pypi: CellPhoneDB | Projects | Ecosyste.ms: Papers

10.7554/eLife.63003

Short-term exposure to intermittent hypoxia leads to changes in gene expression seen in chronic pulmonary disease
Cited by: 17
Author(s): Gang Wu, Yin Yeng Lee, Evelyn M. Gulla, Andrew Potter, Joseph A. Kitzmiller, Marc D. Ruben, Nathan Salomonis, JA Whitsett, Lauren J. Francey, John B. Hogenesch, Smith Dl
Software Mentions: 12
Published: over 3 years ago

10.3389/fgene.2021.655536

Machine Intelligence in Single-Cell Data Analysis: Advances and New Challenges
Cited by: 30
Author(s): Jiajia Li, Zusen Fan, Weiling Zhao, Xiaobo Zhou
Software Mentions: 12
Published: over 3 years ago

10.3389/fbioe.2020.00101

The Integrated Transcriptome Bioinformatics Analysis Identifies Key Genes and Cellular Components for Spinal Cord Injury-Related Neuropathic Pain
Cited by: 8
Author(s): Runzhi Huang, Tong Meng, Rui Zhu, Lijuan Zhao, Dianwen Song, Huabin Yin, Zongqiang Huang, Liming Cheng, Jie Zhang
Software Mentions: 11
Published: over 4 years ago

10.15252/msb.20209923

Integrated intra‐ and intercellular signaling knowledge for multicellular omics analysis
Cited by: 122
Author(s): Dénes Türei, Alberto Valdeolivas, Lejla Gul, Nicolàs Palacio-Escat, Michal Klein, Olga Ivanova, Márton Ölbei, Attila Gábor, Fabian J. Theis, Dezső Módos, Tamás Korcsmáros, Julio Sáez-Rodríguez
Software Mentions: 10
Published: over 3 years ago

10.3389/fncel.2020.00065

Single-Cell Analysis of Neuroinflammatory Responses Following Intracranial Injection of G-Deleted Rabies Viruses
Cited by: 29
Author(s): Kee Wui Huang, Bernardo L. Sabatini
Software Mentions: 9
Published: over 4 years ago

10.1155/2021/5633514

Roles of the Immune/Methylation/Autophagy Landscape on Single-Cell Genotypes and Stroke Risk in Breast Cancer Microenvironment
Cited by: 22
Author(s): Junyi Wu, Jun Qin, Lei Li, Kun-Dong Zhang, Yisheng Chen, Yang Li, Tao Jin, Jianrong Xu
Software Mentions: 9
Published: about 3 years ago

10.3389/fonc.2021.709210

Single-Cell Transcriptomics Reveals the Complexity of the Tumor Microenvironment of Treatment-Naive Osteosarcoma
Cited by: 45
Author(s): Yun Liu, Wei Feng, Yan Dai, Mengying Bao, Zhenchao Yuan, Mingwei He, Zhaojie Qin, Shijie Liao, Jun He, Qian Huang, Zhenyuan Yu, Yanyu Zeng, Binqian Guo, Rong Huang, Rongliang Yang, Yonghua Jiang, Jinling Liao, Zengming Xiao, Xinli Zhan, Chengsen Lin, Jiake Xu, Yu Ye, Jie Ma, Qingjun Wei, Zengnan Mo
Software Mentions: 9
Published: over 3 years ago

10.3389/fonc.2021.695006

Tumor-Infiltrating PD-1hiCD8+-T-Cell Signature as an Effective Biomarker for Immune Checkpoint Inhibitor Therapy Response Across Multiple Cancers
Cited by: 7
Author(s): Zhenyu Yang, Yulan Deng, Jinghui Cheng, Shiyou Wei, Hao Luo, Lunxu Liu
Software Mentions: 9
Published: about 3 years ago

10.3389/fonc.2020.01254

Unraveling the Complexity of the Cancer Microenvironment With Multidimensional Genomic and Cytometric Technologies
Cited by: 39
Author(s): Natasja L. de Vries, Ahmed Mahfouz, Frits Koning, Noel F.C.C. de Miranda
Software Mentions: 8
Published: over 4 years ago

10.3389/fcell.2021.677697

Single-Cell RNA-Sequencing Portraying Functional Diversity and Clinical Implications of IFI6 in Ovarian Cancer
Cited by: 7
Author(s): Hongyu Zhao, Zhefeng Li, Yan Gao, Jie Li, Xiaoting Zhao, Wentao Yue
Software Mentions: 8
Published: about 3 years ago

10.1002/ctm2.422

Single‐cell analyses reveal suppressive tumor microenvironment of human colorectal cancer
Cited by: 37
Author(s): Mei Yan, Weiwei Xiao, Hao Hu, Guan-Ming Lu, Lingdan Chen, Zhun Sun, Mengdie Lü, Wenhui Ma, Ting Jiang, Yuanhong Gao, LiRen Li, Gong Chen, Zifeng Wang, Hanjie Li, Duojiao Wu, Ping‐Hong Zhou, Qibin Leng, Guangshuai Jia
Software Mentions: 8
Published: over 3 years ago

10.1002/ctm2.500

Single‐cell transcriptomes reveal heterogeneity of high‐grade serous ovarian carcinoma
Cited by: 29
Author(s): Qian Hao, Jiajia Li, Qinghua Zhang, Fei Xu, Bangxiang Xie, Hua Lu, Xiaohua Wu, Xiang Zhou
Software Mentions: 7
Published: over 3 years ago

10.1038/s41422-020-00412-6

Single-cell transcriptomic atlas of primate cardiopulmonary aging
Cited by: 76
Author(s): Shuai Ma, Shuhui Sun, Jiaming Li, Yanling Fan, Jing Qu, Liang Sun, Si Wang, Yiyuan Zhang, Shanshan Yang, Zunpeng Liu, Zeming Wu, Sheng Zhang, Qiaoran Wang, Ai Zheng, Shuguang Duo, Yang Yu, Juan Carlos Izpisúa Belmonte, Piu Chan, Qi Zhou, Moshi Song, Weiqi Zhang, Guang Hui Liu
Software Mentions: 7
Published: about 4 years ago

10.7150/jca.58076

An integrative microenvironment approach for laryngeal carcinoma: the role of immune/methylation/autophagy signatures on disease clinical prognosis and single-cell genotypes
Cited by: 18
Author(s): Xueran Kang, Yisheng Chen, Bin Yi, Yan Xin, Chenyan Jiang, Bin Chen, Lixing Lu, Yuxing Sun, Ruihan Shi
Software Mentions: 7
Published: almost 4 years ago

10.1016/j.isci.2020.101354

Network Approaches for Dissecting the Immune System
Cited by: 25
Author(s): Hao Shi, Koon-Kiu Yan, Liang Ding, Chenxi Qian, Hongbo Chi, Jiyang Yu
Software Mentions: 7
Published: over 4 years ago

10.1186/s13073-019-0657-3

A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases
Cited by: 67
Author(s): Danuta R. Gawel, Jordi Serra-Musach, Sandra Lilja, Jesper Aagesen, Àlex Arenas, B. Asking, Malin Bengnér, Janne Björkander, Sophie Biggs, Jan Ernerudh, Henrik Hjortswang, Jan‐Erik Karlsson, Mattias Köpsén, Eun Jung Lee, Antonio Lentini, Xinxiu Li, Mattias Magnusson, David Martínez-Enguita, Andreas Matussek, Colm E. Nestor, Samuel Schäfer, Oliver Seifert, Ceylan Sonmez, Henrik Stjernman, Andreas Tjärnberg, Simon Wu, Karin Åkesson, Alexander K Shalek, Margaretha Stenmarker, Huan Zhang, Mika Gustafsson, Mikael Benson
Software Mentions: 7
Published: over 5 years ago

10.1172/jci.insight.139930

Contribution of plasma cells and B cells to hidradenitis suppurativa pathogenesis
Cited by: 88
Author(s): Johann E. Gudjonsson, Lam C. Tsoi, Feiyang Ma, Allison C. Billi, Kelsey R. van Straalen, Allard R. J. V. Vossen, Hessel H. van der Zee, Paul W. Harms, Rachael Wasikowski, Christopher Yee, Syed Monem Rizvi, Xianying Xing, Enze Xing, Olesya Plazyo, Chang Zeng, Matthew Patrick, Margaret M. Lowe, Richard E. Burney, Jeffrey H. Kozlow, Jill R. Cherry-Bukowiec, Yanyun Jiang, Joseph Kirma, Stephan Weidinger, Kelly C. Cushing, Michael D. Rosenblum, Céline C. Berthier, Amanda S. MacLeod, John J. Voorhees, Fei Wen, J. Michelle Kahlenberg, Emanual Maverakis, Robert L. Modlin, Errol P. Prens
Software Mentions: 7
Published: about 4 years ago

10.3389/fcell.2020.593007

Exploring Additional Valuable Information From Single-Cell RNA-Seq Data
Cited by: 12
Author(s): Yunjin Li, Qiyue Xu, Duojiao Wu, Geng Chen
Software Mentions: 7
Published: almost 4 years ago

10.1038/s41421-021-00312-y

A single-cell atlas of liver metastases of colorectal cancer reveals reprogramming of the tumor microenvironment in response to preoperative chemotherapy
Cited by: 42
Author(s): Li-Heng Che, Jingwen Li, Jian-Ping Huo, Rong Luo, Rui-Ming Xu, He Cai, Yuqing Li, Anni Zhou, Pinbo Huang, Yongyu Chen, Weijian Ni, Yunxia Zhou, Yuan-Yuan Liu, Huiyan Li, Rong Zhou, Ming Hui, Jianming Li
Software Mentions: 7
Published: about 3 years ago

10.7150/thno.58433

Single-cell transcriptomic profiling provides insights into the toxic effects of Zearalenone exposure on primordial follicle assembly
Cited by: 20
Author(s): Yu Tian, Mingyu Zhang, Ai-Hong Zhao, Li Kong, Junjie Wang, Wei Shen, Lan Li
Software Mentions: 6
Published: almost 4 years ago

10.1186/s13578-021-00691-5

A single-cell interactome of human tooth germ from growing third molar elucidates signaling networks regulating dental development
Cited by: 7
Author(s): Yueqi Shi, Yinglan Yu, Yuqiong Zhou, Jing Zhao, Wenjie Zhang, Duohong Zou, Weichen Song, Shaoyi Wang
Software Mentions: 6
Published: about 3 years ago

10.1371/journal.ppat.1008408

Integrating GWAS with bulk and single-cell RNA-sequencing reveals a role for LY86 in the anti-Candida host response
Cited by: 16
Author(s): Dylan de Vries, Vasiliki Matzaraki, Olivier B. Bakker, Harm Brugge, Harm-Jan Westra, Mihai G. Netea, Lude Franke, Vinod Kumar, Monique G. P. van der Wijst
Software Mentions: 6
Published: over 4 years ago

10.1111/cpr.13116

Single‐cell profiling reveals distinct immune phenotypes that contribute to ischaemia‐reperfusion injury after steatotic liver transplantation
Cited by: 19
Author(s): Xinyu Yang, Di Lu, Rui Wang, Zhengxing Lian, Zuyuan Lin, Jianyong Zhuo, Hao Chen, Modan Yang, Winyen Tan, Mengfan Yang, Xuyong Wei, Qiang Wei, Shusen Zheng, Xiao Xu
Software Mentions: 6
Published: about 3 years ago

10.1016/j.celrep.2020.107628

Single-Cell RNA Sequencing Reveals a Dynamic Stromal Niche That Supports Tumor Growth
Cited by: 156
Author(s): Sarah Davidson, Mirjana Efremova, Angela Riedel, Bidesh Mahata, Jhuma Pramanik, Jani Huuhtanen, Gozde Kar, Roser Vento‐Tormo, Tzachi Hagai, Xi Chen, Muzlifah Haniffa, Jacqueline D. Shields, Sarah A. Teichmann
Software Mentions: 6
Published: over 4 years ago

10.1038/s41422-020-00455-9

Discriminating mild from critical COVID-19 by innate and adaptive immune single-cell profiling of bronchoalveolar lavages
Cited by: 203
Author(s): Els Wauters, Pierre Van Mol, Abhishek D. Garg, S.L. Jansen, Yannick Van Herck, Lore Vanderbeke, Ayse Bassez, Bram Boeckx, Bert Malengier‐Devlies, Anna Timmerman, Thomas Van Brussel, Tina Van Buyten, Rogier Schepers, Elisabeth Heylen, Dieter Dauwe, Christophe Dooms, Jan Gunst, Greet Hermans, Philippe Meersseman, Dries Testelmans, Jonas Yserbyt, Sabine Tejpar, Walter De Wever, Patrick Matthys, Maria Bosisio, Michaël P Casaer, Frederik De Smet, Paul De Munter, Stéphanie Humblet-Baron, Adrian Liston, Natalie Lorent, Kim Martinod, Paul Proost, Jeroen Raes, Karin Thevissen, Robin Vos, Birgit Weynand, Carine Wouters, Johan Neyts, Joost Wauters, Junbin Qian, Diether Lambrechts
Software Mentions: 6
Published: almost 4 years ago

10.1038/s41422-020-0374-x

Single-cell transcriptomics reveals regulators underlying immune cell diversity and immune subtypes associated with prognosis in nasopharyngeal carcinoma
Cited by: 155
Author(s): Yu-Pei Chen, Jianhua Yin, Wenfei Li, Han-Jie Li, Dongping Chen, Cuijuan Zhang, Jiawei Lv, Yaqin Wang, Xiaomin Li, Junyan Li, Panpan Zhang, Ying‐Qin Li, Qing‐Mei He, Xiaojing Yang, Yuan Liu, Ling‐Long Tang, Guan-Qun Zhou, Yan‐Ping Mao, Wei Chen, Ke Xiong, Hongbo Zhang, Shida Zhu, Yong Hou, Ying Sun, Michael Dean, Ido Amit, Kui Wu, Dong-Ming Kuang, Guibo Li, Na Liu
Software Mentions: 6
Published: over 4 years ago

10.1186/s13059-021-02280-8

iMAP: integration of multiple single-cell datasets by adversarial paired transfer networks
Cited by: 25
Author(s): Dongfang Wang, Siyu Hou, Lei Zhang, Xiliang Wang, Baolin Liu, Zemin Zhang
Software Mentions: 6
Published: over 3 years ago

10.3389/fonc.2021.715552

Single-Cell RNA Sequencing Reveals the Migration of Osteoclasts in Giant Cell Tumor of Bone
Cited by: 14
Author(s): Wei Feng, Mingwei He, Xiaohong Jiang, Huijiang Liu, Tianyu Xie, Zhaojie Qin, Qian Huang, Shijie Liao, Chengsen Lin, Jun He, Jiake Xu, Jie Ma, Yun Liu, Qingjun Wei
Software Mentions: 6
Published: about 3 years ago

10.1002/ctm2.253

Multiregion single‐cell sequencing reveals the transcriptional landscape of the immune microenvironment of colorectal cancer
Cited by: 34
Author(s): Wei Wang, Yu Zhong, Zhenkun Zhuang, Junping Xie, Yueer Lu, Chengzhi Huang, Yan Sun, Liang Wu, Jianhua Yin, Hang Yu, Zhiqiang Jiang, Shanshan Wang, Chunqing Wang, Yuanhang Zhang, Yilin Huang, Chongyin Han, Zhenggang Zhong, Jialin Hu, Ying Ouyang, Huisheng Liu, Mengya Yu, Xiaochan Wei, Dandan Chen, Lizhen Huang, Yong Hou, Zhanglin Lin, Shiping Liu, Fei Ling, Xueqing Yao
Software Mentions: 6
Published: almost 4 years ago

10.7150/ijbs.46645

Identification of a novel cancer stem cell subpopulation that promotes progression of human fatal renal cell carcinoma by single-cell RNA-seq analysis
Cited by: 25
Author(s): Xiuwu Pan, Hao Zhang, Da Xu, Jiaxin Chen, Wen-jin Chen, Sishun Gan, Fajun Qu, Chuanmin Chu, Jun Cao, Yong Fan, Shumin Xu, Jianqing Ye, Zhou Wang, Xingang Cui
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pbio.3000365

Dissecting the transcriptome landscape of the human fetal neural retina and retinal pigment epithelium by single-cell RNA-seq analysis
Cited by: 95
Author(s): Yuqiong Hu, Xiaoye Wang, Boqiang Hu, Yunuo Mao, Yidong Chen, Liying Yan, Jun Yong, Ji Dong, Wei Yuan, Wei Wang, Lu Wen, Jie Qiao, Fuchou Tang
Software Mentions: 6
Published: over 5 years ago

10.3390/cells10061371

Single-Cell Transcriptional Heterogeneity of Lymphatic Endothelial Cells in Normal and Inflamed Murine Lymph Nodes
Cited by: 18
Author(s): Eliane Sibler, Yuliang He, Luca Ducoli, Nadja Keller, Noriki Fujimoto, Lothar C. Dieterich, Michael Detmar
Software Mentions: 5
Published: over 3 years ago

10.1038/s41419-021-03740-6

Single-cell analysis reveals urothelial cell heterogeneity and regenerative cues following cyclophosphamide-induced bladder injury
Cited by: 12
Author(s): Xiaomu Cheng, Huadong Lai, Wenqin Luo, Man Zhang, Juju Miao, Weichen Song, Shunpeng Xing, Jia Wang, Wei‐Qiang Gao
Software Mentions: 5
Published: over 3 years ago

10.1038/s41421-020-00236-z

Single-cell profiling of the human decidual immune microenvironment in patients with recurrent pregnancy loss
Cited by: 74
Author(s): Chuang Guo, Pengfei Cai, Lina Jin, Qing Sha, Qiaoni Yu, Wen Zhang, Chen Jiang, Qian Liu, Dandan Zong, Kun Li, Jingwen Fang, Fangting Lu, Yanshi Wang, Daojing Li, Jun Lin, Lü Li, Zhutian Zeng, Xianhong Tong, Haiming Wei, Kun Qu
Software Mentions: 5
Published: almost 4 years ago

10.15252/emmm.202113953

Intrathecal activation of CD8 <sup>+</sup> memory T cells in IgG4‐related disease of the brain parenchyma
Cited by: 5
Author(s): Mirco Friedrich, Niklas Kehl, Niko Engelke, Josephine Kraus, Katharina A.M. Lindner, Philipp Münch, Iris Mildenberger, Christoph Groden, Achim Gass, Nima Etminan, Marc Fatar, Andreas von Deimling, David Reuß, Michael Platten, Lukas Bunse
Software Mentions: 5
Published: over 3 years ago

10.3389/fendo.2021.679582

Transcriptomic Profiling of Human Placenta in Gestational Diabetes Mellitus at the Single-Cell Level
Cited by: 31
Author(s): Yuqi Yang, Fang Guo, Yue Peng, Rong Chen, Wenbo Zhou, Huihui Wang, Jun Ouyang, Bin Yu, Zhengfeng Xu
Software Mentions: 5
Published: over 3 years ago

10.1073/pnas.2100920118

Single-cell sequencing reveals suppressive transcriptional programs regulated by MIS/AMH in neonatal ovaries
Cited by: 23
Author(s): Marie-Charlotte Meinsohn, Hatice D. Saatcioglu, Lina Wei, Yang Li, Heiko Horn, Maëva Chauvin, Mariko Kano, Ngoc Minh Nguyen, Nicholas Nagykery, A Kashiwagi, Wesley Samore, Dan Wang, Esther Oliva, Guangping Gao, Mary E. Morris, Patricia K. Donahoe, David Pépin
Software Mentions: 5
Published: over 3 years ago

10.1007/s13238-021-00852-9

Single-nucleus transcriptomic landscape of primate hippocampal aging
Cited by: 41
Author(s): Hui Zhang, Jiaming Li, Jie Ren, Shuhui Sun, Shuai Ma, Weiqi Zhang, Yang Yu, Yusheng Cai, Yan Ke, Wei Li, Baoyang Hu, Piu Chan, Guoguang Zhao, Juan Carlos Izpisúa Belmonte, Qi Zhou, Jing Qu, Si Wang, Guanghui Liu
Software Mentions: 5
Published: over 3 years ago

10.1016/j.jtos.2021.03.010

A single cell atlas of human cornea that defines its development, limbal progenitor cells and their interactions with the immune cells
Cited by: 84
Author(s): Joseph Collin, Rachel Queen, Darin Zerti, Sanja Bojić, Birthe Dorgau, Nicky Moyse, Marina Moya Molina, Chunbo Yang, Sunanda Dey, Gary Reynolds, Rafiqul Hussain, Jonathan Coxhead, Steven Lisgo, Deborah J. Henderson, Agatha Joseph, Paul Rooney, Saurabh Ghosh, Lucy Clarke, Che J. Connon, Muzlifah Haniffa, Francisco C Figueiredo, Lyle Armstrong, Majlinda Lako
Software Mentions: 5
Published: over 3 years ago

10.1186/s13073-021-00922-x

High-grade serous tubo-ovarian cancer refined with single-cell RNA sequencing: specific cell subtypes influence survival and determine molecular subtype classification
Cited by: 52
Author(s): Siel Olbrecht, Pieter Busschaert, Jun Qian, Adriaan Vanderstichele, Liselore Loverix, Toon Van Gorp, Els Van Nieuwenhuysen, Sileny Han, Annick Van den Broeck, An Coosemans, Anne‐Sophie Van Rompuy, Diether Lambrechts, Ignace Vergote
Software Mentions: 4
Published: over 3 years ago

10.3390/genes12071101

Unveiling the Pathogenesis of Psychiatric Disorders Using Network Models
Cited by: 7
Author(s): Yanning Zuo, Wei Don, Carissa Zhu, Ormina Naveed, Weizhe Hong, Xia Yang
Software Mentions: 4
Published: over 3 years ago

10.3389/fphar.2021.754933

Immune Cell Landscape of Patients With Diabetic Macular Edema by Single-Cell RNA Analysis
Cited by: 10
Author(s): Pingping Ma, Ping Zhang, Shuxia Chen, Wen Shi, Jinguo Ye, Shida Chen, Rong Ju, Bingqian Liu, Yingfeng Zheng, Yizhi Liu
Software Mentions: 4
Published: about 3 years ago

10.3389/fimmu.2021.693608

Single-Cell RNA Sequencing Reveals the Immunological Profiles of Renal Allograft Rejection in Mice
Cited by: 11
Author(s): Qixia Shen, Yucheng Wang, Jiaoyi Chen, Lifeng Ma, Xiao‐Ru Huang, Sydney C. W. Tang, Hui‐Yao Lan, Hong Jiang, Jianghua Chen
Software Mentions: 4
Published: over 3 years ago

10.1084/jem.20201189

αβγδ T cells play a vital role in fetal human skin development and immunity
Cited by: 17
Author(s): René Reitermaier, Thomas Krausgruber, Nikolaus Fortelny, Tanya Ayub, Pablo A. Vieyra‐Garcia, Philip Kienzl, Peter Wolf, Anke Scharrer, Christian Fiala, Marita Kölz, Manuela Hiess, Martin Vierhapper, Christopher Schuster, Andreas Spittler, Christof Worda, Wolfgang Weninger, Christoph Bock, Wolfgang Eppel, Adelheid Elbe‐Bürger
Software Mentions: 4
Published: over 3 years ago

10.3389/fimmu.2021.739605

Prednisone Reprograms the Transcriptional Immune Cell Landscape in CNS Autoimmune Disease
Cited by: 3
Author(s): Lin He, Yuehan Gao, Lihui Xie, Rong Wang, Runping Duan, Zhaohuai Li, Binyao Chen, Lei Zhu, Xianggui Wang, Wenru Su
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-021-98806-y

Single-cell and bulk transcriptomics of the liver reveals potential targets of NASH with fibrosis
Cited by: 36
Author(s): Zhongyi Wang, Adrian Keogh, Annick Waldt, Rachel Cuttat, Marilisa Neri, Shuchai Zhu, Sven Schuierer, Alexandra Ruchti, Christophe Crochemore, Judith Knehr, Julie Bastien, Iwona Ksiazek, Daniel Sánchez-Taltavull, Hui Ge, Jing Wu, Guglielmo Roma, Stephen B. Helliwell, Deborah Stroka, Florian Nigsch
Software Mentions: 4
Published: about 3 years ago

10.1172/jci.insight.144575

Hedgehog interacting protein–expressing lung fibroblasts suppress lymphocytic inflammation in mice
Cited by: 5
Author(s): Jeong H. Yun, ChangHee Lee, Tao Liu, Siqi Liu, Edy Y. Kim, Shuang Xu, Jeffrey L. Curtis, Luca Pinello, Russell P. Bowler, Edwin K. Silverman, Craig P. Hersh, Xiaobo Zhou
Software Mentions: 4
Published: about 3 years ago

10.1016/j.stem.2020.08.004

Multi-layered Spatial Transcriptomics Identify Secretory Factors Promoting Human Hematopoietic Stem Cell Development
Cited by: 43
Author(s): Edie I. Crosse, Sabrina Gordon-Keylock, Stanislav Rybtsov, Anahí Binagui-Casas, Hannah Felchle, Nneka C. Nnadi, Kristina Kirschner, Tamir Chandra, Sara Tamagno, David J. Webb, Fiona Rossi, Richard A. Anderson, Alexander Medvinsky
Software Mentions: 4
Published: about 4 years ago

10.1093/gigascience/giaa109

A map of tumor–host interactions in glioma at single-cell resolution
Cited by: 31
Author(s): Francesca Pia Caruso, Luciano Garofano, Fulvio D’Angelo, Kai Yu, Fuchou Tang, Jinzhou Yuan, Jing Zhang, Luigi Cerulo, Stefano Maria Pagnotta, Davide Bedognetti, Peter A. Sims, Mario L. Suvà, Xiao‐Dong Su, Anna Lasorella, Antonio Iavarone, Michele Ceccarelli
Software Mentions: 4
Published: about 4 years ago

10.1111/cns.13396

Effect of intra‐ and inter‐tumoral heterogeneity on molecular characteristics of primary IDH‐wild type glioblastoma revealed by single‐cell analysis
Cited by: 22
Author(s): Zujian Xiong, Qi Yang, Xuejun Li
Software Mentions: 4
Published: over 4 years ago

10.3389/fonc.2021.603556

Pharmacological Inhibition and Genetic Knockdown of BCL9 Modulate the Cellular Landscape of Cancer-Associated Fibroblasts in the Tumor-Immune Microenvironment of Colorectal Cancer
Cited by: 5
Author(s): Ming Yang, Wei Zhuang, Mei Feng, Yuanyuan Zhu, Yong Chen, Di Zhu
Software Mentions: 4
Published: over 3 years ago

10.1002/ctm2.462

Diversity and intratumoral heterogeneity in human gallbladder cancer progression revealed by single‐cell RNA sequencing
Cited by: 16
Author(s): Peizhan Chen, Yueqi Wang, Jingquan Li, Xiaobo Bo, Jie Wang, Lingxi Nan, Changcheng Wang, Qian Ba, Houbao Liu, Hui Wang
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.60266

Single nuclei RNA-seq of mouse placental labyrinth development
Cited by: 68
Author(s): Bryan Marsh, Robert Blelloch
Software Mentions: 4
Published: about 4 years ago

10.1016/j.devcel.2020.11.010

Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn’s Disease
Cited by: 139
Author(s): Rasa Elmentaite, Alex Ross, Kenny Roberts, Kylie R. James, Daniel Ortmann, Tomás Gomes, Komal Nayak, Liz Tuck, Sophie Pritchard, Ömer Bayraktar, Robert Heuschkel, Ludovic Vallier, Sarah A. Teichmann, Matthias Zilbauer
Software Mentions: 3
Published: almost 4 years ago

10.1038/s42003-020-0937-x

Single-cell expression and Mendelian randomization analyses identify blood genes associated with lifespan and chronic diseases
Cited by: 6
Author(s): Arnaud Chignon, Valentin Bon-Baret, Marie-Chloé Boulanger, Zhonglin Li, Déborah Argaud, Yohan Bossé, Sébastien Thériault, Benoît J. Arsenault, Patrick Mathieu
Software Mentions: 3
Published: over 4 years ago

10.1002/ctm2.308

Understanding cell‐cell communication and signaling in the colorectal cancer microenvironment
Cited by: 40
Author(s): Shaikha AlMusawi, Mehreen Ahmed, Abdolrahman S. Nateri
Software Mentions: 3
Published: almost 4 years ago

10.1186/s13059-020-02064-6

Single-cell transcriptome and antigen-immunoglobin analysis reveals the diversity of B cells in non-small cell lung cancer
Cited by: 92
Author(s): Jian Chen, Yun Tan, Fangyuan Sun, Likun Hou, Chi Zhang, Ge Tao, Hua Yu, Chunxiao Wu, Yuming Zhu, Liang Duan, Liang Wu, Nan Song, Liping Zhang, Wei Zhang, Di Wang, Chang Chen, Chunyan Wu, Gening Jiang, Peng Zhang
Software Mentions: 3
Published: over 4 years ago

10.1007/s00441-021-03483-y

Single-cell biology to decode the immune cellular composition of kidney inflammation
Cited by: 4
Author(s): Yu Zhao, Ulf Panzer, Stefan Bonn, Christian Krebs
Software Mentions: 3
Published: over 3 years ago

10.1007/s13238-020-00727-5

New avenues for systematically inferring cell-cell communication: through single-cell transcriptomics data
Cited by: 66
Author(s): Xin Shao, Xiaoyan Lu, Jie Liao, Huajun Chen, Xiaohui Fan
Software Mentions: 3
Published: over 4 years ago

10.1093/bioinformatics/btaa482

COMUNET: a tool to explore and visualize intercellular communication
Cited by: 17
Author(s): Maria Solovey, Antonio Scialdone
Software Mentions: 3
Published: over 4 years ago

10.1126/sciimmunol.abf6692

Clonal expansion and activation of tissue-resident memory-like T <sub>H</sub> 17 cells expressing GM-CSF in the lungs of patients with severe COVID-19
Cited by: 118
Author(s): Yu Zhao, Christoph Kilian, Jan-Eric Turner, Lidia Bosurgi, Kevin Roedl, Patricia Bartsch, Ann-Christin Gnirck, Filippo Cortesi, Christoph Schultheiß, Malte Hellmig, Leon U. B. Enk, Fabian Hausmann, Alina Borchers, Milagros Wong, Hans‐Joachim Paust, Francesco Siracusa, Nicola Scheibel, Marissa Herrmann, Elisa Rosati, Petra Bächer, Dominik Kylies, Dominik Jarczak, Marc Lütgehetmann, Susanne Pfefferle, Stefan Steurer, Julian Schulze zurWiesch, Victor G. Puelles, Jan‐Peter Sperhake, Marylyn M. Addo, Ansgar W. Lohse, Mascha Binder, Samuel Huber, Tobias B. Huber, Stefan Kluge, Stefan Bonn, Ulf Panzer, Nicola Gagliani, Christian Krebs
Software Mentions: 3
Published: over 3 years ago

10.7150/ijbs.58886

Single-cell transcriptomics reveals heterogeneous progression and EGFR activation in pancreatic adenosquamous carcinoma
Cited by: 18
Author(s): Xin Zhao, Han Li, Shaocheng Lyu, Jialei Zhai, Zhiwei Ji, Zhigang Zhang, Xinxue Zhang, Zhe Liu, Huaguang Wang, Jianjun Xu, Hua Fan, Jiantao Kou, Lixin Li, Ren Lang, Qiang He
Software Mentions: 3
Published: almost 4 years ago

10.1038/s10038-020-00844-3

Single-cell genomics to understand disease pathogenesis
Cited by: 23
Author(s): Seitaro Nomura
Software Mentions: 3
Published: about 4 years ago

10.1007/s41745-020-00178-1

Single‐Cell RNA Sequencing for Precision Oncology: Current State-of-Art
Cited by: 9
Author(s): Justine Jia Wen Seow, Richard L. Wong, Rhea Pai, Ankur Sharma
Software Mentions: 3
Published: over 4 years ago

10.1002/advs.202002825

Engineered Tools to Study Intercellular Communication
Cited by: 30
Author(s): Benjamin Yang, Trisha M. Westerhof, Kaitlyn Sabin, Sofía D. Merajver, Carlos A. Aguilar
Software Mentions: 3
Published: almost 4 years ago

10.7554/eLife.65921

Single-cell transcriptomics defines heterogeneity of epicardial cells and fibroblasts within the infarcted murine heart
Cited by: 40
Author(s): Julia Hesse, Christoph Owenier, Tobias Lautwein, Ria Zalfen, Jonas F Weber, Zhaoping Ding, Christina Alter, Alexander Lang, Maria Grandoch, Norbert Gerdes, Jens W. Fischer, Gunnar W. Klau, Christoph Dieterich, Karl Köhrer, Jürgen Schrader
Software Mentions: 3
Published: over 3 years ago

10.1038/s12276-020-0422-0

Single-cell transcriptomics in cancer: computational challenges and opportunities
Cited by: 96
Author(s): Jean Fan, Kamil Slowikowski, Fan Zhang
Software Mentions: 3
Published: about 4 years ago

10.3389/fncel.2021.624826

Single Cell Transcriptome Data Analysis Defines the Heterogeneity of Peripheral Nerve Cells in Homeostasis and Regeneration
Cited by: 28
Author(s): Bing Chen, Matthew C. Banton, Lolita Singh, David B. Parkinson, Xin‐Peng Dun
Software Mentions: 3
Published: over 3 years ago

10.1038/s41392-021-00709-x

Multimodal single-cell omics analysis identifies epithelium–immune cell interactions and immune vulnerability associated with sex differences in COVID-19
Cited by: 13
Author(s): Yuan Hou, Yadi Zhou, Michaela U. Gack, Justin D. Lathia, Asha R. Kallianpur, Reena Mehra, Timothy A. Chan, Jae U. Jung, Lara Jehi, Charis Eng, Feixiong Cheng
Software Mentions: 2
Published: over 3 years ago

10.1186/s13578-021-00637-x

Single-cell transcriptomic analysis of endometriosis provides insights into fibroblast fates and immune cell heterogeneity
Cited by: 33
Author(s): Junyan Ma, Liqi Zhang, Hong Zhan, Yufei Mo, Zuanjie Ren, Anwen Shao, Jizhen Lin
Software Mentions: 2
Published: over 3 years ago

10.7554/eLife.68457

Profiling sensory neuron microenvironment after peripheral and central axon injury reveals key pathways for neural repair
Cited by: 55
Author(s): Oshri Avraham, Rui Feng, Eric E. Ewan, Justin Rustenhoven, Guoyan Zhao, Valeria Cavalli
Software Mentions: 2
Published: about 3 years ago

10.1186/s12943-021-01419-2

Single-cell RNA sequencing reveals markers of disease progression in primary cutaneous T-cell lymphoma
Cited by: 17
Author(s): Katharina Rindler, Constanze Jonak, Natalia Alkon, Felix M. Thaler, Harald Kurz, Lisa E. Shaw, Georg Stingl, Wolfgang Weninger, Florian Halbritter, Wolfgang Bauer, Matthias Farlik, Patrick M. Brunner
Software Mentions: 2
Published: about 3 years ago

10.7554/eLife.46349

Single-cell sequencing of neonatal uterus reveals an Misr2+ endometrial progenitor indispensable for fertility
Cited by: 32
Author(s): Hatice D. Saatcioglu, Mariko Kano, Heiko Horn, Lihua Zhang, Wesley Samore, Nicholas Nagykery, Marie Charlotte Meinsohn, Minsuk Hyun, Rana Suliman, Joy Poulo, Jennifer Y.J. Hsu, Caitlin R. Sacha, Dan Wang, Guangping Gao, Kasper Lage, Esther Oliva, Mary E. Sabatini, Patricia K. Donahoe, David Pépin
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2021.655655

Dysfunction of Decidual Macrophages Is a Potential Risk Factor in the Occurrence of Preeclampsia
Cited by: 9
Author(s): Miaomiao Rong, Xiang-Ping Yan, Zhang Hong-ya, Chan Zhou, Cong Zhang
Software Mentions: 2
Published: over 3 years ago

10.1038/s41421-020-00238-x

Cross-species single-cell transcriptomic analysis reveals pre-gastrulation developmental differences among pigs, monkeys, and humans
Cited by: 27
Author(s): Tianbin Liu, Jie Li, Lei Yu, Hai Xi Sun, Jing Li, Guoyi Dong, Yingying Hu, Yong Li, Yue Shen, Jun Wu, Ying Gu
Software Mentions: 2
Published: almost 4 years ago

10.1186/s13578-021-00635-z

Applications and analytical tools of cell communication based on ligand-receptor interactions at single cell level
Cited by: 17
Author(s): Fen Ma, Siwei Zhang, Lixia Song, Bozhi Wang, Lanlan Wei, Fengmin Zhang
Software Mentions: 2
Published: over 3 years ago

10.3390/ijms21218345

Review of Single-Cell RNA Sequencing in the Heart
Cited by: 38
Author(s): Shintaro Yamada, Seitaro Nomura
Software Mentions: 2
Published: almost 4 years ago

10.1002/advs.202003897

Single‐Cell Transcriptome Analysis Uncovers Intratumoral Heterogeneity and Underlying Mechanisms for Drug Resistance in Hepatobiliary Tumor Organoids
Cited by: 29
Author(s): Yan Zhao, Zhixuan Li, Yanjing Zhu, Jing Fu, Xianzhi Zhao, Yani Zhang, Shan Wang, Jianmin Wu, Kaiting Wang, Rui Wu, Chengjun Sui, Siyun Shen, Xuan Wu, Hongyang Wang, Dong Gao, Lei Chen
Software Mentions: 2
Published: over 3 years ago

10.7554/eLife.59445

High-resolution transcriptional and morphogenetic profiling of cells from micropatterned human ESC gastruloid cultures
Cited by: 54
Author(s): Kyaw Thu Minn, Yaotian Fu, Shenghua He, Sabine Dietmann, Steven C. George, Mark A. Anastasio, Samantha A. Morris, Lilianna Solnica‐Krezel
Software Mentions: 2
Published: almost 4 years ago

10.3390/cells10071785

TNFR2 Signaling Regulates the Immunomodulatory Function of Oligodendrocyte Precursor Cells
Cited by: 12
Author(s): Haritha L. Desu, Placido Illiano, James S. Choi, Maureen C. Ascona, Han Gao, Jae K. Lee, Roberta Brambilla
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2021.702424

A Novel Intercellular Communication-Associated Gene Signature for Prognostic Prediction and Clinical Value in Patients With Lung Adenocarcinoma
Cited by: 3
Author(s): Qiancheng Zhao, Leping Liu, Lu Lu, Rong Gui, Yanwei Luo
Software Mentions: 1
Published: about 3 years ago

10.3389/fimmu.2020.604967

Next Generation Imaging Techniques to Define Immune Topographies in Solid Tumors
Cited by: 9
Author(s): Violena Pietrobon, Alessandra Cesano, Francesco M. Marincola, Jakob Nikolas Kather
Software Mentions: 1
Published: almost 4 years ago

10.3389/fimmu.2020.588021

Microglia Diversity in Health and Multiple Sclerosis
Cited by: 38
Author(s): Sameera Zia, Khalil S. Rawji, Nathan J. Michaels, Mena K. Burr, Bradley J. Kerr, Luke M. Healy, Jason R. Plemel
Software Mentions: 1
Published: almost 4 years ago

10.12703/r/10-49

The role of single-cell sequencing in studying tumour evolution
Cited by: 1
Author(s): Maximilian Mossner, Ann-Marie C Baker, Trevor A. Graham
Software Mentions: 1
Published: over 3 years ago

10.1016/j.coisb.2019.10.005

Studying immune to non-immune cell cross-talk using single-cell technologies
Cited by: 5
Author(s): Rasa Elmentaite, Sarah A. Teichmann, Elo Madissoon
Software Mentions: 1
Published: almost 5 years ago

10.3389/fonc.2021.611580

Single-Cell RNA-seq Reveals Characteristics of Malignant Cells and Immune Microenvironment in Subcutaneous Panniculitis-Like T-Cell Lymphoma
Cited by: 6
Author(s): Zifeng Li, Hongsheng Wang, Rui Dong, J. C. H. de Man, Li Sun, Xiaowen Qian, Xiaohua Zhu, Ping Cao, Yi Yu, Jie Le, Yang Xin Fu, Ping Wang, Wenjin Jiang, Chen Shen, Yangyang Ma, Lian Chen, Yaochen Xu, Jiantao Shi, Hui Zhang, Maoxiang Qian, Xiaowen Zhai
Software Mentions: 1
Published: over 3 years ago

Projects: pypi: CellPhoneDB

Papers Mentioning CellPhoneDB 89