lingxiong Wang, Liangliang Wu, Quancheng Kan, Kexing Fan. Biochem Biophys Res Commun 2017
19
10

INVEX--a web-based tool for integrative visualization of expression data.
Jianguo Xia, Ngan H Lyle, Matthew L Mayer, Olga M Pena, Robert E W Hancock. Bioinformatics 2013
33
10

Recent advances in tumor microenvironment associated therapeutic strategies and evaluation models.
Tanweer Haider, Kamalpreet Kaur Sandha, Vandana Soni, Prem N Gupta. Mater Sci Eng C Mater Biol Appl 2020
9
11

An immune checkpoint score system for prognostic evaluation and adjuvant chemotherapy selection in gastric cancer.
Jia-Bin Wang, Ping Li, Xiao-Long Liu, Qiao-Ling Zheng, Yu-Bin Ma, Ya-Jun Zhao, Jian-Wei Xie, Jian-Xian Lin, Jun Lu, Qi-Yue Chen,[...]. Nat Commun 2020
9
11

The Role of Cancer-Associated Fibroblasts and Fibrosis in Liver Cancer.
Silvia Affo, Le-Xing Yu, Robert F Schwabe. Annu Rev Pathol 2017
216
10

Biology and significance of alpha-fetoprotein in hepatocellular carcinoma.
Peter R Galle, Friedrich Foerster, Masatoshi Kudo, Stephen L Chan, Josep M Llovet, Shukui Qin, William R Schelman, Sudhakar Chintharlapalli, Paolo B Abada, Morris Sherman,[...]. Liver Int 2019
81
10

Matrix metalloproteinases: regulators of the tumor microenvironment.
Kai Kessenbrock, Vicki Plaks, Zena Werb. Cell 2010
10


Development and clinical validation of a novel 9-gene prognostic model based on multi-omics in pancreatic adenocarcinoma.
Dafeng Xu, Yu Wang, Xiangmei Liu, Kailun Zhou, Jincai Wu, Jiacheng Chen, Cheng Chen, Liang Chen, Jinfang Zheng. Pharmacol Res 2021
7
14

Current perspectives on the immunosuppressive tumor microenvironment in hepatocellular carcinoma: challenges and opportunities.
Chen Lu, Dawei Rong, Betty Zhang, Wubin Zheng, Xuehao Wang, Ziyi Chen, Weiwei Tang. Mol Cancer 2019
89
10

A global view of hepatocellular carcinoma: trends, risk, prevention and management.
Ju Dong Yang, Pierre Hainaut, Gregory J Gores, Amina Amadou, Amelie Plymoth, Lewis R Roberts. Nat Rev Gastroenterol Hepatol 2019
871
10

Feedback regulation of ALDOA activates the HIF-1α/MMP9 axis to promote lung cancer progression.
Yu-Chan Chang, Yung-Chieh Chan, Wei-Ming Chang, Yuan-Feng Lin, Chih-Jen Yang, Chia-Yi Su, Ming-Shyan Huang, Alexander T H Wu, Michael Hsiao. Cancer Lett 2017
39
10

Adipose Progenitor Cell Secretion of GM-CSF and MMP9 Promotes a Stromal and Immunological Microenvironment That Supports Breast Cancer Progression.
Francesca Reggiani, Valentina Labanca, Patrizia Mancuso, Cristina Rabascio, Giovanna Talarico, Stefania Orecchioni, Andrea Manconi, Francesco Bertolini. Cancer Res 2017
33
10

Regularization Paths for Generalized Linear Models via Coordinate Descent.
Jerome Friedman, Trevor Hastie, Rob Tibshirani. J Stat Softw 2010
10

TISIDB: an integrated repository portal for tumor-immune system interactions.
Beibei Ru, Ching Ngar Wong, Yin Tong, Jia Yi Zhong, Sophia Shek Wa Zhong, Wai Chung Wu, Ka Chi Chu, Choi Yiu Wong, Chit Ying Lau, Ian Chen,[...]. Bioinformatics 2019
263
10

Expression of matrix metalloproteinase-9 in predicting prognosis of hepatocellular carcinoma after liver transplantation.
Deniz Nart, Banu Yaman, Funda Yilmaz, Murat Zeytunlu, Zeki Karasu, Murat Kiliç. Liver Transpl 2010
51
10


Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S Baliga, Jonathan T Wang, Daniel Ramage, Nada Amin, Benno Schwikowski, Trey Ideker. Genome Res 2003
10

Using ggtree to Visualize Data on Tree-Like Structures.
Guangchuang Yu. Curr Protoc Bioinformatics 2020
138
10

NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis.
Guangyan Zhou, Othman Soufan, Jessica Ewald, Robert E W Hancock, Niladri Basu, Jianguo Xia. Nucleic Acids Res 2019
325
10

Heterogeneity of cancer-associated fibroblasts and roles in the progression, prognosis, and therapy of hepatocellular carcinoma.
Zeli Yin, Chengyong Dong, Keqiu Jiang, Zhe Xu, Rui Li, Kun Guo, Shujuan Shao, Liming Wang. J Hematol Oncol 2019
44
10

Inferring tumour purity and stromal and immune cell admixture from expression data.
Kosuke Yoshihara, Maria Shahmoradgoli, Emmanuel Martínez, Rahulsimham Vegesna, Hoon Kim, Wandaliz Torres-Garcia, Victor Treviño, Hui Shen, Peter W Laird, Douglas A Levine,[...]. Nat Commun 2013
10

Knockdown of alpha-fetoprotein expression inhibits HepG2 cell growth and induces apoptosis.
Xiaojun Yang, Lin Chen, Yuhe Liang, Ruohuang Si, Zebin Jiang, Bingqiang Ma, Peng Gao. J Cancer Res Ther 2018
7
14

Applications of nonlinear system identification in molecular biology.
Michael J Korenberg. Conf Proc IEEE Eng Med Biol Soc 2006
1
100

Mechanisms of T-Cell Exhaustion in Pancreatic Cancer.
Didem Saka, Muazzez Gökalp, Betül Piyade, Nedim Can Cevik, Elif Arik Sever, Derya Unutmaz, Güralp O Ceyhan, Ihsan Ekin Demir, Hande Asimgil. Cancers (Basel) 2020
22
10

Evidence-Based Diagnosis, Staging, and Treatment of Patients With Hepatocellular Carcinoma.
Jordi Bruix, Maria Reig, Morris Sherman. Gastroenterology 2016
881
10

jvenn: an interactive Venn diagram viewer.
Philippe Bardou, Jérôme Mariette, Frédéric Escudié, Christophe Djemiel, Christophe Klopp. BMC Bioinformatics 2014
521
10

Genome-Scale Signatures of Gene Interaction from Compound Screens Predict Clinical Efficacy of Targeted Cancer Therapies.
Peng Jiang, Winston Lee, Xujuan Li, Carl Johnson, Jun S Liu, Myles Brown, Jon Christopher Aster, X Shirley Liu. Cell Syst 2018
19
10

TIMER2.0 for analysis of tumor-infiltrating immune cells.
Taiwen Li, Jingxin Fu, Zexian Zeng, David Cohen, Jing Li, Qianming Chen, Bo Li, X Shirley Liu. Nucleic Acids Res 2020
422
10

Multi-omics Data Analyses Construct TME and Identify the Immune-Related Prognosis Signatures in Human LUAD.
Yuwei Zhang, Minglei Yang, Derry Minyao Ng, Maria Haleem, Tianfei Yi, Shiyun Hu, Huangkai Zhu, Guofang Zhao, Qi Liao. Mol Ther Nucleic Acids 2020
15
10

Primary and Acquired Resistance to Immunotherapy in Lung Cancer: Unveiling the Mechanisms Underlying of Immune Checkpoint Blockade Therapy.
Laura Boyero, Amparo Sánchez-Gastaldo, Miriam Alonso, José Francisco Noguera-Uclés, Sonia Molina-Pinelo, Reyes Bernabé-Caro. Cancers (Basel) 2020
10
10

The significance of MMP-9 over MMP-2 in HCC invasiveness and recurrence of hepatocellular carcinoma after curative resection.
Rongxin Chen, Jiefeng Cui, Changde Xu, Tongchun Xue, Kun Guo, Dongmei Gao, Yinkun Liu, Shenglong Ye, Zhenggang Ren. Ann Surg Oncol 2012
51
10

A matrix metalloproteinase inhibitor enhances anti-cytotoxic T lymphocyte antigen-4 antibody immunotherapy in breast cancer by reprogramming the tumor microenvironment.
Mingyue Li, Shugang Xing, Haiying Zhang, Siqi Shang, Xiangxiang Li, Bo Ren, Gaiyun Li, Xiaona Chang, Yilei Li, Wei Li. Oncol Rep 2016
12
10


Hepatic Stellate Cells and Hepatocarcinogenesis.
Anna E Barry, Rajkumar Baldeosingh, Ryan Lamm, Keyur Patel, Kai Zhang, Dana A Dominguez, Kayla J Kirton, Ashesh P Shah, Hien Dang. Front Cell Dev Biol 2020
24
10


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.