Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: circlize

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/circlize

Circular Visualization
45 versions
Latest release: over 2 years ago
58 dependent packages
26,201 downloads last month

Papers Mentioning circlize 260

10.3389/fgene.2021.638458
Expression Profile Analysis Identifies a Novel Seven Immune-Related Gene Signature to Improve Prognosis Prediction of Glioblastoma
Cited by: 5
Author(s): Li Hu, Zhibin Han, Xingbo Cheng, Sida Wang, Yumeng Feng, Zhiguo Lin
Software Mentions: 6
Published: over 3 years ago
10.3390/ani10122317
Traditional Usage of Wild Fauna among the Local Inhabitants of Ladakh, Trans-Himalayan Region
Cited by: 16
Author(s): Shiekh Marifatul Haq, Eduardo Soares Calixto, Umer Yaqoob, Riyaz Ahmed, Ahmed Hossam Mahmoud, Rainer W. Bussmann, Osama B. Mohammed, Khalid Ahmad, Arshad Mehmood Abbasi
Software Mentions: 5
Published: almost 4 years ago
10.1371/journal.ppat.1009349
PD-1 is imprinted on cytomegalovirus-specific CD4+ T cells and attenuates Th1 cytokine production whilst maintaining cytotoxicity
Cited by: 15
Author(s): Helen Parry, Alexander C. Dowell, Jianmin Zuo, Kriti Verma, Francesca Kinsella, Jusnara Begum, Wayne Croft, Archana Sharma-Oates, Guy Pratt, Paul Moss
Software Mentions: 5
Published: over 3 years ago
10.1038/srep37473
Hydrocarbon degraders establish at the costs of microbial richness, abundance and keystone taxa after crude oil contamination in permafrost environments
Cited by: 55
Author(s): Shuai Yang, Wen Xi, Yulan Shi, Susanne Liebner, Huijun Jin, Amedea Perfumo
Software Mentions: 5
Published: almost 8 years ago
10.1371/journal.pone.0212365
Mycobacteriophage CRB2 defines a new subcluster in mycobacteriophage classification
Cited by: 4
Author(s): Cristian Alejandro Suárez, Jorgelina Judith Franceschelli, Héctor Ricardo Morbidoni
Software Mentions: 5
Published: over 5 years ago
10.1186/s13619-020-00042-8
Mapping a mammalian adult adrenal gland hierarchy across species by microwell-seq
Cited by: 7
Author(s): Shih–Wei Lai, Lifeng Ma, E Weigao, Fang Ye, Haide Chen, Xiaoping Han, Guoji Guo
Software Mentions: 5
Published: over 4 years ago
10.1038/s41598-020-63275-2
Modulation of stress and immune response by Amblyomin-X results in tumor cell death in a horse melanoma model
Cited by: 9
Author(s): Flávio Lichtenstein, Asif Iqbal, Sonia Elisabete Alves de Lima Will, Rosemary Viola Bösch, Carlos DeOcesano-Pereira, Maurício Barbugiani Goldfeder, Roger Chammas, Carlos Eduardo Madureira Trufen, Kátia L.P. Morais, Jean Gabriel de Souza, Renato José Mendonça Natalino, Inácio L.M. Junqueira-de-Azevedo, Milton Yutaka Nishiyama-Jr, Úrsula Castro de Oliveira, F Alves, Jaqueline Mayara Araujo, Aline Ramos Maia Lobba, Ana Marisa Chudzinski‐Tavassi
Software Mentions: 5
Published: over 4 years ago
10.1523/JNEUROSCI.1634-20.2020
Cell Type-Specific Oxidative Stress Genomic Signatures in the Globus Pallidus of Dopamine-Depleted Mice
Cited by: 12
Author(s): Alyssa J. Lawler, Ashley R. Brown, Rachel S. Bouchard, Noelle Toong, Yeonju Kim, Nitinram Velraj, Grant A Fox, Michael Kleyman, Byungsoo Kang, Aryn H. Gittis, Andreas Pfenning
Software Mentions: 5
Published: about 4 years ago
10.18632/aging.102131
Large-scale analysis reveals the specific clinical and immune features of CD155 in glioma
Cited by: 15
Author(s): Fangkun Liu, Jing Huang, Yuanyuan Xiong, Shuwang Li, Zhixiong Liu
Software Mentions: 5
Published: over 5 years ago
10.7554/eLife.52696
Highly regulated, diversifying NTP-dependent biological conflict systems with implications for the emergence of multicellularity
Cited by: 24
Author(s): Gurmeet Kaur, A. Maxwell Burroughs, Lakshminarayan M. Iyer, L. Aravind
Software Mentions: 5
Published: over 4 years ago
10.3389/fgene.2021.658323
Discovery and Validation of Key Biomarkers Based on Immune Infiltrates in Alzheimer’s Disease
Cited by: 22
Author(s): Zhuohang Liu, Hang Li, Shuyi Pan
Software Mentions: 5
Published: over 3 years ago
10.1038/s41598-020-66806-z
CD96, a new immune checkpoint, correlates with immune profile and clinical outcome of glioma
Cited by: 26
Author(s): Fangkun Liu, Jing Huang, Fengjiao He, Xiaodong Ma, Fan Fan, Ming Meng, Zhuo Yang, Jintao Zhang
Software Mentions: 5
Published: over 4 years ago
10.1038/s42003-020-01477-0
Differential longitudinal establishment of human fecal bacterial communities in germ-free porcine and murine models
Cited by: 9
Author(s): Nirosh D. Aluthge, Wesley A Tom, Alison Bartenslager, Thomas E. Burkey, Phillip S. Miller, Kelly D. Heath, Craig Kreikemeier-Bower, Hatem Kittana, Robert Schmaltz, Amanda E. Ramer‐Tait, Samodha C. Fernando
Software Mentions: 5
Published: almost 4 years ago
10.1038/s41598-021-90380-7
Gut microbiota composition in health-care facility-and community-onset diarrheic patients with Clostridioides difficile infection
Cited by: 6
Author(s): Giovanny Herrera, Laura Vega, Manuel A. Patarroyo, Juan David Ramírez, Marina Muñoz
Software Mentions: 5
Published: over 3 years ago
10.3389/fpls.2020.00948
Systematic Review of Plant Ribosome Heterogeneity and Specialization
Cited by: 49
Author(s): Federico Martinez‐Seidel, Olga Beine-Golovchuk, Yin-Chen Hsieh, Joachim Kopka
Software Mentions: 5
Published: over 4 years ago
10.1186/s12864-021-07787-9
The CCCH zinc finger family of soybean (Glycine max L.): genome-wide identification, expression, domestication, GWAS and haplotype analysis
Cited by: 9
Author(s): Xin Hu, Jian‐Fang Zuo
Software Mentions: 5
Published: over 3 years ago
10.3389/fmicb.2018.02253
A Unique Saccharomyces cerevisiae × Saccharomyces uvarum Hybrid Isolated From Norwegian Farmhouse Beer: Characterization and Reconstruction
Cited by: 38
Author(s): Kristoffer Krogerus, Richard Preiss, Brian Gibson
Software Mentions: 5
Published: about 6 years ago
10.3389/fonc.2020.605097
An Integrative Pan-Cancer Analysis Revealing LCN2 as an Oncogenic Immune Protein in Tumor Microenvironment
Cited by: 33
Author(s): Wen‐Xiu Xu, Jian Zhang, Yu-Ting Hua, Su-Jin Yang, Dandan Wang, Jinhai Tang
Software Mentions: 5
Published: almost 4 years ago
10.3390/ijms20225594
Lipid Related Genes Altered in NASH Connect Inflammation in Liver Pathogenesis Progression to HCC: A Canonical Pathway
Cited by: 19
Author(s): Christophe Desterke, Franck Chiappini
Software Mentions: 5
Published: about 5 years ago
10.3389/fmicb.2018.00973
A Novel Strategy for Detecting Recent Horizontal Gene Transfer and Its Application to Rhizobium Strains
Cited by: 15
Author(s): Xiangchen Li, Wenjun Tong, Lina Wang, Siddiq Ur Rahman, Gehong Wei, Shiheng Tao
Software Mentions: 5
Published: over 6 years ago
10.1530/ERC-19-0474
A xenograft and cell line model of SDH-deficient pheochromocytoma derived from Sdhb+/− rats
Cited by: 15
Author(s): James F. Powers, Brent Cochran, James D. Baleja, Hadley D. Sikes, Andrew Pattison, Xue Zhang, Inna Lomakin, Annette Shepard-Barry, Karel Pacák, Sun Jin Moon, Troy F. Langford, Kassi T. Stein, Richard W. Tothill, Ying-Bin Ouyang, Arthur S. Tischler
Software Mentions: 5
Published: over 4 years ago
10.7717/peerj.11422
The relationship between PLOD1 expression level and glioma prognosis investigated using public databases
Cited by: 5
Author(s): Lei Tian, Huandi Zhou, Guohui Wang, Wen Yan Wang, Yuehong Li, Xiaoying Xue
Software Mentions: 5
Published: over 3 years ago
10.1038/s41598-021-97258-8
Novel interferon-sensitive genes unveiled by correlation-driven gene selection and systems biology
Cited by: 3
Author(s): Cristina Cheroni, Lara Manganaro, Lorena Donnici, Valeria Bevilacqua, Raoul J. P. Bonnal, Riccardo Rossi, Raffaele De Francesco
Software Mentions: 5
Published: about 3 years ago
10.1038/s41598-021-98075-9
Distinguishing feature of gut microbiota in Tibetan highland coronary artery disease patients and its link with diet
Cited by: 14
Author(s): Yu-Lan Ma, Lulu Zhu, Zhuo Ma, Zhong-Shan Gao, Yumiao Wei, Youlu Shen, Lin Liu, Xingli Liu, Ming Ren
Software Mentions: 5
Published: about 3 years ago
10.1111/eva.12592
Combining niche shift and population genetic analyses predicts rapid phenotypic evolution during invasion
Cited by: 51
Author(s): Erik E. Sotka, Aaron W. Baumgardner, Paige M. Bippus, Christophe Destombe, Elizabeth Duermit, Hikaru Endo, Ben A. Flanagan, Mits Kamiya, Lauren E. Lees, Courtney J. Murren, Masahiro Nakaoka, Sarah J. Shainker, Allan E. Strand, Ryuta Terada, Myriam Valéro, Florian Weinberger, Stacy A. Krueger‐Hadfield
Software Mentions: 5
Published: almost 7 years ago
10.3390/foods9091247
Application of a High-Throughput Amplicon Sequencing Method to Chart the Bacterial Communities that Are Associated with European Fermented Meats from Different Origins
Cited by: 14
Author(s): Emiel Van Reckem, Christina Charmpi, David Van der Veken, Wim Borremans, Luc De Vuyst, Stefan Weckx, Frédéric Leroy
Software Mentions: 5
Published: about 4 years ago
10.3389/fcell.2021.652408
Integrating Spatial Transcriptomics and Single-Cell RNA-seq Reveals the Gene Expression Profling of the Human Embryonic Liver
Cited by: 21
Author(s): Xianliang Hou, Yane Yang, Ping Li, Zhipeng Zeng, Wenlong Hu, Ruilian Zhe, Xinqiong Liu, Donge Tang, Minglin Ou, Yong Dai
Software Mentions: 5
Published: over 3 years ago
10.1186/s12935-019-1085-6
CTLA-4 correlates with immune and clinical characteristics of glioma
Cited by: 63
Author(s): Fangkun Liu, Jing Huang, Xuming Liu, Quan Cheng, Chengke Luo, Zhixiong Liu
Software Mentions: 5
Published: almost 5 years ago
10.1186/s12935-019-0955-2
PD-1 and PD-L1 correlated gene expression profiles and their association with clinical outcomes of breast cancer
Cited by: 35
Author(s): Jiang Cui, Sunrun Cao, Na Li, Lei Jiang, Tao Sun
Software Mentions: 5
Published: about 5 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
10.1186/s13073-020-00747-0
Strain-resolved microbiome sequencing reveals mobile elements that drive bacterial competition on a clinical timescale
Cited by: 37
Author(s): Soumaya Zlitni, Alex Bishara, Eli L. Moss, Е. И. Ткаченко, Joyce B. Kang, Rebecca Culver, Tessa M. Andermann, Ziming Weng, Christina M. Wood, Christine Handy, Hanlee P. Ji, Serafim Batzoglou, Ami S. Bhatt
Software Mentions: 5
Published: over 4 years ago
10.3390/cancers13030365
Genome-Wide Circular RNA Expression Patterns Reflect Resistance to Immunomodulatory Drugs in Multiple Myeloma Cells
Cited by: 18
Author(s): Theresa Jakobsen, Mette Dahl, Konstantinos Dimopoulos, Kirsten Grønbæk, Jørgen Kjems, Lasse Sommer Kristensen
Software Mentions: 5
Published: almost 4 years ago
10.3390/cancers12102959
De Novo A-to-I RNA Editing Discovery in lncRNA
Cited by: 15
Author(s): Domenico Alessandro Silvestris, Chiara Scopa, Sara Hanchi, Franco Locatelli, Angela Gallo
Software Mentions: 5
Published: about 4 years ago
10.1155/2019/3865279
Bioinformatic Analysis Reveals an Immune/Inflammatory-Related Risk Signature for Oral Cavity Squamous Cell Carcinoma
Cited by: 4
Author(s): Shan Bai, Ying-Bin Yan, Wei Chen, Ping Zhang, Tong-Mei Zhang, Yuanyuan Tian, Hao Liu
Software Mentions: 5
Published: almost 5 years ago
10.1186/s12964-019-0492-6
Comprehensive profiling identifies a novel signature with robust predictive value and reveals the potential drug resistance mechanism in glioma
Cited by: 18
Author(s): Fan Zeng, Kuanyu Wang, Xiu Liu, Zheng Zhao
Software Mentions: 5
Published: almost 5 years ago
10.1186/s13073-020-00783-w
The murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression
Cited by: 50
Author(s): Florent Petitprez, Sacha Lévy, Chengming Sun, Maxime Meylan, Christophe Linhard, Étienne Becht, Nabila Elarouci, David Tavel, Lubka T. Roumenina, Mira Ayadi, Catheriné Sautès-Fridman, Aurélien de Reyniès
Software Mentions: 5
Published: about 4 years ago
10.1093/gbe/evab145
High-Quality Genome Assembly and Comprehensive Transcriptome of the Painted Lady Butterfly<i>Vanessa cardui</i>
Cited by: 7
Author(s): Linlin Zhang, Rachel Steward, Christopher W. Wheat, Robert D. Reed
Software Mentions: 5
Published: over 3 years ago
10.18632/aging.103809
Landscape of transcription and expression regulated by DNA methylation related to age of donor and cell passage in adipose-derived mesenchymal stem cells
Cited by: 3
Author(s): Guan-Ming Lu, Yong-Xian Rong, Zheng Liang, Dong-Lin Hunag, Yuju Ma, Zhizhai Luo, Fengyao Wu, Xinheng Liu, Yu Liu, Steven Mo, Zhongquan Qi, Hong-Mian Li
Software Mentions: 5
Published: about 4 years ago
10.1021/acssynbio.0c00637
Construction of DNA Tools for Hyperexpression in <i>Marchantia</i> Chloroplasts
Cited by: 8
Author(s): Eftychios Frangedakis, Fernando Guzman Chavez, Marius Rebmann, Kasey Markel, Ying Yu, Artemis Perraki, Sze Wai Tse, Yang Liu, Jenna Rever, Susanna Sauret-Güeto, Bernard Goffinet, Harald Schneider, Jim Haseloff
Software Mentions: 4
Published: over 3 years ago
10.18632/aging.103227
MiR-1908/EXO1 and MiR-203a/FOS, regulated by scd1, are associated with fracture risk and bone health in postmenopausal diabetic women
Cited by: 27
Author(s): Yisheng Chen, Xueran Kang, Zun-Qiang Zhou, Yang Jiang, Xin Qi, Chenting Ying, Yunpeng Zhang, Jie Tao
Software Mentions: 4
Published: over 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
10.1186/1471-2164-16-S5-S2
Integrative network-based approach identifies key genetic elements in breast invasive carcinoma
Cited by: 27
Author(s): Mohamed Hamed, Christian Spaniol, Alexander Zapp, Volkhard Helms
Software Mentions: 4
Published: over 9 years ago
10.1186/s12864-020-06820-7
Mining ancient microbiomes using selective enrichment of damaged DNA molecules
Cited by: 6
Author(s): Clemens L. Weiß, Marie-Theres Gansauge, Ayinuer Aximu‐Petri, Matthias Meyer, Hernán A. Burbano
Software Mentions: 4
Published: over 4 years ago
10.1186/s12860-019-0241-0
Prediction of novel mouse TLR9 agonists using a random forest approach
Cited by: 4
Author(s): Varun Khanna, Lei Li, Johnson Fung, Shoba Ranganathan, Nikolai Petrovsky
Software Mentions: 4
Published: almost 5 years ago
10.1186/s12870-019-2012-7
Drought tolerance of the grapevine, Vitis champinii cv. Ramsey, is associated with higher photosynthesis and greater transcriptomic responsiveness of abscisic acid biosynthesis and signaling
Cited by: 18
Author(s): Noé Cochetel, Ryan Ghan, Haley S. Toups, Asfaw Degu, Richard L. Tillett, Karen Schlauch, Grant R. Cramer
Software Mentions: 4
Published: almost 5 years ago
10.1099/mic.0.001016
A palette of fluorophores that are differentially accumulated by wild-type and mutant strains of Escherichia coli: surrogate ligands for profiling bacterial membrane transporters
Cited by: 14
Author(s): J. Enrique Salcedo-Sora, Srijan Jindal, Steve O’Hagan, Douglas B. Kell
Software Mentions: 4
Published: almost 4 years ago
10.1371/journal.pcbi.1008904
High-throughput Interpretation of Killer-cell Immunoglobulin-like Receptor Short-read Sequencing Data with PING
Cited by: 15
Author(s): Wesley M. Marin, Ravi Dandekar, Danillo G. Augusto, Tasneem Yusufali, Bianca Heyn, Jan A. Hofmann, Vinzenz Lange, Jürgen Sauter, Paul J. Norman, Jill A. Hollenbach
Software Mentions: 4
Published: over 3 years ago
10.1371/journal.pgen.1008280
PAX5 is part of a functional transcription factor network targeted in lymphoid leukemia
Cited by: 30
Author(s): Kazuki Okuyama, Tobias Strid, Jacob Kuruvilla, Rajesh Somasundaram, Susana Cristóbal, Emma Smith, Mahadesh A. J. Prasad, Thoas Fioretos, Henrik Lilljebjörn, Shamit Soneji, Stefan Lang, Jonas Ungerbäck, Mikael Sigvardsson
Software Mentions: 4
Published: over 5 years ago
10.1371/journal.pone.0250654
Potential G-quadruplexes and i-Motifs in the SARS-CoV-2
Cited by: 25
Author(s): Efres Belmonte-Reche, Israel Serrano‐Chacón, Carlos González, Juan Gallo, Manuel Bañobre‐López
Software Mentions: 4
Published: over 3 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
10.3390/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
10.1016/j.celrep.2019.12.049
Trypanosoma brucei ATR Links DNA Damage Signaling during Antigenic Variation with Regulation of RNA Polymerase I-Transcribed Surface Antigens
Cited by: 21
Author(s): Jennifer Ann Black, Kathryn Crouch, Leandro Lemgruber, Craig Lapsley, Nicholas J. Dickens, Luíz Ricardo Orsini Tosi, Jeremy C. Mottram, Richard McCulloch
Software Mentions: 4
Published: almost 5 years ago
10.1186/s13148-021-01127-0
DNA methylation analysis reveals epimutation hotspots in patients with dilated cardiomyopathy-associated laminopathies
Cited by: 7
Author(s): Julien Morival, Halida P. Widyastuti, Christopher Nguyen, Michael V. Zaragoza, Timothy L. Downing
Software Mentions: 4
Published: over 3 years ago
10.3389/fgene.2019.00232
Central and Peripheral Changes in FOS Expression in Schizophrenia Based on Genome-Wide Gene Expression
Cited by: 10
Author(s): Jing Huang, Fangkun Liu, Bolun Wang, Hui Tang, Ziwei Teng, Lehua Li, Yan Qiu, Haishan Wu, Jindong Chen
Software Mentions: 4
Published: over 5 years ago
10.3389/fgene.2020.600248
Caspase 4 Overexpression as a Prognostic Marker in Clear Cell Renal Cell Carcinoma: A Study Based on the Cancer Genome Atlas Data Mining
Cited by: 12
Author(s): Lingfeng Meng, Zijian Tian, Xingbo Long, Tongxiang Diao, Mao‐Lin Hu, Miao Wang, Wei Zhang, Yaoguang Zhang, Qianqian Wang, Yuhui He
Software Mentions: 4
Published: almost 4 years ago
10.3389/fimmu.2021.705381
Antibody Repertoire Analysis of Tumor-Infiltrating B Cells Reveals Distinct Signatures and Distributions Across Tissues
Cited by: 7
Author(s): Ligal Aizik, Yael Dror, David Taussig, Adi Barzel, Yaron Carmi, Yariv Wine
Software Mentions: 4
Published: over 3 years ago
10.3389/fmicb.2019.01862
Catabolism of Alkylphenols in Rhodococcus via a Meta-Cleavage Pathway Associated With Genomic Islands
Cited by: 14
Author(s): David J. Levy‐Booth, Morgan M. Fetherolf, Gordon R. Stewart, Jiu Liu, Lindsay D. Eltis, William W. Mohn
Software Mentions: 4
Published: over 5 years ago
10.3389/fmicb.2021.675328
The Interplay of Phototrophic and Heterotrophic Microbes Under Oil Exposure: A Microcosm Study
Cited by: 4
Author(s): Manoj Kamalanathan, Kathleen A. Schwehr, Jessica M. Labonté, Christian Taube, C.R. Bergen, Nicole Patterson, Noah Claflin, Peter H. Santschi, Antonietta Quigg
Software Mentions: 4
Published: over 3 years ago
10.3389/fmicb.2021.657954
Evaluation of Metagenomic-Enabled Antibiotic Resistance Surveillance at a Conventional Wastewater Treatment Plant
Cited by: 38
Author(s): Haniyyah Majeed, Maria V. Riquelme, Benjamin C. Davis, Suraj Gupta, Luisa Gillian Angeles, Diana S. Aga, Emily Garner, Amy Pruden, Peter J. Vikesland
Software Mentions: 4
Published: over 3 years ago
10.3389/fpls.2020.01118
Cysteine and Methionine Biosynthetic Enzymes Have Distinct Effects on Seed Nutritional Quality and on Molecular Phenotypes Associated With Accumulation of a Methionine-Rich Seed Storage Protein in Rice
Cited by: 6
Author(s): Sarah J. Whitcomb, Apidet Rakpenthai, Franziska Brückner, Axel Fischer, S. Parmar, Alexander Erban, Joachim Kopka, Malcolm J. Hawkesford, Rainer Hoefgen
Software Mentions: 4
Published: over 4 years ago
10.1534/g3.118.200646
A Low Resolution Epistasis Mapping Approach To Identify Chromosome Arm Interactions in Allohexaploid Wheat
Cited by: 10
Author(s): Nicholas Santantonio, Jean‐Luc Jannink, Mark E. Sorrells
Software Mentions: 4
Published: over 5 years ago
10.1093/gbe/evab053
The Genome of the Margined White Butterfly (<i>Pieris macdunnoughii</i>): Sex Chromosome Insights and the Power of Polishing with PoolSeq Data
Cited by: 4
Author(s): Rachel Steward, Yu Okamura, Carol L. Boggs, Heiko Vogel, Christopher W. Wheat
Software Mentions: 4
Published: over 3 years ago
10.1038/s41598-019-47226-0
Daphnia stressor database: Taking advantage of a decade of Daphnia ‘-omics’ data for gene annotation
Cited by: 12
Author(s): Suda Parimala Ravindran, Jennifer Lüneburg, Lisa Gottschlich, Verena Tams, Mathilde Cordellier
Software Mentions: 4
Published: over 5 years ago
10.1038/s41598-019-47533-6
Stoichiogenomics reveal oxygen usage bias, key proteins and pathways associated with stomach cancer
Cited by: 6
Author(s): Xiaoyan Zuo, Bo Li, Chengxu Zhu, Yan Zeng, Miao Li, Xinyi Wang, Yujuan Zhang
Software Mentions: 4
Published: over 5 years ago
10.1128/mBio.01229-21
Diverse Humoral Immune Responses in Younger and Older Adult COVID-19 Patients
Cited by: 18
Author(s): Jennifer Sasson, Joseph J. Campo, Rebecca Carpenter, Mary K. Young, Arlo Randall, Krista Trappl-Kimmons, Amit Oberai, Christopher Hung, Joshua Edgar, Andy Teng, Jozelyn Pablo, Xiaowu Liang, Angela Yee, William A. Petri, David Camerini
Software Mentions: 4
Published: over 3 years ago
10.7554/eLife.49002
Dynamic turnover of centromeres drives karyotype evolution in Drosophila
Cited by: 57
Author(s): Ryan Bracewell, Kamalakar Chatla, Matthew J. Nalley, Doris Bachtrog
Software Mentions: 4
Published: about 5 years ago
10.3390/ijms22041904
Genome-Wide Identification and Characterization of Wheat 14-3-3 Genes Unravels the Role of TaGRF6-A in Salt Stress Tolerance by Binding MYB Transcription Factor
Cited by: 18
Author(s): Wenna Shao, Wang Chen, Xiaofu Zhu, Xiaoyi Zhou, Yingying Jin, Chuang Zhan, Gensen Liu, Xi Liu, Dongfang Ma, Yongli Qiao
Software Mentions: 4
Published: almost 4 years ago
10.1186/s13059-017-1241-z
Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification
Cited by: 125
Author(s): Fiona Robertson, Manu Kumar Gundappa, Fabian Grammes, Torgeir R. Hvidsten, Anthony K. Redmond, Sigbjørn Lien, Samuel Martín, Peter Holland, Simen Rød Sandve, Daniel J. Macqueen
Software Mentions: 3
Published: over 7 years ago
10.1128/JVI.02083-19
Bottleneck Size-Dependent Changes in the Genetic Diversity and Specific Growth Rate of a Rotavirus A Strain
Cited by: 11
Author(s): Syun suke Kadoya, Syun-ichi Urayama, Takuro Nunoura, Miho Hirai, Yoshihiro Takaki, Masaaki Kitajima, Toyoko Nakagomi, Osamu Nakagomi, Satoshi Okabe, Osamu Nishimura, Daisuke Sano
Software Mentions: 3
Published: over 4 years ago
10.1155/2019/7049294
Identification of Key Pathways and Genes in the Orai2 Mediated Classical and Mesenchymal Subtype of Glioblastoma by Bioinformatic Analyses
Cited by: 11
Author(s): Feng Yuan, Yi Li, Hai Long, Yingshuai Wang, Yihan Yang, Tao Li, Luqing Tong, Haiwen Ma, Peidong Liu, Haolang Ming, Biao Ren, Shukun Yu, Yu Lin, Xuejun Yang
Software Mentions: 3
Published: about 5 years ago
10.1093/aobpla/plz075
Decrypting tubby-like protein gene family of multiple functions in starch root crop cassava
Cited by: 8
Author(s): Ming-You Dong, Xian‐Wei Fan, Xiang-Yu Pang, Youzhi Li
Software Mentions: 3
Published: about 5 years ago
10.1093/gbe/evu250
Extensive Copy Number Variations in Admixed Indian Population of African Ancestry: Potential Involvement in Adaptation
Cited by: 11
Author(s): Ankita Narang, Pankaj Jha, Dhirendra Kumar, Rintu Kutum, Anupam Mondal, Debasis Dash, Mitali Mukerji
Software Mentions: 3
Published: almost 10 years ago
10.1371/journal.pgen.1007805
Deleterious mitochondrial DNA point mutations are overrepresented in Drosophila expressing a proofreading-defective DNA polymerase γ
Cited by: 29
Author(s): Colby L. Samstag, Jake G. Hoekstra, Chiu-Hui Huang, Mark Chaisson, Richard J. Youle, Scott R. Kennedy, Leo J. Pallanck
Software Mentions: 3
Published: about 6 years ago
10.1186/s12864-021-07703-1
Detection of copy number variants in African goats using whole genome sequence data
Cited by: 3
Author(s): Wilson Nandolo, Gábor Mészáros, María Wurzinger, Liveness Jessica Banda, Timothy Gondwe, Henry Mulindwa, Helen N. Nakimbugwe, Emily L. Clark, M. Jennifer Woodward-Greene, Mei Liu, George E. Liu, Curtis P. Van Tassell, Benjamin D. Rosen, Johann Sölkner
Software Mentions: 3
Published: over 3 years ago
10.1111/cobi.13289
Harnessing the potential of integrated systematics for conservation of taxonomically complex, megadiverse plant groups
Cited by: 26
Author(s): Eimear Nic Lughadha, Vanessa Graziele Staggemeier, Thaís Vasconcelos, Barnaby E. Walker, Cátia Canteiro, Eve Lucas
Software Mentions: 3
Published: almost 6 years ago
10.1371/journal.pbio.3000164
Boosting subdominant neutralizing antibody responses with a computationally designed epitope-focused immunogen
Cited by: 24
Author(s): Fabian Sesterhenn, Marie Galloux, Sabrina S. Vollers, Lucia Csepregi, Che Yang, Delphyne Descamps, Jaume Bonet, Simon Friedensohn, Pablo Gainza, Patricia Corthésy, Man Chen, Stéphane Rosset, Marie‐Anne Rameix‐Welti, Jean-François Éléouët, Sai T. Reddy, Barney S. Graham, Sabine Riffault, Bruno E. Correia
Software Mentions: 3
Published: almost 6 years ago
10.3389/fvets.2019.00308
A Pine Enhanced Biochar Does Not Decrease Enteric CH4 Emissions, but Alters the Rumen Microbiota
Cited by: 24
Author(s): Stephanie A. Terry, Gabriel de Oliveira Ribeiro, Robert J. Gruninger, A. V. Chaves, K. A. Beauchemin, E. K. Okine, Tim A. McAllister
Software Mentions: 3
Published: about 5 years ago
10.1111/pbi.13246
Genome‐wide expression quantitative trait locus analysis in a recombinant inbred line population for trait dissection in peanut
Cited by: 14
Author(s): Li Huang, Xia Liu, Manish K. Pandey, Xiaoping Ren, Haiwen Chen, Xiaomeng Xue, Nian Liu, Dongxin Huai, Yuning Chen, Xiaojing Zhou, Huaiyong Luo, Weigang Chen, Yong Lei, Kede Liu, Yingjie Xiao, Rajeev K. Varshney, Boshou Liao, Huifang Jiang
Software Mentions: 3
Published: about 5 years ago
10.3389/fpls.2021.656683
Membrane-Enriched Proteomics Link Ribosome Accumulation and Proteome Reprogramming With Cold Acclimation in Barley Root Meristems
Cited by: 15
Author(s): Federico Martinez‐Seidel, Pipob Suwanchaikasem, Shuai Nie, Michael G. Leeming, Alexandre Augusto Pereira Firmino, Nicholas A. Williamson, Joachim Kopka, Ute Roessner, Berin A. Boughton
Software Mentions: 3
Published: over 3 years ago
10.18632/aging.202328
Enrichment of branched chain amino acid transaminase 1 correlates with multiple biological processes and contributes to poor survival of IDH1 wild-type gliomas
Cited by: 8
Author(s): Yi Li, Xiaoguang Fan, Jiabo Li, Feng Yuan, Jian Zhao, Monica Nistér, Xuejun Yang
Software Mentions: 3
Published: almost 4 years ago
10.3390/biology10090827
Plant Resources Utilization among Different Ethnic Groups of Ladakh in Trans-Himalayan Region
Cited by: 20
Author(s): Shiekh Marifatul Haq, Umer Yaqoob, Eduardo Soares Calixto, Inayat Ur Rahman, Abeer Hashem, Maha Abdullah Alakeel, Mohnad Abdalla, Musheerul Hassan, Rainer W. Bussmann, Arshad Mehmood Abbasi, Sami Ur Rahman, Farhana Ijaz
Software Mentions: 3
Published: about 3 years ago
10.3390/v13071240
PhaLP: A Database for the Study of Phage Lytic Proteins and Their Evolution
Cited by: 15
Author(s): Bjorn Criel, Steff Taelman, Wim Van Criekinge, Michiel Stock, Yves Briers
Software Mentions: 3
Published: over 3 years ago
10.1038/s41598-021-95633-z
Evaluation of drought resistance and transcriptome analysis for the identification of drought-responsive genes in Iris germanica
Cited by: 8
Author(s): Jingwei Zhang, Huang DaZhuang, Xin Zhao, Man Zhang
Software Mentions: 3
Published: over 3 years ago
10.1093/molbev/msw299
Genome sequencing reveals the origin of the allotetraploid <i>Arabidopsis suecica</i>
Cited by: 49
Author(s): Polina Yu. Novikova, Takashi Tsuchimatsu, Samson Simon, Viktoria Nizhynska, Viktor Voronin, Robin Burns, О. М. Федоренко, Svante Holm, Torbjörn Säll, Elisa Prat, William Marande, Vincent Castric, Magnus Nordborg
Software Mentions: 3
Published: almost 8 years ago
10.1186/s40168-019-0701-y
Ruminal microbiome-host crosstalk stimulates the development of the ruminal epithelium in a lamb model
Cited by: 97
Author(s): Limei Lin, Fei Xie, Dongdong Sun, Junhua Liu, Weiyun Zhu, Shengyong Mao
Software Mentions: 3
Published: over 5 years ago
10.1186/s40168-020-00972-0
Identification of microbial signatures linked to oilseed rape yield decline at the landscape scale
Cited by: 21
Author(s): Sally Hilton, Emma Picot, Susanne Schreiter, David Bass, Keith Norman, Anna Oliver, Jonathan D. Moore, Tim H. Mauchline, Peter R. Mills, Graham R. Teakle, Ian M. Clark, P. R. Hirsch, Christopher J. van der Gast, Gary D. Bending
Software Mentions: 3
Published: almost 4 years ago
10.1128/mSphere.00209-20
Temporal Variability and Ecological Interactions of Parasitic Marine Syndiniales in Coastal Protist Communities
Cited by: 29
Author(s): Sean R. Anderson, Elizabeth L. Harvey
Software Mentions: 3
Published: over 4 years ago
10.1016/j.ebiom.2020.102854
Facets of individual-specific health signatures determined from longitudinal plasma proteome profiling
Cited by: 17
Author(s): Tea Dodig‐Crnković, Mun‐Gwan Hong, Cecilia Engel Thomas, Ragna S. Häussler, Annika Bendes, Matilda Dale, Fredrik Edfors, Björn Forsström, Patrik K. E. Magnusson, Ina Schuppe-Koistinen, Jacob Odeberg, Linn Fagerberg, Anders Gummesson, Göran Bergström, Mathias Uhlén, Jochen M. Schwenk
Software Mentions: 3
Published: over 4 years ago
10.3390/ani10091632
Risky Business: Live Non-CITES Wildlife UK Imports and the Potential for Infectious Diseases
Cited by: 15
Author(s): Jennah Green, Emma Coulthard, John Norrey, David Megson, Neil D’Cruze
Software Mentions: 3
Published: about 4 years ago
10.18632/aging.103147
EFEMP2 indicates assembly of M0 macrophage and more malignant phenotypes of glioma
Cited by: 24
Author(s): Lijie Huang, Zheng Wang, Yuanhao Chang, Kuanyu Wang, Xiaoyang Kang, Ruoyu Huang, Ying Zhang, Jing Chen, Fan Zeng, Fan Wu, Zheng Zhao, Guanzhang Li, Hua Huang, Tao Jiang, Huimin Hu
Software Mentions: 3
Published: over 4 years ago
10.3389/fimmu.2019.01062
Immune Correlates of Disease Progression in Linked HIV-1 Infection
Cited by: 12
Author(s): Michael Tuen, Jude Bimela, Andrew N. Banin, Shilei Ding, Gordon William Harkins, Svenja Weiß, Vincenza Itri, Allison R. Durham, Stephen F. Porcella, Sonal Soni, Luzia Mayr, Josephine Meli, Judith Torimiro, Marcel Tongo, Xiaohong Wang, Xiang‐Peng Kong, Arthur Nàdas, Daniel E. Kaufmann, Zabrina L. Brumme, Aubin Nanfack, Thomas C. Quinn, Susan Zolla‐Pazner, Andrew D. Redd, Andrés Finzi, Miroslaw K. Gorny, Phillipe N. Nyambi, Ralf Duerr
Software Mentions: 3
Published: over 5 years ago
10.3390/cancers12092439
Preoperative Fasting and General Anaesthesia Alter the Plasma Proteome
Cited by: 4
Author(s): Ulf Gyllensten, Sofia Bosdotter Enroth, Karin Stålberg, Karin Sundfeldt, Stefan Enroth
Software Mentions: 3
Published: about 4 years ago
10.1080/19490976.2021.1951113
The effect of early probiotic exposure on the preterm infant gut microbiome development
Cited by: 19
Author(s): Yan Hui, Birgitte Smith, Martin Steen Mortensen, Łukasz Krych, Søren J. Sørensen, Gorm Greisen, Karen A. Krogfelt, Dennis Sandris Nielsen
Software Mentions: 3
Published: almost 4 years ago
10.1371/journal.pone.0248430
High mutation burden in the checkpoint and micro-RNA processing genes in myelodysplastic syndrome
Cited by: 5
Author(s): Ivan S. Moiseev, Nikolai Tsvetkov, Ildar Barkhatov, Maria V. Barabanshikova, Dmitrii S. Bug, Natalya Vitalievna Petuhova, Артем Тишков, Evgeny Bakin, Е. А. Измайлова, Alena I. Shakirova, Alexander Kulagin, Elena Morozova
Software Mentions: 3
Published: over 3 years ago
10.1186/s13075-019-2069-6
High-throughput sequencing of CD4+ T cell repertoire reveals disease-specific signatures in IgG4-related disease
Cited by: 11
Author(s): Liwen Wang, Panpan Zhang, Jieqiong Li, Hui Lu, Linyi Peng, Jing Ling, Xuan Zhang, Xiaofeng Zeng, Yan Zhao
Software Mentions: 3
Published: almost 5 years ago
10.1128/JB.00245-17
Polyvalent Proteins, a Pervasive Theme in the Intergenomic Biological Conflicts of Bacteriophages and Conjugative Elements
Cited by: 28
Author(s): Lakshminarayan M. Iyer, A. Maxwell Burroughs, Swadha Anand, Robson Francisco de Souza, L. Aravind
Software Mentions: 3
Published: over 7 years ago
10.7150/jca.46301
Identification of CTLA-4 associated with tumor microenvironment and competing interactions in triple negative breast cancer by co-expression network analysis
Cited by: 21
Author(s): Ziqi Peng, Peng Su, Yuhong Yang, Xue Qing Yao, Yiqi Zhang, Feng Jin, Bowen Yang
Software Mentions: 3
Published: almost 5 years ago
10.3389/fmicb.2018.02023
Vertical Distribution of Microbial Eukaryotes From Surface to the Hadal Zone of the Mariana Trench
Cited by: 34
Author(s): Zhimeng Xu, Min Wang, Wenxue Wu, Yifan Li, Qian Liu, Yuye Han, Hongbing Shao, Andrew McMinn, Hongbin Liu
Software Mentions: 3
Published: about 6 years ago
10.3390/genes11111290
Platinum-Quality Mitogenome Haplotypes from United States Populations
Cited by: 14
Author(s): Cassandra R. Taylor, Kevin M. Kiesler, Kimberly Sturk-Andreaggi, J. Ring, Walther Parson, Moses S. Schanfield, Peter M. Vallone, Charla Marshall
Software Mentions: 3
Published: about 4 years ago
10.1186/s12864-018-4845-0
Subcellular stoichiogenomics reveal cell evolution and electrostatic interaction mechanisms in cytoskeleton
Cited by: 7
Author(s): Yujuan Zhang, Chengxu Zhu, Yiran Ding, Yan Zeng, Gong‐Hua Li, Ling Yang, Jianfan Wen, Bin Chen
Software Mentions: 3
Published: over 6 years ago