Literature DB >> 30709909

Revolutionizing Cancer Immunology: The Power of Next-Generation Sequencing Technologies.

Meromit Singer1,2, Ana C Anderson3.   

Abstract

It has long been appreciated that tumors are diverse, varying in mutational status, composition of cellular infiltrate, and organizational architecture. For the most part, the information embedded in this diversity has gone untapped due to the limited resolution and dimensionality of assays for analyzing nucleic acid expression in cells. The advent of high-throughput, next-generation sequencing (NGS) technologies that measure nucleic acids, particularly at the single-cell level, is fueling the characterization of the many components that comprise the tumor microenvironment (TME), with a strong focus on immune composition. Understanding the immune and nonimmune components of the TME, how they interact, and how this shapes their functional properties requires the development of novel computational methods and, eventually, the application of systems-based approaches. The continued development and application of NGS technologies holds great promise for accelerating discovery in the cancer immunology field. ©2019 American Association for Cancer Research.

Entities:  

Mesh:

Year:  2019        PMID: 30709909      PMCID: PMC6366855          DOI: 10.1158/2326-6066.CIR-18-0281

Source DB:  PubMed          Journal:  Cancer Immunol Res        ISSN: 2326-6066            Impact factor:   11.151


  44 in total

1.  Single-Cell Genomics Unveils Critical Regulators of Th17 Cell Pathogenicity.

Authors:  Jellert T Gaublomme; Nir Yosef; Youjin Lee; Rona S Gertner; Li V Yang; Chuan Wu; Pier Paolo Pandolfi; Tak Mak; Rahul Satija; Alex K Shalek; Vijay K Kuchroo; Hongkun Park; Aviv Regev
Journal:  Cell       Date:  2015-11-19       Impact factor: 41.582

2.  IFNγ-Dependent Tissue-Immune Homeostasis Is Co-opted in the Tumor Microenvironment.

Authors:  Christopher J Nirschl; Mayte Suárez-Fariñas; Benjamin Izar; Sanjay Prakadan; Ruth Dannenfelser; Itay Tirosh; Yong Liu; Qian Zhu; K Sanjana P Devi; Shaina L Carroll; David Chau; Melika Rezaee; Tae-Gyun Kim; Ruiqi Huang; Judilyn Fuentes-Duculan; George X Song-Zhao; Nicholas Gulati; Michelle A Lowes; Sandra L King; Francisco J Quintana; Young-Suk Lee; James G Krueger; Kavita Y Sarin; Charles H Yoon; Levi Garraway; Aviv Regev; Alex K Shalek; Olga Troyanskaya; Niroshana Anandasabapathy
Journal:  Cell       Date:  2017-06-29       Impact factor: 41.582

3.  Global characterization of T cells in non-small-cell lung cancer by single-cell sequencing.

Authors:  Xinyi Guo; Yuanyuan Zhang; Liangtao Zheng; Chunhong Zheng; Jintao Song; Qiming Zhang; Boxi Kang; Zhouzerui Liu; Liang Jin; Rui Xing; Ranran Gao; Lei Zhang; Minghui Dong; Xueda Hu; Xianwen Ren; Dennis Kirchhoff; Helge Gottfried Roider; Tiansheng Yan; Zemin Zhang
Journal:  Nat Med       Date:  2018-06-25       Impact factor: 53.440

4.  Spatial reconstruction of immune niches by combining photoactivatable reporters and scRNA-seq.

Authors:  Chiara Medaglia; Amir Giladi; Liat Stoler-Barak; Marco De Giovanni; Tomer Meir Salame; Adi Biram; Eyal David; Hanjie Li; Matteo Iannacone; Ziv Shulman; Ido Amit
Journal:  Science       Date:  2017-12-07       Impact factor: 47.728

5.  Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding.

Authors:  Alexander B Rosenberg; Charles M Roco; Richard A Muscat; Anna Kuchina; Paul Sample; Zizhen Yao; Lucas T Graybuck; David J Peeler; Sumit Mukherjee; Wei Chen; Suzie H Pun; Drew L Sellers; Bosiljka Tasic; Georg Seelig
Journal:  Science       Date:  2018-03-15       Impact factor: 47.728

6.  Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain.

Authors:  Blue B Lake; Rizi Ai; Gwendolyn E Kaeser; Neeraj S Salathia; Yun C Yung; Rui Liu; Andre Wildberg; Derek Gao; Ho-Lim Fung; Song Chen; Raakhee Vijayaraghavan; Julian Wong; Allison Chen; Xiaoyan Sheng; Fiona Kaper; Richard Shen; Mostafa Ronaghi; Jian-Bing Fan; Wei Wang; Jerold Chun; Kun Zhang
Journal:  Science       Date:  2016-06-24       Impact factor: 47.728

7.  The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells.

Authors:  Cole Trapnell; Davide Cacchiarelli; Jonna Grimsby; Prapti Pokharel; Shuqiang Li; Michael Morse; Niall J Lennon; Kenneth J Livak; Tarjei S Mikkelsen; John L Rinn
Journal:  Nat Biotechnol       Date:  2014-03-23       Impact factor: 54.908

8.  Three-dimensional disorganization of the cancer genome occurs coincident with long-range genetic and epigenetic alterations.

Authors:  Phillippa C Taberlay; Joanna Achinger-Kawecka; Aaron T L Lun; Fabian A Buske; Kenneth Sabir; Cathryn M Gould; Elena Zotenko; Saul A Bert; Katherine A Giles; Denis C Bauer; Gordon K Smyth; Clare Stirzaker; Sean I O'Donoghue; Susan J Clark
Journal:  Genome Res       Date:  2016-04-06       Impact factor: 9.043

9.  GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists.

Authors:  Eran Eden; Roy Navon; Israel Steinfeld; Doron Lipson; Zohar Yakhini
Journal:  BMC Bioinformatics       Date:  2009-02-03       Impact factor: 3.169

10.  Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer.

Authors:  Sidharth V Puram; Itay Tirosh; Anuraag S Parikh; Anoop P Patel; Keren Yizhak; Shawn Gillespie; Christopher Rodman; Christina L Luo; Edmund A Mroz; Kevin S Emerick; Daniel G Deschler; Mark A Varvares; Ravi Mylvaganam; Orit Rozenblatt-Rosen; James W Rocco; William C Faquin; Derrick T Lin; Aviv Regev; Bradley E Bernstein
Journal:  Cell       Date:  2017-11-30       Impact factor: 41.582

View more
  6 in total

Review 1.  The tale of TILs in breast cancer: A report from The International Immuno-Oncology Biomarker Working Group.

Authors:  Khalid El Bairi; Harry R Haynes; Elizabeth Blackley; Susan Fineberg; Jeffrey Shear; Sophia Turner; Juliana Ribeiro de Freitas; Daniel Sur; Luis Claudio Amendola; Masoumeh Gharib; Amine Kallala; Indu Arun; Farid Azmoudeh-Ardalan; Luciana Fujimoto; Luz F Sua; Shi-Wei Liu; Huang-Chun Lien; Pawan Kirtani; Marcelo Balancin; Hicham El Attar; Prerna Guleria; Wenxian Yang; Emad Shash; I-Chun Chen; Veronica Bautista; Jose Fernando Do Prado Moura; Bernardo L Rapoport; Carlos Castaneda; Eunice Spengler; Gabriela Acosta-Haab; Isabel Frahm; Joselyn Sanchez; Miluska Castillo; Najat Bouchmaa; Reena R Md Zin; Ruohong Shui; Timothy Onyuma; Wentao Yang; Zaheed Husain; Karen Willard-Gallo; An Coosemans; Edith A Perez; Elena Provenzano; Paula Gonzalez Ericsson; Eduardo Richardet; Ravi Mehrotra; Sandra Sarancone; Anna Ehinger; David L Rimm; John M S Bartlett; Giuseppe Viale; Carsten Denkert; Akira I Hida; Christos Sotiriou; Sibylle Loibl; Stephen M Hewitt; Sunil Badve; William Fraser Symmans; Rim S Kim; Giancarlo Pruneri; Shom Goel; Prudence A Francis; Gloria Inurrigarro; Rin Yamaguchi; Hernan Garcia-Rivello; Hugo Horlings; Said Afqir; Roberto Salgado; Sylvia Adams; Marleen Kok; Maria Vittoria Dieci; Stefan Michiels; Sandra Demaria; Sherene Loi
Journal:  NPJ Breast Cancer       Date:  2021-12-01

Review 2.  Next-generation computational tools for interrogating cancer immunity.

Authors:  Francesca Finotello; Dietmar Rieder; Hubert Hackl; Zlatko Trajanoski
Journal:  Nat Rev Genet       Date:  2019-09-12       Impact factor: 59.581

3.  Identification of CXCL10-Relevant Tumor Microenvironment Characterization and Clinical Outcome in Ovarian Cancer.

Authors:  Jing Jin; Yi Li; Tobias Achu Muluh; Liangke Zhi; Qijie Zhao
Journal:  Front Genet       Date:  2021-07-27       Impact factor: 4.599

4.  Data-driven learning how oncogenic gene expression locally alters heterocellular networks.

Authors:  David J Klinke; Audry Fernandez; Wentao Deng; Atefeh Razazan; Habibolla Latifizadeh; Anika C Pirkey
Journal:  Nat Commun       Date:  2022-04-13       Impact factor: 17.694

Review 5.  Current Challenges in Vaccinology.

Authors:  Richard B Kennedy; Inna G Ovsyannikova; Peter Palese; Gregory A Poland
Journal:  Front Immunol       Date:  2020-06-25       Impact factor: 7.561

6.  Toward uncharted territory of cellular heterogeneity: advances and applications of single-cell RNA-seq.

Authors:  Brandon Lieberman; Meena Kusi; Chia-Nung Hung; Chih-Wei Chou; Ning He; Yen-Yi Ho; Josephine A Taverna; Tim H M Huang; Chun-Liang Chen
Journal:  J Transl Genet Genom       Date:  2021-01-01
  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.