cran: pheatmap | Projects | Ecosyste.ms: Papers

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/fmolb.2021.583028

CCR7 Has Potential to Be a Prognosis Marker for Cervical Squamous Cell Carcinoma and an Index for Tumor Microenvironment Change
Cited by: 4
Author(s): Weijie Tian, Penghui Feng, Jun Wang, Ting Yan, Qing-Feng Qin, Donglin Li, Wei Liang
Software Mentions: 4
Published: over 3 years ago

10.1007/s00401-020-02176-0

Congenic expression of poly-GA but not poly-PR in mice triggers selective neuron loss and interferon responses found in C9orf72 ALS
Cited by: 36
Author(s): Katherine D. LaClair, Qihui Zhou, Meike Michaelsen, Benedikt Wefers, Monika S. Brill, Aleksandar Janjic, Birgit Rathkolb, Daniel Farny, Mikolaj Cygan, Martin Hrabě de Angelis, Wolfgang Wurst, Manuela Neumann, Wolfgang Enard, Thomas Misgeld, Thomas Arzberger, Dieter Edbauer
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0242382

Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand
Cited by: 0
Author(s): Arin Ngamniyom
Software Mentions: 4
Published: about 4 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

10.1038/s41598-021-93855-9

Sex and age bias viral burden and interferon responses during SARS-CoV-2 infection in ferrets
Cited by: 10
Author(s): Magen E. Francis, Brian Richardson, Una Goncin, Mara McNeil, Melissa Rioux, Mary K. Foley, Anni Ge, Roger D. Pechous, Jason Kindrachuk, Cheryl M. Cameron, Christopher T. Richardson, J. Lew, Steven Machtaler, Mark J. Cameron, Volker Gerdts, Darryl Falzarano, Alyson A. Kelvin
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0104355

Copy Number Variation in Thai Population
Cited by: 25
Author(s): Bhoom Suktitipat, Chaiwat Naktang, Wuttichai Mhuantong, Tularak Thitima, Paramita Artiwet, Pasomsap Ekawat, Wallaya Jongjaroenprasert, Suthat Fuchareon, Surakameth Mahasirimongkol, Wasun Chantratita, Boonsit Yimwadsana, Varodom Charoensawan, Natini Jinawath
Software Mentions: 4
Published: over 10 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

10.1038/s41598-021-94541-6

Identification of tumor microenvironment-related prognostic genes in colorectal cancer based on bioinformatic methods
Cited by: 15
Author(s): Yi Liu, Long Cheng, Chao Li, Chen Zhang, Lei Wang, Jiantao Zhang
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0206948

Comparative mRNA and miRNA transcriptome analysis of a mouse model of IGFIR-driven lung cancer
Cited by: 4
Author(s): Robert A. Jones, S. Elizabeth Franks, Roger A. Moorehead
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0176669

Development of the cutaneous microbiome in the preterm infant: A prospective longitudinal study
Cited by: 33
Author(s): Mohan Pammi, Jacqueline O’Brien, Nadim J. Ajami, Matthew C. Wong, James Versalovic, Joseph F. Petrosino
Software Mentions: 4
Published: over 7 years ago

10.18632/oncotarget.20940

PTEN loss is associated with prostate cancer recurrence and alterations in tumor DNA methylation profiles
Cited by: 29
Author(s): Milan S. Geybels, Min Fang, Jonathan L. Wright, Xiaoyu Qu, Marina Bibikova, Brandy Klotzle, Jie Fan, Ziding Feng, Elaine A. Ostrander, Peter S. Nelson, Janet L. Stanford
Software Mentions: 4
Published: about 7 years ago

10.1038/s41598-021-96033-z

Combined genetic and chemical screens indicate protective potential for EGFR inhibition to cardiomyocytes under hypoxia
Cited by: 3
Author(s): Juho Heliste, Anne Jokilammi, Katri Vaparanta, Ilkka Paatero, Klaus Elenius
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/s12864-021-07712-0

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

10.1186/s12864-020-6613-1

Genome-wide analysis reveals molecular convergence underlying domestication in 7 bird and mammals
Cited by: 11
Author(s): Yali Hou, Furong Qi, Xue Bai, Tong Ren, Xu Shen, Qing Chu, Xiquan Zhang, Xuemei Lu
Software Mentions: 4
Published: over 4 years ago

10.1111/cmi.12397

The co‐transcriptome of uropathogenic<scp>E</scp>scherichia coli‐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

10.1126/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

10.1371/journal.pone.0252452

Comprehensive analysis of lncRNA biomarkers in kidney renal clear cell carcinoma by lncRNA-mediated ceRNA network
Cited by: 4
Author(s): Ke Gong, Ting Xie, Yiliao Luo, Hui Guo, Jinlan Chen, Zhiping Tan, Yifeng Yang, Li Xie
Software Mentions: 4
Published: over 3 years ago

10.1186/s12859-021-04301-6

neoDL: a novel neoantigen intrinsic feature-based deep learning model identifies IDH wild-type glioblastomas with the longest survival
Cited by: 3
Author(s): Taixiang Sun, Yufei He, Wendong Li, Guang Liu, Lin Li, Lu Wang, Zixuan Xiao, Xiaohan Han, Hao Wen, Yong Liu, Yifan Chen, Haoyu Wang, Jing Li, Yubo Fan, Wei Zhang, Jing Zhang
Software Mentions: 4
Published: over 3 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

10.1186/s12864-019-5910-z

Identification and differential expression analysis of anthocyanin biosynthetic genes in leaf color variants of ornamental kale
Cited by: 24
Author(s): Na Guo, Shuo Han, Ming Zong, Guixiang Wang, Shuning Zheng, Fan Liu
Software Mentions: 4
Published: over 5 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

10.1371/journal.pone.0201690

Strap associates with Csde1 and affects expression of select Csde1-bound transcripts
Cited by: 5
Author(s): Kat Moore, Nurcan Yağcı, Floris van Alphen, Alexander B. Meijer, Peter A.C. ’t Hoen, Marieke von Lindern
Software Mentions: 4
Published: over 6 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

10.1371/journal.pone.0229308

Weighted gene co-expression network analysis identified six hub genes associated with rupture of intracranial aneurysms
Cited by: 6
Author(s): Qunhui Wang, Qiong Luo, Zhuo Yang, Yuhao Zhao, Jiaqi Li, Jian Wang, Jianmin Piao, Xuan Chen
Software Mentions: 4
Published: almost 5 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

10.1186/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

10.1186/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

10.1371/journal.pone.0255822

Evaluation of the severity of nonalcoholic fatty liver disease through analysis of serum exosomal miRNA expression
Cited by: 5
Author(s): Jeong‐An Gim, Soo Min Bang, Young‐Sun Lee, Sun Young Yim, Young Kul Jung, Hayeon Kim, Baek-hui Kim, Ji Hoon Kim, Yeon Seok Seo, Hyung Joon Yim, Jong Eun Yeon, Soon Ho Um, Kwan Soo Byun
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

10.1111/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

10.1186/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

10.3389/fonc.2021.680918

Hippo Pathway Core Genes Based Prognostic Signature and Immune Infiltration Patterns in Lung Squamous Cell Carcinoma
Cited by: 26
Author(s): Chang Gu, Jiafei Chen, Xuening Dang, Chunji Chen, Zhenyu Huang, Weidong Shen, Xin Shi, Chenyang Dai, Chang Chen
Software Mentions: 4
Published: over 3 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

10.1371/journal.pone.0219980

Identification of pathological RA endotypes using blood-based biomarkers reflecting tissue metabolism. A retrospective and explorative analysis of two phase III RA studies
Cited by: 10
Author(s): Joseph Blair, Cecilie L. Bager, Adam Platt, Morten A. Karsdal, Anne‐Christine Bay‐Jensen
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

10.1007/s00204-021-03127-8

Fluorescent tagging of endogenous Heme oxygenase-1 in human induced pluripotent stem cells for high content imaging of oxidative stress in various differentiated lineages
Cited by: 11
Author(s): Kirsten E. Snijders, András Fehér, Zsuzsanna Táncos, István Bock, Annamária Téglási, Linda van den Berk, Marije Niemeijer, Peter Bouwman, Sylvia E. Le Dévédec, Martijn J. Moné, Rob Van Rossom, Manoj Kumar, Anja Wilmes, Paul Jennings, Cathérine Verfaillie, Julianna Kobolák, Bas ter Braak, András Dinnyés, Bob van de Water
Software Mentions: 4
Published: about 3 years ago

10.3389/fonc.2020.583053

Identification of Key Genes in Purine Metabolism as Prognostic Biomarker for Hepatocellular Carcinoma
Cited by: 14
Author(s): Wenjing Su, Peizhi Lu, Yong Wu, K. P. Kannan, Chengkun Yang, Guo‐Dong Lu
Software Mentions: 4
Published: almost 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

10.18632/oncotarget.26322

Differential gene expression in human tissue resident regulatory T cells from lung, colon, and blood
Cited by: 13
Author(s): Magdalena Niedzielska, Elisabeth Israelsson, B. Angermann, Ben S. Sidders, Maryam Clausen, Matthew C. Catley, Rajneesh Malhotra, Céline Dumont
Software Mentions: 4
Published: about 6 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

10.1186/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

10.1371/journal.pone.0243748

Diversity and functional prediction of microbial communities involved in the first aerobic bioreactor of coking wastewater treatment system
Cited by: 14
Author(s): Jinsi Deng, Baoshan Zhang, Junting Xie, Haixia Wu, Zemin Li, Guanglei Qiu, Chaohai Wei, Shuang Zhu
Software Mentions: 4
Published: almost 4 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

10.7554/eLife.56554

Cytotoxic T cells swarm by homotypic chemokine signalling
Cited by: 32
Author(s): Jorge Luis Galeano Niño, Sophie V. Pageon, Szun S. Tay, Feyza Colakoglu, Daryan Kempe, Jack D. Hywood, Jessica K Mazalo, James Cremasco, Matt Govendir, Laura F. Dagley, Ku‐Lung Hsu, Simone Rizzetto, Jerzy Zieba, Gregory Rice, Victoria Prior, Geraldine M. O’Neill, Richard J. Williams, David R. Nisbet, Belinda Kramer, Andrew I. Webb, Fabio Luciani, Mark Read, Maté Biro
Software Mentions: 4
Published: about 4 years ago

10.3390/ijms21175990

Peripheral Cytokine Levels Differ by HPV Status and Change Treatment-Dependently in Patients with Head and Neck Squamous Cell Carcinoma
Cited by: 14
Author(s): D Mytilineos, Jasmin Ezić, Adrian von Witzleben, Joannis Mytilineos, Ramin Lotfi, Daniel E. Fürst, Chrysanthi Tsamadou, Marie‐Nicole Theodoraki, Angelika Oster, Gunnar Völkel, Hans A. Kestler, Cornelia Brunner, Patrick J. Schuler, Johannes Doescher, Thomas Hoffmann, Simon Laban
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0122143

Integrative Analysis of Normal Long Intergenic Non-Coding RNAs in Prostate Cancer
Cited by: 27
Author(s): Pushpinder Bawa, Sajna Zackaria, Mohit Verma, Saurabh Gupta, Srivatsan Raghunathan, Bibha Chaudhary, Subhashini Srinivasan
Software Mentions: 4
Published: over 9 years ago

10.3389/fgene.2020.00912

Identification and Validation of an Immunological Expression-Based Prognostic Signature in Breast Cancer
Cited by: 7
Author(s): Jianying Pei, Yan Li, Tianxiong Su, Qiaomei Zhang, Xiaohai He, Dan Tao, Yanyun Wang, Manqiu Yuan, Yanping Li
Software Mentions: 4
Published: about 4 years ago

10.7554/eLife.35786

Human axial progenitors generate trunk neural crest cells in vitro
Cited by: 70
Author(s): Thomas J.R. Frith, Ilaria Granata, Matthew Wind, Erin Stout, Oliver Thompson, Katrin Neumann, Dylan Stavish, Paul R. Heath, Daniel Ortmann, James Hackland, Konstantinos Anastassiadis, Mina Gouti, James Briscoe, Valerie Wilson, Stuart L. Johnson, Marysia Placzek, Mario Rosario Guarracino, Peter W. Andrews, Anestis Tsakiridis
Software Mentions: 4
Published: over 6 years ago

10.3389/fgene.2020.598743

A Pan-Cancer Study of Epidermal Growth Factor-Like Domains 6/7/8 as Therapeutic Targets in Cancer
Cited by: 3
Author(s): Shanping Shi, Ting Ma, Yang Xi
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pone.0250720

Effects of juvenile hormone in fertility and fertility-signaling in workers of the common wasp Vespula vulgaris
Cited by: 11
Author(s): Cíntia Akemi Oi, Helena Mendes Ferreira, Rafael Carvalho da Silva, Andreas Bienstman, Fábio Santos do Nascimento, Tom Wenseleers
Software Mentions: 4
Published: over 3 years ago

10.3389/fimmu.2021.670777

Decidual NR2F2-Expressing CD4+ T Cells Promote TH2 Transcriptional Program During Early Pregnancy
Cited by: 2
Author(s): Yan Lin, Di Zhang, Yangyang Li, Yunyun Li, Bin Li, Meirong Du
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.741608

Identification of Key Regulators of Hepatitis C Virus-Induced Hepatocellular Carcinoma by Integrating Whole-Genome and Transcriptome Sequencing Data
Cited by: 7
Author(s): L. Chen, Wei Zhang, Yiran Ben
Software Mentions: 4
Published: about 3 years ago

10.3389/fgene.2021.641117

Gene Expression Analysis Suggests Immunological Changes of Peripheral Blood Monocytes in the Progression of Patients With Coronary Artery Disease
Cited by: 6
Author(s): Chunyue Wang, Chenxi Song, Qianqian Liu, Rui Zhang, Rui Fu, Hao Wang, Yin Ding, Weihua Song, Haitao Zhang, Kefei Dou
Software Mentions: 4
Published: over 3 years ago

10.3390/ijms18030627

Evaluation and Adaptation of a Laboratory-Based cDNA Library Preparation Protocol for Retrospective Sequencing of Archived MicroRNAs from up to 35-Year-Old Clinical FFPE Specimens
Cited by: 14
Author(s): Olivier Loudig, Tao Wang, Kenny Ye, Juan Lin, Yihong Wang, Andrew Ramnauth, Christina Liu, Azadeh Stark, Dhananjay Chitale, Robert T. Greenlee, Deborah Multerer, Stacey Honda, Yihe G. Daida, Heather Spencer Feigelson, Andrew G. Glass, Fergus J. Couch, Thomas E. Rohan, Iddo Z. Ben‐Dov
Software Mentions: 4
Published: over 7 years ago

10.3389/fgene.2020.00176

Integrative Analysis of MicroRNA and Gene Interactions for Revealing Candidate Signatures in Prostate Cancer
Cited by: 34
Author(s): Jingchao Wei, Yinghao Yin, Qiancheng Deng, Jun Zhou, Yong Wang, Guangming Yin, Jianfu Yang, Yuxin Tang
Software Mentions: 4
Published: over 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

10.3390/cancers12123789

Neural Networks Recapitulation by Cancer Cells Promotes Disease Progression: A Novel Role of p73 Isoforms in Cancer-Neuronal Crosstalk
Cited by: 16
Author(s): Stella Logotheti, Stephan Marquardt, Christin Richter, Renée Sophie Hain, Nico Murr, Işıl Takan, Athanasia Pavlopoulou, Brigitte M. Pützer
Software Mentions: 4
Published: almost 4 years ago

10.3390/cancers13123054

Myeloid-Specific Acly Deletion Alters Macrophage Phenotype In Vitro and In Vivo without Affecting Tumor Growth
Cited by: 6
Author(s): Kyra E. de Goede, Sanne G.S. Verberk, Jeroen Baardman, Karl J. Harber, Yvette van Kooyk, Menno P.J. de Winther, Sjoerd Schetters, Jan Van den Bossche
Software Mentions: 4
Published: over 3 years ago

10.3389/fonc.2020.517637

The Landscape of Immune Cells Infiltrating in Prostate Cancer
Cited by: 54
Author(s): Zhicong Wu, Hua Chen, Wenyang Luo, Hanyun Zhang, Guihuan Li, Fanning Zeng, Fan Deng
Software Mentions: 4
Published: about 4 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

10.3390/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

10.3389/fgene.2021.608936

Whole Genome Level Analysis of the Wnt and DIX Gene Families in Mice and Their Coordination Relationship in Regulating Cardiac Hypertrophy
Cited by: 6
Author(s): Zhongchao Gai, Yujiao Wang, Lü Tian, Guoli Gong, Jieqiong Zhao
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.684281

A Robust Seven-Gene Signature Associated With Tumor Microenvironment to Predict Survival Outcomes of Patients With Stage III–IV Lung Adenocarcinoma
Cited by: 3
Author(s): Hao Zhao, Xuening Zhang, Liting Guo, Songhe Shi, Ciyong Lu
Software Mentions: 4
Published: about 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

10.3389/fgene.2020.599834

An Integrated Transcriptome Analysis Reveals IGFBP7 Upregulation in Vasculature in Traumatic Brain Injury
Cited by: 3
Author(s): Jianhao Wang, Xiangyi Deng, Yuan Xie, Jiefu Tang, Ziwei Zhou, Fan Yang, Qiyuan He, Qingze Cao, Lei Zhang, Liqun He
Software Mentions: 4
Published: almost 4 years ago

10.3389/fgene.2020.00294

Methylation-Driven Genes Identified as Novel Prognostic Indicators for Thyroid Carcinoma
Cited by: 12
Author(s): Liting Lv, Liyu Cao, Guoqing Hu, Qinyan Shen, Jiaming Wu
Software Mentions: 4
Published: over 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

10.3390/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

10.3389/fgene.2020.597459

Pearl Sac Gene Expression Profiles Associated With Pearl Attributes in the Silver-Lip Pearl Oyster, Pinctada maxima
Cited by: 9
Author(s): Carmel McDougall, Felipe Aguilera, Ali Shokoohmand, Patrick Moase, Bernard M. Degnan
Software Mentions: 4
Published: almost 4 years ago

10.1186/s13018-021-02658-1

Potential genes and pathways associated with heterotopic ossification derived from analyses of gene expression profiles
Cited by: 5
Author(s): Zhanyu Yang, Delong Liu, Rui Guan, Li X, Yiwei Wang, Bin Sheng
Software Mentions: 4
Published: over 3 years ago

10.1186/s12934-021-01658-4

Transcriptomics reveal different metabolic strategies for acid resistance and gamma-aminobutyric acid (GABA) production in select Levilactobacillus brevis strains
Cited by: 7
Author(s): Sagarika Banerjee, M. H. Poore, Svetlana Gerdes, Derek Nedveck, Lene Lauridsen, Heidi Thomsen Kristensen, Henrik Max Jensen, Phillip M. Byrd, Arthur C. Ouwehand, Elaine Patterson, Wesley Morovic
Software Mentions: 4
Published: about 3 years ago

10.1111/acel.13178

The inherited methylome landscape is directly altered with paternal aging and associated with offspring neurodevelopmental disorders
Cited by: 27
Author(s): Michelle M. Denomme, Mary E. Haywood, Jason C. Parks, William B. Schoolcraft, Mandy G. Katz‐Jaffe
Software Mentions: 4
Published: over 4 years ago

10.1111/1751-7915.13871

Strain diversity of plant‐associated Lactiplantibacillus plantarum
Cited by: 15
Author(s): Alice Yu, Elissa A. Goldman, Jason T. Brooks, Benjamin L. Golomb, Irene S. Yim, Velitchka Gotcheva, Angel Angelov, Eun Bae Kim, Maria L. Marco
Software Mentions: 4
Published: over 3 years ago

10.3390/metabo8030041

Unbiased Lipidomic Profiling of Triple-Negative Breast Cancer Tissues Reveals the Association of Sphingomyelin Levels with Patient Disease-Free Survival
Cited by: 27
Author(s): Preeti Purwaha, Franklin Gu, Danthasinghe Waduge Badrajee Piyarathna, Theckelnaycke Rajendiran, Anindita Ravindran, Angela R. Omilian, Sao Jiralerspong, Gokul M. Das, Carl Morrison, Christine B. Ambrosone, Cristian Coarfa, Nagireddy Putluri, Arun Sreekumar
Software Mentions: 4
Published: over 6 years ago

10.1099/mgen.0.000582

Achromobacter spp. genetic adaptation in cystic fibrosis
Cited by: 4
Author(s): Miglė Gabrielaitė, Finn C. Nielsen, Helle Krogh Johansen, Rasmus Lykke Marvig
Software Mentions: 4
Published: over 3 years ago

10.1155/2020/6420425

Protein Kinase A Is Involved in Neuropathic Pain by Activating the p38MAPK Pathway to Mediate Spinal Cord Cell Apoptosis
Cited by: 9
Author(s): Yajun Deng, Liang Yang, Qiqi Xie, Fengbiao Yang, Guoqiang Li, Guang-Zhi Zhang, Shaoping Li, Zhi-Xi Wu, Jing Wang, Xuewen Kang
Software Mentions: 4
Published: over 4 years ago

10.1038/s41438-020-00360-7

The IAA- and ABA-responsive transcription factor CgMYB58 upregulates lignin biosynthesis and triggers juice sac granulation in pummelo
Cited by: 37
Author(s): Meiyan Shi, Xiao Liu, Haipeng Zhang, Zhen-Yu He, Hong-Chang Yang, Jiajing Chen, Jia Feng, Wenhui Yang, Youwu Jiang, Jia‐Long Yao, Cecilia Deng, Juan Xu
Software Mentions: 4
Published: about 4 years ago

10.18632/aging.202917

Development of a prognostic index and screening of prognosis related genes based on an immunogenomic landscape analysis of bladder cancer
Cited by: 14
Author(s): Genyi Qu, Zhengsheng Liu, Guang Yang, Yong Xu, Maolin Xiang, Chaowei Tang
Software Mentions: 4
Published: over 3 years ago

10.26508/lsa.201900535

The molecular clock protein Bmal1 regulates cell differentiation in mouse embryonic stem cells
Cited by: 12
Author(s): Amador Gallardo, Ana Rodríguez Molina, Helena G Asenjo, Jordi Martorell-Marugán, Rosa Montes, Verónica Ramos-Mejía, Antonio Sánchez–Pozo, Pedro Carmona-Sáez, Lourdes López-Onieva, David Landeira
Software Mentions: 4
Published: over 4 years ago

10.1016/j.gpb.2019.05.005

Genome-wide 5-Hydroxymethylcytosine Profiling Analysis Identifies MAP7D1 as A Novel Regulator of Lymph Node Metastasis in Breast Cancer
Cited by: 8
Author(s): Shuang‐Ling Wu, Xiaoyi Zhang, Mengqi Chang, Changcai Huang, Jun Qian, Qing Li, Fang Yuan, Lihong Sun, Xinmiao Yu, Xinmiao Cui, Jiaxin Jiang, Meng-Yao Cui, Ye Liu, Hengchao Wu, Liang Zeng, Xiaoyue Wang, Yamei Niu, Wei‐Min Tong, Feng Jin
Software Mentions: 4
Published: almost 4 years ago

10.1016/j.immuni.2020.08.004

Osteopontin Expression Identifies a Subset of Recruited Macrophages Distinct from Kupffer Cells in the Fatty Liver
Cited by: 243
Author(s): Anneleen Remmerie, Liesbet Martens, Tinne Thoné, Ângela Castoldi, Ruth Seurinck, Benjamin Pavie, Joris Roels, Bavo Vanneste, Sofie De Prijck, Mathias Vanhockerhout, Mushida Binte Abdul Latib, Lindsey Devisscher, Anne Hoorens, Johnny Bonnardel, Niels Vandamme, Anna Kremer, Peter Borghgraef, Hans Van Vlierberghe, Saskia Lippens, Edward J. Pearce, Yvan Saeys, Charlotte Scott
Software Mentions: 4
Published: about 4 years ago

10.3389/fgene.2019.00217

Genomic, Transcriptomic, and Epigenomic Features Differentiate Genes That Are Relevant for Muscular Polyunsaturated Fatty Acids in the Common Carp
Cited by: 18
Author(s): Hanyuan Zhang, Peng Xu, Yanliang Jiang, Zixia Zhao, Jianxin Feng, Ruyu Tai, Chuanju Dong, Jian Xu
Software Mentions: 4
Published: over 5 years ago

10.3390/life11060578

Comparative Analysis of Flavonoid Metabolites in Foxtail Millet (Setaria italica) with Different Eating Quality
Cited by: 8
Author(s): Yakun Zhang, Jianhua Gao, Qianru Qie, Yulu Yang, Siyu Hou, Xingchun Wang, Xukai Li, Yuanhuai Han
Software Mentions: 4
Published: over 3 years ago

10.3390/life11050442

An Unsupervised Algorithm for Host Identification in Flaviviruses
Cited by: 1
Author(s): Phuoc Truong Nguyen, Santiago Garcı́a-Vallvé, Pere Puigbò
Software Mentions: 4
Published: over 3 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

10.3390/life11070701

RiboNT: A Noise-Tolerant Predictor of Open Reading Frames from Ribosome-Protected Footprints
Cited by: 8
Author(s): Bo Song, Mengyun Jiang, Lei Gao
Software Mentions: 4
Published: over 3 years ago

10.3390/life11020113

Transcriptomic Analysis of the Anthocyanin Biosynthetic Pathway Reveals the Molecular Mechanism Associated with Purple Color Formation in Dendrobium Nestor
Cited by: 12
Author(s): Xueqiang Cui, Deng Jieling, Chongxing Huang, Xuan Tang, Xianmin Li, Xiuling Li, Lu JiaShi, Zibin Zhang
Software Mentions: 4
Published: almost 4 years ago

10.1186/s40168-021-01071-4

A synthetic probiotic engineered for colorectal cancer therapy modulates gut microbiota
Cited by: 60
Author(s): Yusook Chung, Yongku Ryu, Byung Chull An, Yeo-Sang Yoon, Oksik Choi, Tai Yeub Kim, Jae Kyung Yoon, Jun Young Ahn, Ho Jin Park, Soon-Kyeong Kwon, Jihyun F. Kim, Myung Jun Chung
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/s40168-019-0671-0

Phyllosphere epiphytic and endophytic fungal community and network structures differ in a tropical mangrove ecosystem
Cited by: 118
Author(s): Hui Yao, Xiang Sun, Chunguang He, Pulak Maitra, Xingchun Li, Liang Guo
Software Mentions: 4
Published: over 5 years ago

10.3390/life11080814

The Role of the Songbird Trade as an Anthropogenic Vector in the Spread of Invasive Non-Native Mynas in Indonesia
Cited by: 2
Author(s): Vincent Nijman, Marco Campera, Muhammad Ali Imron, Ahmad Ardiansyah, Abdullah Langgeng, Tungga Dewi, Katherine Hedger, Rifqi Hendrik, K. A. I. Nekaris
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.700489

Comparative Transcriptome Analysis of Milk Somatic Cells During Lactation Between Two Intensively Reared Dairy Sheep Breeds
Cited by: 4
Author(s): Sofia Michailidou, Athanasios Ι. Gelasakis, Georgios Banos, G. Arsenos, Anagnostis Argiriou
Software Mentions: 4
Published: over 3 years ago

10.1002/cam4.3854

Identification of MEG8/miR‐378d/SOBP axis as a novel regulatory network and associated with immune infiltrates in ovarian carcinoma by integrated bioinformatics analysis
Cited by: 7
Author(s): Jiang Lei, Zhen-Yu He, Jun Wang, Min Hu, Ping Zhou, Chen-Lu Lian, Hua Li, San‐Gang Wu, Juan Zhou
Software Mentions: 4
Published: over 3 years ago

10.1002/cam4.2035

Dysregulation, functional implications, and prognostic ability of the circadian clock across cancers
Cited by: 19
Author(s): Yi Li, Kai Yu, Jian Zheng, Huan Lin, Qi Zhao, Xiaolong Zhang, Wei Feng, Li-Yu Wang, Jianjun Xu, Dawei Xie, Zhixiang Zuo, Zexian Liu, Qi Zheng
Software Mentions: 4
Published: almost 6 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

10.1172/jci.insight.147413

COVID-19 and RA share an SPP1 myeloid pathway that drives PD-L1+ neutrophils and CD14+ monocytes
Cited by: 23
Author(s): Lucy MacDonald, Stefano Alivernini, Barbara Tolusso, Aziza Elmesmari, Domenico Somma, Simone Perniola, Annamaria Paglionico, Luca Petricca, Silvia Laura Bosello, Angelo Carfì, Michela Sali, Egidio Stigliano, Antonella Cingolani, Rita Murri, Vincenzo Arena, Massimo Fantoni, Massimo Antonelli, Francesco Landi, Francesco Franceschi, Maurizio Sanguinetti, Iain B. McInnes, Charles McSharry, Antonio Gasbarrini, Thomas D. Otto, Mariola Kurowska‐Stolarska, Stefano Alivernini
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.664334

Disruption of Circadian Transcriptome in Lung by Acute Sleep Deprivation
Cited by: 6
Author(s): Yuntao Lu, Bing Liu, Junjie Ma, Shuo Yang, Ju Huang
Software Mentions: 4
Published: over 3 years ago

10.1186/s40168-018-0515-3

Breast cancer in postmenopausal women is associated with an altered gut metagenome
Cited by: 157
Author(s): Jia Zhu, Ming Liao, Ziting Yao, Wenying Liang, Qibin Li, Jianlun Liu, Huawei Yang, Yinan Ji, Wei Wei, Aihua Tan, Sai Liang, Yang Chen, Haisong Lin, Xinyuan Zhu, Shengzhu Huang, Jiarong Tian, Rongjiang Tang, Qiuyan Wang, Zengnan Mo
Software Mentions: 4
Published: over 6 years ago

Projects: cran: pheatmap

Papers Mentioning pheatmap 2,572