Ecosyste.ms: Papers

10.3389/fmicb.2021.639913

Comparison of Microbial Communities in Colorado Potato Beetles (Leptinotarsa decemlineata Say) Collected From Different Sources in China
Cited by: 6
Author(s): Yanxue Yu, Yuhan Wang, Hongwei Li, Xiubo Yu, Wangpeng Shi, Junfeng Zhai
Software Mentions: 4
Published: over 3 years ago

10.7717/peerj.9452

Integrative analysis of competitive endogenous RNA network reveals the regulatory role of non-coding RNAs in high-glucose-induced human retinal endothelial cells
Cited by: 6
Author(s): Nanjue Cao, Henan Liu, Feng Dong, Wei Wang, Wei Sun, Gang Wang
Software Mentions: 4
Published: over 4 years ago

10.18632/genesandcancer.188

Transcriptomic analysis functionally maps the intrinsically disordered domain of EWS/FLI and reveals novel transcriptional dependencies for oncogenesis
Cited by: 15
Author(s): Emily R. Theisen, Kyle R. Miller, Iftekhar A. Showpnil, Cenny Taslim, Kathleen I. Pishas, Stephen L. Lessnick
Software Mentions: 4
Published: almost 6 years ago

10.7717/peerj.8763

Identification of key genes and pathways affected in epicardial adipose tissue from patients with coronary artery disease by integrated bioinformatics analysis
Cited by: 6
Author(s): Liao Tan, Qian Xu, Qianchen Wang, Ruizheng Shi, Guogang Zhang
Software Mentions: 4
Published: over 4 years ago

10.3390/genes12091375

N6-Methyladenosine-Related lncRNA Signature Predicts the Overall Survival of Colorectal Cancer Patients
Cited by: 12
Author(s): Wei Song, Jun Ren, Wenzheng Yuan, Rensheng Xiang, Yuhang Ge, Tao Fu
Software Mentions: 4
Published: about 3 years ago

10.18632/aging.103253

Systematic metabolic analysis of potential target, therapeutic drug, diagnostic method and animal model applicability in three neurodegenerative diseases
Cited by: 10
Author(s): Wen‐Xing Li, Gong‐Hua Li, Xin Tong, Pengpeng Yang, Jing‐Fei Huang, Lin Xu, Shao‐Xing Dai
Software Mentions: 4
Published: over 4 years ago

10.7717/peerj.10572

Genomic diversity of <i>Escherichia coli</i> from healthy children in rural Gambia
Cited by: 7
Author(s): Ebenezer Foster-Nyarko, Nabil-Fareed Alikhan, Usman N. Ikumapayi, Golam Sarwar, Catherine Okoi, Peggy-Estelle Tientcheu, Marianne Defernez, Justin O’Grady, Martín Antonio, Mark J. Pallen
Software Mentions: 4
Published: almost 4 years ago

10.7717/peerj.7696

The co-expression networks of differentially expressed RBPs with TFs and LncRNAs related to clinical TNM stages of cancers
Cited by: 4
Author(s): Shuaibin Lian, Liansheng Li, Yongjie Zhou, Zixiao Liu, Lei Wang
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-017-01794-1

Hormonal pleiotropy helps maintain queen signal honesty in a highly eusocial wasp
Cited by: 27
Author(s): Ricardo Caliari Oliveira, Ayrton Vollet-Neto, Cíntia Akemi Oi, Jelle S. van Zweden, Fábio Santos do Nascimento, Colin S. Brent, Tom Wenseleers
Software Mentions: 4
Published: over 7 years ago

10.7717/peerj.4017

5-Fluorouracil and irinotecan (SN-38) have limited impact on colon microbial functionality and composition in vitro.
Cited by: 7
Author(s): Eline Vanlancker, Barbara Vanhoecke, Andrea M. Stringer, Tom Van de Wiele
Software Mentions: 4
Published: almost 8 years ago

10.18632/aging.104119

Vascular endothelial growth factor receptor-2 and its association with tumor immune regulatory gene expression in hepatocellular carcinoma
Cited by: 5
Author(s): Ze-Long Liu, Lingling Zhu, Jinghua Liu, Zhaoxia Pu, Zhiping Ruan, Chen Jiang
Software Mentions: 4
Published: about 4 years ago

10.1186/s12885-020-07702-7

The effect of a novel glycolysis-related gene signature on progression, prognosis and immune microenvironment of renal cell carcinoma
Cited by: 35
Author(s): Fangshi Xu, Yawen Guan, Li Xue, Sheng‐Li Huang, Ke Gao, Zhen Yang, Tie Chong
Software Mentions: 4
Published: almost 4 years ago

10.1111/pbi.12995

Genome sequence of <i>Jatropha curcas</i> L., a non‐edible biodiesel plant, provides a resource to improve seed‐related traits
Cited by: 52
Author(s): Jung Min Ha, Sangrea Shim, Taeyoung Lee, Yang Jae Kang, Wooncheol Hwang, Haneul Jeong, Kularb Laosatit, Jayern Lee, Sue K. Kim, Dani Satyawan, Puji Lestari, Min Young Yoon, Moon Y. Kim, Annapurna Chitikineni, Patcharin Tanya, Prakit Somta, Peerasak Srinives, Rajeev K. Varshney, Suk-Ha Lee
Software Mentions: 4
Published: about 6 years ago

10.1186/s12864-021-07712-0

Analysis of the transcriptome of bovine endometrial cells isolated by laser micro-dissection (1): specific signatures of stromal, glandular and luminal epithelial cells
Cited by: 8
Author(s): Wiruntita Chankeaw, Sandra Lignier, Christophe Richard, Theodoros Ntallaris, Mariam Raliou, Yongkang Guo, Damien Plassard, Claudia Bevilacqua, Olivier Sandra, Göran Andersson, P. Humblot, Gilles Charpigny
Software Mentions: 4
Published: over 3 years ago

10.1007/s11105-017-1032-4

Drought-Tolerant Brassica rapa Shows Rapid Expression of Gene Networks for General Stress Responses and Programmed Cell Death Under Simulated Drought Stress
Cited by: 25
Author(s): Yi Guo, Birgit Samans, Sheng Chen, Kidist B. Kibret, Sarah Hatzig, Neil C. Turner, Matthew N. Nelson, Wallace Cowling, Rod J. Snowdon
Software Mentions: 4
Published: over 7 years ago

10.3390/plants10010011

Mechanistic Insight of Allantoin in Protecting Tomato Plants Against Ultraviolet C Stress
Cited by: 23
Author(s): Mona F. A. Dawood, Md. Tahjib‐Ul‐Arif, Abdullah Al Mamun Sohag, Arafat Abdel Hamed Abdel Latef, Marwa M. Ragaey
Software Mentions: 4
Published: almost 4 years ago

10.3390/plants10061246

Genetic Variability of Mineral Content in Different Grain Structures of Bean Cultivars from Mesoamerican and Andean Gene Pools
Cited by: 2
Author(s): Douglas Mariani Zeffa, Alexandre Simões Nogueira, Juliana Sawada Buratto, Raquel Barboza Reis de Oliveira, José dos Santos Neto, Vânia Moda-Cirino
Software Mentions: 4
Published: over 3 years ago

10.1186/s12885-020-07513-w

Ovarian cancer cells direct monocyte differentiation through a non-canonical pathway
Cited by: 5
Author(s): Kaitlin C. Fogg, Andrew Miller, Ying Liu, Will Flanigan, Alyssa Walker, Amy O'Shea, Christina Kendziorski, Pamela K. Kreeger
Software Mentions: 4
Published: about 4 years ago

10.1128/mSystems.00205-17

Interaction between Host MicroRNAs and the Gut Microbiota in Colorectal Cancer
Cited by: 91
Author(s): Ce Yuan, Michael B. Burns, Subbaya Subramanian, Ran Blekhman
Software Mentions: 4
Published: over 6 years ago

10.1128/mSystems.00211-17

Omics-Based Insights into Flavor Development and Microbial Succession within Surface-Ripened Cheese
Cited by: 55
Author(s): Andrea S. Bertuzzi, Aaron M. Walsh, Jeremiah J. Sheehan, Paul D. Cotter, Fiona Crispie, P.L.H. McSweeney, Kieran N. Kilcawley, Mary C. Rea
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pbio.3000849

In vivo antiviral host transcriptional response to SARS-CoV-2 by viral load, sex, and age
Cited by: 203
Author(s): Nicole A P Lieberman, Vikas Peddu, Hong Xie, Lasata Shrestha, Meei Li Huang, Megan Mears, Maria N.B. Cajimat, Dennis A. Bente, Pei Yong Shi, Francesca T. Bovier, Pavitra Roychoudhury, Keith R. Jerome, Anne Moscona, Matteo Porotto, Alexander L. Greninger
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pbio.3000591

Yap suppresses T-cell function and infiltration in the tumor microenvironment
Cited by: 50
Author(s): Eleni Stampouloglou, Nan Cheng, Anthony Federico, Emily M. Slaby, Stefano Monti, Gregory L. Szeto, Xaralabos Varelas
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pbio.3000153

Time-dependent Pax3-mediated chromatin remodeling and cooperation with Six4 and Tead2 specify the skeletal myogenic lineage in developing mesoderm
Cited by: 17
Author(s): Alessandro Magli, June Baik, Lauren J. Mills, Il-Youp Kwak, Bridget S. Dillon, Ricardo Mondragón-González, David Stafford, Scott Swanson, Ron Stewart, James A. Thomson, Daniel J. Garry, Brian David Dynlacht, Rita C.R. Perlingeiro
Software Mentions: 4
Published: over 5 years ago

10.3390/cancers12071816

Characterization of Class-3 Semaphorin Receptors, Neuropilins and Plexins, as Therapeutic Targets in a Pan-Cancer Study
Cited by: 16
Author(s): Xiaoli Zhang, Shuai Shao, Lang Li
Software Mentions: 4
Published: over 4 years ago

10.1128/mSphere.00009-21

Bacterial Quorum-Sensing Signal Arrests Phytoplankton Cell Division and Impacts Virus-Induced Mortality
Cited by: 16
Author(s): Scott Black Pollara, Jamie W. Becker, Brook L. Nunn, Rene Boiteau, Daniel J. Repeta, Miranda C. Mudge, Grayton Downing, Davis Chase, Elizabeth L. Harvey, Kristen E. Whalen
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2021.615416

Correlations Between Intestinal Microbial Community and Hematological Profile in Native Tibetans and Han Immigrants
Cited by: 7
Author(s): Yan Ma, Qin Ga, Ri-Li Ge, Shuang Ma
Software Mentions: 4
Published: over 3 years ago

10.3390/cancers12092466

Expression Profiling of Extracellular Matrix Genes Reveals Global and Entity-Specific Characteristics in Adenoid Cystic, Mucoepidermoid and Salivary Duct Carcinomas
Cited by: 16
Author(s): Christoph Arolt, Moritz Meyer, Franziska Hoffmann, Svenja Wagener‐Ryczek, David Schwarz, Lisa Nachtsheim, Dirk Beutner, Margarete Odenthal, Orlando Guntinas‐Lichius, Reinhard Buettner, Ferdinand von Eggeling, Jens Peter Klußmann, Alexander Quaas
Software Mentions: 4
Published: about 4 years ago

10.3390/cancers13153680

PlasmiR: A Manual Collection of Circulating microRNAs of Prognostic and Diagnostic Value
Cited by: 5
Author(s): Spyros Tastsoglou, Marios Miliotis, Ioannis Kavakiotis, Αθανάσιος Αλεξίου, Eleni C. Gkotsi, Anastasia Lambropoulou, Vasileios Lygnos, Vasiliki Kotsira, Vasileios Maroulis, Dimitrios Zisis, Giorgos Skoufos, Artemis G. Hatzigeorgiou
Software Mentions: 4
Published: over 3 years ago

10.3390/genes11080881

Transcriptomic Analysis Revealed the Common and Divergent Responses of Maize Seedling Leaves to Cold and Heat Stresses
Cited by: 24
Author(s): Yongsheng Li, Xingrong Wang, Yue Li, Yanjun Zhang, Zuowang Gou, Xusheng Qi, Jinlin Zhang
Software Mentions: 4
Published: over 4 years ago

10.1128/mSphere.00936-20

Randomized Controlled Trial of Oral Vancomycin Treatment in Clostridioides difficile-Colonized Patients
Cited by: 18
Author(s): Skye Fishbein, Tiffany Hink, Kimberly A. Reske, Candice Cass, Emily Struttmann, Zainab Hassan Iqbal, Sondra Seiler, Jennie H. Kwon, Carey‐Ann D. Burnham, Gautam Dantas, Erik R. Dubberke
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2021.668644

Ecological Divergence Within the Enterobacterial Genus Sodalis: From Insect Symbionts to Inhabitants of Decomposing Deadwood
Cited by: 9
Author(s): Vojtěch Tláskal, Victor Satler Pylro, Lucia Žifčáková, Petr Baldrián
Software Mentions: 4
Published: over 3 years ago

10.1186/s12920-021-00923-0

Screening of gene markers related to the prognosis of metastatic skin cutaneous melanoma based on Logit regression and survival analysis
Cited by: 3
Author(s): Guoliang Jia, Zheyu Song, Zhijun Xu, Youmao Tao, Yue Wu, Xiaoyu Wang
Software Mentions: 4
Published: over 3 years ago

10.1128/mSphere.01237-20

Soil Health Management Enhances Microbial Nitrogen Cycling Capacity and Activity
Cited by: 16
Author(s): Jialin Hu, Virginia L. Jin, Julie Y. M. Konkel, Sean M. Schaeffer, Liesel G Schneider, Jennifer M. DeBruyn
Software Mentions: 4
Published: over 3 years ago

10.1186/s12872-020-01653-4

Identification of key genes in atrial fibrillation using bioinformatics analysis
Cited by: 4
Author(s): Yueheng Liu, Rui Tang, Ye Zhao, Xuan Jiang, Yuchao Wang, Tingting Gu
Software Mentions: 4
Published: over 4 years ago

10.1186/s12862-021-01762-4

Genome-wide characterization of PEBP family genes in nine Rosaceae tree species and their expression analysis in P. mume
Cited by: 10
Author(s): Man Zhang, Ping Li, Xiao-lan Yan, Jia Wang, Tangren Cheng, Qixiang Zhang
Software Mentions: 4
Published: almost 4 years ago

10.1186/s12876-020-01512-8

Changes in plasma bile acids are associated with gallbladder stones and polyps
Cited by: 11
Author(s): Linshi Wu, Wang Yin-ping, Sibo Zhu, Xiao Bao, Fu Zhuo, Timing Zhen, Zhiqing Yuan, Qiwei Li, Zheng Deng, J. Z. Sun, Tao Chen
Software Mentions: 4
Published: about 4 years ago

10.1038/s41419-021-03826-1

Gata2-L359V impairs primitive and definitive hematopoiesis and blocks cell differentiation in murine chronic myelogenous leukemia model
Cited by: 7
Author(s): Yanbin Fu, Yun Tan, Baichang Wu, Yuting Dai, Xiaoguang Xu, Mengmeng Pan, Zhiwei Chen, Na Qiao, Jing Wu, Lu Jiang, Jing Lu, Bing Chen, Avigail Rein, Shai Izraeli, Xiao Jian Sun, Jinyan Huang, Qiu-Hua Huang, Zhu Chen, Sai‐Juan Chen
Software Mentions: 4
Published: over 3 years ago

10.3390/genes10120979

Transcriptome Analysis of the Cecal Tonsil of Jingxing Yellow Chickens Revealed the Mechanism of Differential Resistance to Salmonella
Cited by: 12
Author(s): Fei Wang, Jin Zhang, Bo Zhu, Jie Wang, Qiao Wang, Maiqing Zheng, Jie Wen, Qinghe Li, Guiping Zhao
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41419-020-02884-1

NLRP7 plays a functional role in regulating BMP4 signaling during differentiation of patient-derived trophoblasts
Cited by: 18
Author(s): Aybuke Alici-Garipcan, Burcu Özçimen, Ilke Süder, Volkan Ülker, Tamer T. Önder, Nesrin Özören
Software Mentions: 4
Published: over 4 years ago

10.1186/s12920-020-0682-5

A pan-cancer study of class-3 semaphorins as therapeutic targets in cancer
Cited by: 37
Author(s): Xiaoli Zhang, Brett Klamer, Jin Li, Soledad Fernández, Lang Li
Software Mentions: 4
Published: over 4 years ago

10.1111/cmi.12397

The co‐transcriptome of uropathogenic<scp><i>E</i></scp><i>scherichia coli</i>‐infected mouse macrophages reveals new insights into host–pathogen interactions
Cited by: 62
Author(s): Charalampos Harris Mavromatis, Nilesh J. Bokil, Makrina Totsika, Asha Kakkanat, Kolja Schaale, Carlo Vittorio Cannistraci, Tae Woo Ryu, Scott A. Beatson, Glen C. Ulett, Mark A. Schembri, Matthew J. Sweet, Timothy Ravasi
Software Mentions: 4
Published: almost 10 years ago

10.1111/cpr.13096

Base editing‐mediated perturbation of endogenous PKM1/2 splicing facilitates isoform‐specific functional analysis in vitro and in vivo
Cited by: 6
Author(s): Jianxiang Lin, Susu Wu, Qingmei Shen, Jie Liu, Shisheng Huang, Guangdun Peng, Yong Qiao
Software Mentions: 4
Published: over 3 years ago

10.3390/genes10100823

Dissecting the Genome-Wide Evolution and Function of R2R3-MYB Transcription Factor Family in Rosa chinensis
Cited by: 13
Author(s): Yu Han, Jiayao Yu, Tao Zhao, Tangren Cheng, Jia Wang, Weiru Yang, Huitang Pan, Qixiang Zhang
Software Mentions: 4
Published: about 5 years ago

10.3389/fmicb.2020.579290

Spatiotemporal Patterns in Diversity and Assembly Process of Marine Protist Communities of the Changjiang (Yangtze River) Plume and Its Adjacent Waters
Cited by: 8
Author(s): Xin Guo, Lianghuan Wu, Lingfeng Huang
Software Mentions: 4
Published: about 4 years ago

10.3389/fneur.2021.576382

Potential Molecular Mechanism of TNF Superfamily-Related Genes in Glioblastoma Multiforme Based on Transcriptome and Epigenome
Cited by: 6
Author(s): Hui Xie, Ce Yuan, Jinjiang Li, Zhaoyang Li, Wei-Cheng Lu
Software Mentions: 4
Published: almost 4 years ago

10.1016/j.celrep.2021.109583

Dynamic bi-directional phosphorylation events associated with the reciprocal regulation of synapses during homeostatic up- and down-scaling
Cited by: 19
Author(s): Kristina Desch, Julian D. Langer, Erin M. Schuman
Software Mentions: 4
Published: over 3 years ago

10.1186/s12864-020-6766-y

Decoupling behavioral and transcriptional responses to color in an eyeless cnidarian
Cited by: 9
Author(s): Whitney B. Leach, Adam M. Reitzel
Software Mentions: 4
Published: over 4 years ago

10.1016/j.celrep.2020.107857

GM-CSF Calibrates Macrophage Defense and Wound Healing Programs during Intestinal Infection and Inflammation
Cited by: 65
Author(s): Tomas Castro‐Dopico, Aaron Fleming, Thomas W. Dennison, John R. Ferdinand, Katherine Harcourt, Benjamin J Stewart, M Zaeem Cader, Zewen Kelvin Tuong, Chenzhi Jing, Laurence S.C. Lok, Rebeccah J. Mathews, Anaïs Portet, Arthur Kaser, Simon Clare, Menna R. Clatworthy
Software Mentions: 4
Published: over 4 years ago

10.1038/s41422-019-0251-7

Guiding T lymphopoiesis from pluripotent stem cells by defined transcription factors
Cited by: 39
Author(s): Rong Guo, Fang Hu, Qitong Weng, Chen Lv, Hongling Wu, Lijuan Liu, Zongcheng Li, Yang Zeng, Zhijie Bai, Mengyun Zhang, Yuting Liu, Xiaofei Liu, Chengxiang Xia, Tongjie Wang, Pingwei Zhou, Kaitao Wang, Yong Dong, Yuxuan Luo, Xiangzhong Zhang, Yuxian Guan, Geng Yang, Juan Du, Yangqiu Li, Yu Lan, Jiekai Chen, Bing Liu, Jinyong Wang
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-021-81551-7

The root endophytic bacterial community of Ricinus communis L. resembles the seeds community more than the rhizosphere bacteria independent of soil water content
Cited by: 8
Author(s): Stephanie Hereira-Pacheco, Yendi E. Navarro‐Noya, Luc Dendooven
Software Mentions: 4
Published: almost 4 years ago

10.3390/cells9081846

Caenorhabditis elegans Deficient in DOT-1.1 Exhibit Increases in H3K9me2 at Enhancer and Certain RNAi-Regulated Regions
Cited by: 6
Author(s): Ruben Esse, Alla Grishok
Software Mentions: 4
Published: over 4 years ago

10.1186/s13020-020-00377-z

Comparison of volatile compounds in different parts of fresh Amomum villosum Lour. from different geographical areas using cryogenic grinding combined HS–SPME–GC–MS
Cited by: 14
Author(s): Lingxiao Chen, Yunfeng Lai, Wei‐Xiong Zhang, Jing Cai, Hao Quan Hu, Ying Wang, Jing Zhao, Shaoping Li
Software Mentions: 4
Published: about 4 years ago

10.1186/s13148-019-0749-3

A genome-wide DNA methylation signature for SETD1B-related syndrome
Cited by: 41
Author(s): Izabela M. Krzyzewska, Saskia M. Maas, Peter Henneman, Karin van der Lip, Andrea Venema, Kristin W. Barañano, Anna Chassevent, Erfan Aref‐Eshghi, Anthonie J. van Essen, Tokiko Fukuda, Hiroko Ikeda, Marie Line Jacquemont, H.-G. Kim, Audrey Labalme, Lewis Sm, Gaëtan Lesca, Irene Madrigal, Sonal Mahida, Naomichi Matsumoto, Raquel Rabionet, Evica Rajcan‐Separovic, Ying Qiao, Bekim Sadiković, Hirotomo Saitsu, David A. Sweetser, Mariëlle Alders, Marcel M.A.M. Mannens
Software Mentions: 4
Published: about 5 years ago

10.1186/s13148-020-00898-2

Integrated epigenetic biomarkers in circulating cell-free DNA as a robust classifier for pancreatic cancer
Cited by: 28
Author(s): Feng Cao, Ailin Wei, Xiaofan Hu, Yijing He, Jun Zhang, Lin Xia, Kailing Tu, Jue Yuan, Ziheng Guo, Hongying Liu, Dan Xie, Ang Li
Software Mentions: 4
Published: over 4 years ago

10.7554/eLife.57438

Tissue-resident macrophages promote extracellular matrix homeostasis in the mammary gland stroma of nulliparous mice
Cited by: 43
Author(s): Ying Wang, Thomas S. Chaffee, Rebecca S. LaRue, Danielle N. Huggins, Patrice M Witschen, Ayman Ibrahim, Andrew C. Nelson, Heather L. Machado, Kathryn L. Schwertfeger
Software Mentions: 4
Published: over 4 years ago

10.1038/s42003-021-02587-z

Probiotic Bifidobacterium longum supplied with methimazole improved the thyroid function of Graves’ disease patients through the gut-thyroid axis
Cited by: 14
Author(s): Dongxue Huo, Chaoping Cen, Haibo Chang, Qianying Ou, Shuaiming Jiang, Pan Yingjie, Kaining Chen, Jiachao Zhang
Software Mentions: 4
Published: about 3 years ago

10.1186/s12864-020-07171-z

A comprehensive analysis of cotton VQ gene superfamily reveals their potential and extensive roles in regulating cotton abiotic stress
Cited by: 14
Author(s): Pengyun Chen, Fei Wei, Shuaishuai Cheng, Liang Ma, Hantao Wang, Meng Zhang, Guangzhi Mao, Jianhua Lü, Pengbo Hao, Adeel Ahmad, Lijiao Gu, Qiang Ma, Aimin Wu, Hengling Wei, Shuang Yu
Software Mentions: 4
Published: about 4 years ago

10.1186/s13054-020-2788-8

Dynamic LTR retrotransposon transcriptome landscape in septic shock patients
Cited by: 5
Author(s): Marine Mommert, Olivier Tabone, Audrey Guichard, Guy Oriol, Elisabeth Cerrato, Mélanie Denizot, Valérie Cheynet, Alexandre Pachot, Alain Lepape, Guillaume Monneret, Fabienne Venet, Karen Brengel‐Pesce, Julien Textoris, François Mallet
Software Mentions: 4
Published: over 4 years ago

10.1093/database/bau092

Renal Gene Expression Database (RGED): a relational database of gene expression profiles in kidney disease
Cited by: 18
Author(s): Qingzhou Zhang, Bo Yang, Xujiao Chen, Jing Xu, Changlin Mei, Zhiguo Mao
Software Mentions: 4
Published: about 10 years ago

10.15252/embj.2018101430

Cyclin F‐dependent degradation of E2F7 is critical for <scp>DNA</scp> repair and G2‐phase progression
Cited by: 33
Author(s): Ruixue Yuan, Qingwu Liu, Hendrika A. Segeren, Laurensia Yuniati, Daniele Guardavaccaro, Robert Jan Lebbink, Bart Westendorp, Alain de Bruin
Software Mentions: 4
Published: about 5 years ago

10.1007/s12975-020-00863-4

Disruptions of Anaerobic Gut Bacteria Are Associated with Stroke and Post-stroke Infection: a Prospective Case–Control Study
Cited by: 60
Author(s): Bastiaan W. Haak, Willeke F. Westendorp, Tjitske S. R. van Engelen, Xanthe Brands, Matthijs C. Brouwer, Jan-Dirk Vermeij, Floor Hugenholtz, Aswin Verhoeven, Rico Derks, Martin Giera, Paul J. Nederkoorn, Willem M. de Vos, Diederik van de Beek, W. Joost Wiersinga
Software Mentions: 4
Published: about 4 years ago

10.1186/s12864-019-6018-1

Transcriptome profile of Corynebacterium pseudotuberculosis in response to iron limitation
Cited by: 19
Author(s): Izabela Coimbra Ibraim, Mariana Teixeira Dornelles Parise, Doglas Parise, Michelle Zibetti Tadra Sfeir, Thiago Luiz de Paula Castro, Alice R. Wattam, Preetam Ghosh, Debmalya Barh, Emannuel Maltempi Souza, Aristóteles Goés-Neto, Anne Cybelle Pinto Gomide, Vasco Azevedo
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-021-07713-z

Analysis of the transcriptome of bovine endometrial cells isolated by laser micro-dissection (2): impacts of post-partum negative energy balance on stromal, glandular and luminal epithelial cells
Cited by: 6
Author(s): Wiruntita Chankeaw, Sandra Lignier, Christophe Richard, Theodoros Ntallaris, Mariam Raliou, Yongkang Guo, Damien Plassard, Claudia Bevilacqua, Olivier Sandra, Gerhard Andersson, P. Humblot, Gilles Charpigny
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.60108

Novel cell types and developmental lineages revealed by single-cell RNA-seq analysis of the mouse crista ampullaris
Cited by: 21
Author(s): Brent A. Wilkerson, Heather L Zebroski, Connor Finkbeiner, Alex Chitsazan, Kathy Beach, Nilasha Sen, Renee C Zhang, Olivia Bermingham‐McDonogh
Software Mentions: 4
Published: over 3 years ago

10.1002/2211-5463.12982

Metabolomic analysis of fibrotic mice combined with public RNA‐Seq human lung data reveal potential diagnostic biomarker candidates for lung fibrosis
Cited by: 8
Author(s): Yosui Nojima, Yoshito Takeda, Yohei Maeda, Takeshi Bamba, Eiichiro Fukusaki, Mari Itoh, Kenji Mizuguchi, Atsushi Kumanogoh
Software Mentions: 4
Published: about 4 years ago

10.3390/toxins13010025

Can Cyanobacterial Diversity in the Source Predict the Diversity in Sludge and the Risk of Toxin Release in a Drinking Water Treatment Plant?
Cited by: 16
Author(s): Farhad Jalili, Hana Trigui, Juan Maldonado, Sarah Dorner, Arash Zamyadi, Ben Shapiro, Yves Terrat, Nathalie Fortin, Sébastien Sauvé, Michèle Prévost
Software Mentions: 4
Published: almost 4 years ago

10.3389/fnbeh.2020.618180

PsyCoP – A Platform for Systematic Semi-Automated Behavioral and Cognitive Profiling Reveals Gene and Environment Dependent Impairments of Tcf4 Transgenic Mice Subjected to Social Defeat
Cited by: 8
Author(s): Paul Volkmann, Marius Stephan, Sven Krackow, Niels Rosendal Jensen, Moritz J. Rossner
Software Mentions: 4
Published: almost 4 years ago

10.3389/fonc.2020.00615

Long Non-coding RNA LINC02195 as a Regulator of MHC I Molecules and Favorable Prognostic Marker for Head and Neck Squamous Cell Carcinoma
Cited by: 29
Author(s): Hao Li, Hong‐Gang Xiong, Yao Xiao, Qi‐Chao Yang, Shao‐Chen Yang, Hongchao Tang, Wenfeng Zhang, Zhi‐Jun Sun
Software Mentions: 4
Published: over 4 years ago

10.3389/fonc.2018.00585

Plasma-Derived Inflammatory Proteins Predict Oral Squamous Cell Carcinoma
Cited by: 15
Author(s): Kelly Yi Ping Liu, Xian Lu, Yuqi Zhu, Nhu D. Le, Hugh Kim, Catherine F. Poh
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12864-021-07881-y

Comprehensive analysis of lncRNAs involved in skeletal muscle development in ZBED6-knockout Bama pigs
Cited by: 5
Author(s): Dandan Wang, Pu Yun, Yefang Li, Dengke Pan, Shengnan Wang, Wenjie Tian, Yuehui Ma, Lin Jiang
Software Mentions: 4
Published: over 3 years ago

10.1186/s12864-017-3755-x

Drosophila melanogaster positive transcriptional elongation factors regulate metabolic and sex-biased expression in adults
Cited by: 3
Author(s): Haiwang Yang, Denis Basquin, Daniel Pauli, Brian Oliver
Software Mentions: 4
Published: over 7 years ago

10.3389/fcell.2021.688855

Transcriptomics Profiling Identifies Cisplatin-Inducible Death Receptor 5 Antisense Long Non-coding RNA as a Modulator of Proliferation and Metastasis in HeLa Cells
Cited by: 7
Author(s): Dilek Cansu Gürer, İpek Erdoğan, Ulvi Ahmadov, Merve Başol, Osama Sweef, Gulcin Cakan-Akdogan, Bünyamin Akgül
Software Mentions: 4
Published: over 3 years ago

10.3389/fonc.2020.00627

High Levels of HIST1H2BK in Low-Grade Glioma Predicts Poor Prognosis: A Study Using CGGA and TCGA Data
Cited by: 20
Author(s): Weidong Liu, Zhentao Xu, Jie Zhou, Shuang Xing, Zhiqiang Li, Xu Gao, Shiyu Feng, Yi Xiao
Software Mentions: 4
Published: over 4 years ago

10.1038/s41598-021-90653-1

Totipotency of mouse zygotes extends to single blastomeres of embryos at the four-cell stage
Cited by: 17
Author(s): Marino Maemura, Hiroaki Taketsuru, Yuki Nakajima, Ruiqi Shao, Ayaka Kakihara, Jumpei Nogami, Yasuyuki Ohkawa, Yu Ichi Tsukada
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-021-90827-x

Ensemble machine learning of factors influencing COVID-19 across US counties
Cited by: 11
Author(s): David McCoy, Whitney Mgbara, Nir Horvitz, Wayne M. Getz, Alan Hubbard
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.57525

The role of the NMD factor UPF3B in olfactory sensory neurons
Cited by: 15
Author(s): Kun Tan, Samantha H. Jones, Blue B. Lake, Jennifer N Dumdie, Eleen Y. Shum, Lingjuan Zhang, Song Chen, Abhishek Sohni, Shivam Pandya, Richard L. Gallo, Kun Zhang, Heidi Cook‐Andersen, Miles Wilkinson
Software Mentions: 4
Published: over 4 years ago

10.3389/fcell.2021.686886

Platelet-Derived Growth Factor-D Activates Complement System to Propagate Macrophage Polarization and Neovascularization
Cited by: 5
Author(s): Ze Xiong, Qianqian Wang, Wanhong Li, Lijuan Huang, Jianing Zhang, Juanhua Zhu, Bingbing Xie, Shasha Wang, Haiqing Kuang, Xianchai Lin, Chunsik Lee, Anil Kumar, Xuri Li
Software Mentions: 4
Published: over 3 years ago

10.18632/aging.202634

Long non-coding RNAs ENST00000429730.1 and MSTRG.93125.4 are associated with metabolic activity in tuberculosis lesions of sputum-negative tuberculosis patients
Cited by: 5
Author(s): Lin Wang, Wen Zhu, Hui Ma, Liwei Wu, Hui Chen, Yijun Zhu, Liangfei Niu, Qihang Wu, Hongwei Li, Lei Shi, Leilei Li, Leiyi Wan, Jun Wang, Ka-Wing Wong, Yanzheng Song
Software Mentions: 4
Published: over 3 years ago

10.1186/s12864-018-4457-8

Genome-wide identification and comprehensive analysis of microRNAs and phased small interfering RNAs in watermelon
Cited by: 10
Author(s): Li Liu, Shuchao Ren, Junqiang Guo, Qingyi Wang, Xiaotuo Zhang, Peiran Liao, Shipeng Li, Ramanjulu Sunkar, Yun Zheng
Software Mentions: 4
Published: over 6 years ago

10.3389/fonc.2021.716921

HNRNPA2B1, as a m6A Reader, Promotes Tumorigenesis and Metastasis of Oral Squamous Cell Carcinoma
Cited by: 22
Author(s): Feiya Zhu, Tianru Yang, Meiling Yao, Ting Shen, Changyun Fang
Software Mentions: 4
Published: about 3 years ago

10.3389/fonc.2020.586820

Tumor Derived SIGLEC Family Genes May Play Roles in Tumor Genesis, Progression, and Immune Microenvironment Regulation
Cited by: 14
Author(s): Chen Zheng, Ming Yu, Lei Guo, Bo Zhang, Shuang Liu, Wentao Zhang, Bing Zhou, Jiuliang Yan, Qianni Ma, Zhixu Yang, Xiao Ye, Yongfeng Xu, Hui Li, Qing–Hai Ye
Software Mentions: 4
Published: about 4 years ago

10.1186/s12864-018-5213-9

Transcriptome analysis of human heart failure reveals dysregulated cell adhesion in dilated cardiomyopathy and activated immune pathways in ischemic heart failure
Cited by: 136
Author(s): Mary E. Sweet, Andrea Cocciolo, Dobromir Slavov, Kenneth L. Jones, Joseph R. Sweet, Sharon Graw, T. Brett Reece, Amrut V. Ambardekar, Michael R. Bristow, Luisa Mestroni, Matthew R.G. Taylor
Software Mentions: 4
Published: about 6 years ago

10.3389/fcell.2021.709498

The Dynamic Changes of Transcription Factors During the Development Processes of Human Biparental and Uniparental Embryos
Cited by: 3
Author(s): Chenxi Zhang, Conghui Li, Ling Yang, Lizhi Leng, Dragomirka Jovic, Jun Wang, Fang Fang, Guibo Li, Depeng Zhao, Xuemei Li, Lin Lin, Yonglun Luo, Lars Bolund, Jinrong Huang, Ge Lin, Fengping Xu
Software Mentions: 4
Published: about 3 years ago

10.3389/fcell.2021.649168

Pan-Cancer Genome-Wide DNA Methylation Analyses Revealed That Hypermethylation Influences 3D Architecture and Gene Expression Dysregulation in HOXA Locus During Carcinogenesis of Cancers
Cited by: 3
Author(s): Gang Liu, Zhenhao Liu, Xiaomeng Sun, Xiaoqiong Xia, Yunhe Liu, Lei Liu
Software Mentions: 4
Published: over 3 years ago

10.1007/s12015-020-10103-9

ActivinA Induced SMAD1/5 Signaling in an iPSC Derived EC Model of Fibrodysplasia Ossificans Progressiva (FOP) Can Be Rescued by the Drug Candidate Saracatinib
Cited by: 9
Author(s): Susanne Hildebrandt, Branka Kampfrath, Kristin Fischer, Laura de Campos Hildebrand, Julia Haupt, Harald Stachelscheid, Petra Knaus
Software Mentions: 4
Published: almost 4 years ago

10.3389/fimmu.2020.00852

Lnc-ITSN1-2, Derived From RNA Sequencing, Correlates With Increased Disease Risk, Activity and Promotes CD4+ T Cell Activation, Proliferation and Th1/Th17 Cell Differentiation by Serving as a ceRNA for IL-23R via Sponging miR-125a in Inflammatory Bowel Disease
Cited by: 36
Author(s): Jiayan Nie, Qiu Zhao
Software Mentions: 4
Published: over 4 years ago

10.3389/fimmu.2020.01982

Human Regulatory Dendritic Cells Develop From Monocytes in Response to Signals From Regulatory and Helper T Cells
Cited by: 10
Author(s): Xiangyue Zhang, Pingping Zheng, Tyler R. Prestwood, Hong Zhang, Yaron Carmi, Lorna Tolentino, Nancy Wu, Okmi Choi, Daniel A. Winer, Samuel Strober, Eun‐Suk Kang, Michael N. Alonso, Edgar G. Engleman
Software Mentions: 4
Published: over 4 years ago

10.3389/fnmol.2021.699562

Spatial RNA Sequencing Identifies Robust Markers of Vulnerable and Resistant Human Midbrain Dopamine Neurons and Their Expression in Parkinson’s Disease
Cited by: 20
Author(s): Julio Águila, Shu Cheng, Nigel Kee, Mengshu Cao, Menghan Wang, Qiaolin Deng, Eva Hedlund
Software Mentions: 4
Published: over 3 years ago

10.3389/fimmu.2018.02902

Maturing Human CD127+ CCR7+ PDL1+ Dendritic Cells Express AIRE in the Absence of Tissue Restricted Antigens
Cited by: 35
Author(s): Joannah R. Fergusson, Michael D. Morgan, Mélanie Bruchard, Leonie F. A. Huitema, Balthasar A. Heesters, Vincent van Unen, Jan Piet van Hamburg, Nicole N. van der Wel, Daisy I. Picavet, Frits Koning, Sander W. Tas, Mark S. Anderson, John C. Marioni, Georg A. Holländer, Hergen Spits
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-021-86504-8

Identification and external validation of a prognostic signature associated with DNA repair genes in gastric cancer
Cited by: 5
Author(s): Shimin Chen, Wenbo Liu, Haojun Yu
Software Mentions: 4
Published: over 3 years ago

10.3389/fimmu.2021.661357

Indoleamine 2,3-Dioxygenase 1 Inhibitor-Loaded Nanosheets Enhance CAR-T Cell Function in Esophageal Squamous Cell Carcinoma
Cited by: 11
Author(s): Jingwen Shao, Lin Hou, Jinyan Liu, Yulin Liu, Jie Ning, Qitai Zhao, Yi Zhang
Software Mentions: 4
Published: over 3 years ago

10.3389/fonc.2020.628608

Upregulation of Long Non-Coding RNA GCC2-AS1 Facilitates Malignant Phenotypes and Correlated With Unfavorable Prognosis for Lung Adenocarcinoma
Cited by: 6
Author(s): Fengqiang Yu, Mingqiang Liang, Weidong Wu, Yu Huang, Juanjuan Zheng, Bin Zheng, Chun Chen
Software Mentions: 4
Published: almost 4 years ago

10.3389/fimmu.2020.573920

High Abundance of Intratumoral γδ T Cells Favors a Better Prognosis in Head and Neck Squamous Cell Carcinoma: A Bioinformatic Analysis
Cited by: 16
Author(s): Huanzi Lu, Daixiu Wei, Junyi Guo, Dikan Wang, Sheng Wen, Lisa Yang, Daowei Lin, Wenqiang Xie, Liling Wen, Juan Fang, Zhi Wang
Software Mentions: 4
Published: about 4 years ago

10.1186/s13395-016-0115-5

Skeletal muscle characteristics are preserved in hTERT/cdk4 human myogenic cell lines
Cited by: 53
Author(s): Matthew Thorley, Stéphanie Duguez, Emilia Maria Cristina Mazza, Sara Valsoni, Anne Bigot, Kamel Mamchaoui, Brennan Harmon, Thomas Voït, Vincent Mouly, William Duddy
Software Mentions: 4
Published: almost 8 years ago

10.3389/fimmu.2018.01693

Immunophenotype and Transcriptome Profile of Patients With Multiple Sclerosis Treated With Fingolimod: Setting Up a Model for Prediction of Response in a 2-Year Translational Study
Cited by: 28
Author(s): Ivo Torres, C. Garcı́a, Marco Marconi, Aránzazu García-Grande, Luis Rodríguez‐Esparragoza, Vı́ctor Elvira, Elvira Ramil, Lucía Campos-Ruíz, Ruth García-Hernández, Fátima Al‐Shahrour, Coral Fustero-Torre, Alicia Sánchez-Sanz, Antonio Garcı́a-Merino, A.J. Sánchez López
Software Mentions: 4
Published: over 6 years ago

10.3389/fmed.2020.615981

DNA Repair-Based Gene Expression Signature and Distinct Molecular Subtypes for Prediction of Clinical Outcomes in Lung Adenocarcinoma
Cited by: 8
Author(s): Bin Hu, Di Liu, Yinqiang Liu, Zhixi Li
Software Mentions: 4
Published: almost 4 years ago

10.3389/fmolb.2021.653805

High Expression Levels of CDK1 and CDC20 in Patients With Lung Squamous Cell Carcinoma are Associated With Worse Prognosis
Cited by: 3
Author(s): Huan Deng, Hang Qin, Deyan Shen, Hangjie Ying, Yibi Zhang, Qinying Xu, Ming Chen
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2017.02559

Patterns and Drivers of Vertical Distribution of the Ciliate Community from the Surface to the Abyssopelagic Zone in the Western Pacific Ocean
Cited by: 32
Author(s): Feng Zhao, Sabine Filker, Kuidong Xu, Pingping Huang, Shan Zheng
Software Mentions: 4
Published: almost 7 years ago

10.1126/scisignal.abf8483

Kynurenic acid may underlie sex-specific immune responses to COVID-19
Cited by: 55
Author(s): Yuping Cai, Daniel Kim, Takehiro Takahashi, David Broadhurst, Yan Hong, Shuanagge Ma, Nicholas J. W. Rattray, Arnau Casanovas‐Massana, Benjamin Israelow, Jonathan Klein, Carolina Lucas, Tianyang Mao, Adam J. Moore, M. Catherine Muenker, Ji Eun Oh, Julio Silva, Patrick Wong, Albert Icksang Ko, Sajid Khan, Akiko Iwasaki, Caroline H. Johnson
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2021.627569

Soil Metagenomics Reveals Effects of Continuous Sugarcane Cropping on the Structure and Functional Pathway of Rhizospheric Microbial Community
Cited by: 64
Author(s): Ziqin Pang, Fei Dong, Qiang Liu, Wenxiong Lin, Chaohua Hu, Zhaonian Yuan
Software Mentions: 4
Published: over 3 years ago