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DeepCropNet: a deep spatial-temporal learning framework for county-level corn yield estimation 期刊论文
ENVIRONMENTAL RESEARCH LETTERS, 2020, 15 (3)
作者:  Lin, Tao;  Zhong, Renhai;  Wang, Yudi;  Xu, Jinfan;  Jiang, Hao;  Xu, Jialu;  Ying, Yibin;  Rodriguez, Luis;  Ting, K. C.;  Li, Haifeng
收藏  |  浏览/下载:10/0  |  提交时间:2020/07/02
yield estimation  corn  LSTM  attention mechanism  multi-task learning  deep learning  
Tertiary lymphoid structures improve immunotherapy and survival in melanoma 期刊论文
NATURE, 2020, 577 (7791) : 561-+
作者:  Cabrita, Rita;  Lauss, Martin;  Sanna, Adriana;  Donia, Marco;  Larsen, Mathilde Skaarup;  Mitra, Shamik;  Johansson, Iva;  Phung, Bengt;  Harbst, Katja;  Vallon-Christersson, Johan;  van Schoiack, Alison;  Loevgren, Kristina;  Warren, Sarah;  Jirstroem, Karin;  Olsson, Hakan;  Pietras, Kristian;  Ingvar, Christian;  Isaksson, Karolin;  Schadendorf, Dirk;  Schmidt, Henrik;  Bastholt, Lars;  Carneiro, Ana;  Wargo, Jennifer A.;  Svane, Inge Marie;  Jonsson, Goran
收藏  |  浏览/下载:40/0  |  提交时间:2020/07/03

Checkpoint blockade therapies that reactivate tumour-associated T cells can induce durable tumour control and result in the long-term survival of patients with advanced cancers(1). Current predictive biomarkers for therapy response include high levels of intratumour immunological activity, a high tumour mutational burden and specific characteristics of the gut microbiota(2,3). Although the role of T cells in antitumour responses has thoroughly been studied, other immune cells remain insufficiently explored. Here we use clinical samples of metastatic melanomas to investigate the role of B cells in antitumour responses, and find that the co-occurrence of tumour-associated CD8(+) T cells and CD20(+) B cells is associated with improved survival, independently of other clinical variables. Immunofluorescence staining of CXCR5 and CXCL13 in combination with CD20 reveals the formation of tertiary lymphoid structures in these CD8(+)CD20(+) tumours. We derived a gene signature associated with tertiary lymphoid structures, which predicted clinical outcomes in cohorts of patients treated with immune checkpoint blockade. Furthermore, B-cell-rich tumours were accompanied by increased levels of TCF7(+) naive and/or memory T cells. This was corroborated by digital spatial-profiling data, in which T cells in tumours without tertiary lymphoid structures had a dysfunctional molecular phenotype. Our results indicate that tertiary lymphoid structures have a key role in the immune microenvironment in melanoma, by conferring distinct T cell phenotypes. Therapeutic strategies to induce the formation of tertiary lymphoid structures should be explored to improve responses to cancer immunotherapy.


The co-occurrence of tumour-associated CD8(+) T cells and CD20(+) B cells, and the formation of tertiary lymphoid structures, are linked with improved survival in cohorts of patients with metastatic melanoma.


  
Decoding the development of the human hippocampus 期刊论文
NATURE, 2020, 577 (7791) : 531-+
作者:  Zhong, Suijuan;  Ding, Wenyu;  Sun, Le;  Lu, Yufeng;  Dong, Hao;  Fan, Xiaoying;  Liu, Zeyuan;  Chen, Ruiguo;  Zhang, Shu;  Ma, Qiang;  Tang, Fuchou;  Wu, Qian;  Wang, Xiaoqun
收藏  |  浏览/下载:14/0  |  提交时间:2020/07/03

The hippocampus is an important part of the limbic system in the human brain that has essential roles in spatial navigation and the consolidation of information from short-term memory to long-term memory(1,2). Here we use single-cell RNA sequencing and assay for transposase-accessible chromatin using sequencing (ATAC-seq) analysis to illustrate the cell types, cell linage, molecular features and transcriptional regulation of the developing human hippocampus. Using the transcriptomes of 30,416 cells from the human hippocampus at gestational weeks 16-27, we identify 47 cell subtypes and their developmental trajectories. We also identify the migrating paths and cell lineages of PAX6(+) and HOPX+ hippocampal progenitors, and regional markers of CA1, CA3 and dentate gyrus neurons. Multiomic data have uncovered transcriptional regulatory networks of the dentate gyrus marker PROX1. We also illustrate spatially specific gene expression in the developing human prefrontal cortex and hippocampus. The molecular features of the human hippocampus at gestational weeks 16-20 are similar to those of the mouse at postnatal days 0-5 and reveal gene expression differences between the two species. Transient expression of the primate-specific gene NBPF1 leads to a marked increase in PROX1(+) cells in the mouse hippocampus. These data provides a blueprint for understanding human hippocampal development and a tool for investigating related diseases.


Single-cell RNA sequencing is used to catalogue and explore the developmental trajectories of more than 30,000 cells in the developing human hippocampus.


  
A deep learning approach to conflating heterogeneous geospatial data for corn yield estimation: A case study of the US Corn Belt at the county level 期刊论文
GLOBAL CHANGE BIOLOGY, 2019
作者:  Jiang, Hao;  Hu, Hao;  Zhong, Renhai;  Xu, Jinfan;  Xu, Jialu;  Huang, Jingfeng;  Wang, Shaowen;  Ying, Yibin;  Lin, Tao
收藏  |  浏览/下载:9/0  |  提交时间:2020/02/17
climate change impact  corn yield  deep learning  geospatial discovery  phenology  
Seasonal drought ensemble predictions based on multiple climate models in the upper Han River Basin, China 期刊论文
CLIMATE DYNAMICS, 2019, 53 (12) : 7447-7460
作者:  Ma, Feng;  Ye, Aizhong;  Duan, Qingyun
收藏  |  浏览/下载:10/0  |  提交时间:2020/02/17
Seasonal drought forecasting system  NMME  DTVGM  Soil moisture  Han River basin  
Spatial patterns of precipitation-induced moisture availability and their effects on the divergence of conifer stem growth in the western and eastern parts of China's semi-arid region. 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2019, 451
作者:  Zeng, Xiaomin;  Evans, Michael N.;  Liu, Xiaohong;  Wang, Wenzhi;  Xu, Guobao;  Wu, Guoju;  Zhang, Lingnan
收藏  |  浏览/下载:9/0  |  提交时间:2019/11/27
Drought  Semi-arid  Tree rings  Vaganov-Shashkin-Lite model  Emission scenarios  Water memory effect  
Isolated cortical computations during delta waves support memory consolidation 期刊论文
SCIENCE, 2019, 366 (6463) : 377-+
作者:  Todorova, Ralitsa;  Zugaro, Michael
收藏  |  浏览/下载:1/0  |  提交时间:2019/11/27
A sense of space in postrhinal cortex 期刊论文
SCIENCE, 2019, 365 (6449) : 141-+
作者:  LaChance, Patrick A.;  Todd, Travis P.;  Taube, Jeffrey S.
收藏  |  浏览/下载:2/0  |  提交时间:2019/11/27
Sequential replay of nonspatial task states in the human hippocampus 期刊论文
SCIENCE, 2019, 364 (6447) : 1254-+
作者:  Schuck, Nicolas W.;  Niv, Yael
收藏  |  浏览/下载:0/0  |  提交时间:2019/11/27
Long-duration hippocampal sharp wave ripples improve memory 期刊论文
SCIENCE, 2019, 364 (6445) : 1082-+
作者:  Fernandez-Ruiz, Antonio;  Oliva, Azahara;  de Oliveira, Eliezyer Fermino;  Rocha-Almeida, Florbela;  Tingley, David;  Buzsaki, Gyorgy
收藏  |  浏览/下载:4/0  |  提交时间:2019/11/27