cran: gplots | Projects | Ecosyste.ms: Papers

10.1038/srep35669

Lipid remodelling in the reef-building honeycomb worm, Sabellaria alveolata, reflects acclimation and local adaptation to temperature
Cited by: 21
Author(s): Anna P. Muir, Flávia L. D. Nunes, Stanislas F. Dubois, Fabrice Pernet
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12866-016-0762-z

Consensus computational network analysis for identifying candidate outer membrane proteins from Borrelia spirochetes
Cited by: 18
Author(s): Melisha R. Kenedy, Edgar J. Scott, Binu Shrestha, Asha Anand, Henna Iqbal, Justin D. Radolf, David W. Dyer, Darrin R. Akins
Software Mentions: 1
Published: about 10 years ago

10.1038/srep37088

Exosomes derived from embryonal and alveolar rhabdomyosarcoma carry differential miRNA cargo and promote invasion of recipient fibroblasts
Cited by: 37
Author(s): Sandra E. Ghayad, Ghina Rammal, Farah Ghamloush, Hussein Basma, Rihab Nasr, Mona Diab‐Assaf, Claude Chelala, Raya Saab
Software Mentions: 1
Published: almost 10 years ago

10.1038/s41419-021-03755-z

Loss of CEP70 function affects acrosome biogenesis and flagella formation during spermiogenesis
Cited by: 8
Author(s): Qiang Liu, Qingping Guo, Wei Guo, Shuangshuang Song, Nan Wang, Xi Chen, Andi Sun, Liying Yan, Jie Qiao
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-11-332

Understanding the evolutionary relationships and major traits of Bacillus through comparative genomics
Cited by: 142
Author(s): Luis David Alcaraz, Gabriel Moreno‐Hagelsieb, Luis E. Eguiarte, Valeria Souza, Luis Herrera-Estrella, Gabriela Olmedo
Software Mentions: 1
Published: over 16 years ago

10.1038/srep39638

Single-cell analysis of differences in transcriptomic profiles of oocytes and cumulus cells at GV, MI, MII stages from PCOS patients
Cited by: 49
Author(s): Qiwei Liu, Yumei Li, Yun Feng, George Liu, Jieliang Ma, Yifei Li, Hui-Xian Xiang, Yao Ji, Yunxia Cao, Xiaowen Tong, Zhigang Xue
Software Mentions: 1
Published: over 9 years ago

10.1038/cddis.2017.5

Nuclear Drosha enhances cell invasion via an EGFR-ERK1/2-MMP7 signaling pathway induced by dysregulated miRNA-622/197 and their targets LAMC2 and CD82 in gastric cancer
Cited by: 51
Author(s): Lixiang Xu, Yixuan Hou, Gang Tu, Yanlin Chen, Yan‐e Du, Hailong Zhang, Siyang Wen, Xi Tang, Jun Yin, Lang Lei, Kai Sun, Guanglun Yang, Xiaoli Tang, Manran Liu
Software Mentions: 1
Published: over 9 years ago

10.1038/srep40349

Characterization of two polyvalent phages infecting Enterobacteriaceae
Cited by: 96
Author(s): Sana Hamdi, Geneviève M. Rousseau, Simon J. Labrie, Denise M. Tremblay, Rim Kourda, Karim Ben Slama, Sylvain Moineau
Software Mentions: 1
Published: over 9 years ago

10.1038/s41419-021-04023-w

GRP78 determines glioblastoma sensitivity to UBA1 inhibition-induced UPR signaling and cell death
Cited by: 17
Author(s): Guanzheng Liu, Jiefeng Yu, Runqiu Wu, Lin Shi, Xu Zhang, Wanhong Zhang, Xiaorong Zhong, Yifeng Wang, Huan Li, Yang Shen, Changyong Wu, Rutong Yu, Mingshan Niu, Xuejiao Liu
Software Mentions: 1
Published: about 5 years ago

10.1038/s41419-019-1503-7

Direct reprogramming of epidermal cells toward sweat gland-like cells by defined factors
Cited by: 12
Author(s): Bin Yao, Jiangfan Xie, Nanbo Liu, Tian Hu, Wei Song, Sha Huang, Xiaobing Fu
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-10-296

Genomic diversity of pathogenic Escherichia coli of the EHEC 2 clonal complex
Cited by: 24
Author(s): Galeb Abu-Ali, David W. Lacher, Lukas M. Wick, Weihong Qi, Thomas S. Whittam
Software Mentions: 1
Published: over 17 years ago

10.1038/srep42165

Physiological and transcriptomic analyses reveal a response mechanism to cold stress in Santalum album L. leaves
Cited by: 55
Author(s): Xinhua Zhang, Jaime A. Teixeira da Silva, Meiyun Niu, Mingzhi Li, Chunmei He, Zhao Jian-Gao, Songjun Zeng, Jun Duan, Guohua Ma
Software Mentions: 1
Published: over 9 years ago

10.18632/oncotarget.27667

Therapeutic efficacy of liposomal Grb2 antisense oligodeoxynucleotide (L-Grb2) in preclinical models of ovarian and uterine cancer
Cited by: 4
Author(s): Olivia D. Lara, Emine Bayraktar, Paola Amero, Shaolin Ma, Cristina Ivan, Wei Hu, Ying Wang, Lingegowda S. Mangala, Prasanta Dutta, Pratip K. Bhattacharya, Ana Tari Ashizawa, Gabriel López-Berestein, Cristian Rodríguez-Aguayo, Anil K. Sood
Software Mentions: 1
Published: about 6 years ago

10.1016/j.cell.2018.01.004

NK Cells Stimulate Recruitment of cDC1 into the Tumor Microenvironment Promoting Cancer Immune Control
Cited by: 1,039
Author(s): Jan Böttcher, Eduardo Bonavita, Probir Chakravarty, Hanna Blees, Mar Cabeza-Cabrerizo, Stefano Sammicheli, Neil C. Rogers, Erik Sahai, Santiago Zelenay, Caetano Reis e Sousa
Software Mentions: 1
Published: over 8 years ago

10.3390/ijms21207572

Integrated Analysis of the Transcriptome and Metabolome of Cecropia obtusifolia: A Plant with High Chlorogenic Acid Content Traditionally Used to Treat Diabetes Mellitus
Cited by: 9
Author(s): Jorge David Cadena-Zamudio, Pilar Nicasio-Torres, Juan L. Monribot‐Villanueva, José A. Guerrero-Analco, Enrique Ibarra-Laclette
Software Mentions: 1
Published: almost 6 years ago

10.3390/cancers13184531

Attenuated Chromosome Oscillation as a Cause of Chromosomal Instability in Cancer Cells
Cited by: 2
Author(s): Kenji Iemura, Yujiro Yoshizaki, Kinue Kuniyasu, Kozo Tanaka
Software Mentions: 1
Published: almost 5 years ago

10.1186/s40478-016-0364-x

Telomere shortening leads to an acceleration of synucleinopathy and impaired microglia response in a genetic mouse model
Cited by: 35
Author(s): Annika Scheffold, Inge R. Holtman, Sandra Dieni, Nieske Brouwer, Sarah‐Fee Katz, Billy Michael Chelliah Jebaraj, Philipp J. Kahle, Bastian Hengerer, André Lechel, Stephan Stilgenbauer, Erik Boddeke, Bart J. L. Eggen, K. Lenhard Rudolph, Knut Biber
Software Mentions: 1
Published: about 10 years ago

10.1038/srep43417

Population genomics of an endemic Mediterranean fish: differentiation by fine scale dispersal and adaptation
Cited by: 66
Author(s): Carlos Carreras, Víctor Ordóñez, Lorenzo Zane, Claudia Kruschel, Ina Nasto, Enrique Macpherson, Marta Pascual
Software Mentions: 1
Published: over 9 years ago

10.1038/srep43421

Abnormalities in A-to-I RNA editing patterns in CNS injuries correlate with dynamic changes in cell type composition
Cited by: 34
Author(s): Nurit Gal-Mark, Lea Shallev, Sahar Sweetat, Manouchehr Barak, Jin Billy Li, Erez Y. Levanon, Eli Eisenberg, Oded Behar
Software Mentions: 1
Published: over 9 years ago

10.3390/cancers13092096

Immune Monitoring during Therapy Reveals Activitory and Regulatory Immune Responses in High-Risk Neuroblastoma
Cited by: 7
Author(s): Celina L. Szanto, Annelisa M. Cornel, Sara M. Tamminga, Eveline M. Delemarre, Coco de Koning, Denise A. M. H. van den Beemt, Ester Dünnebach, Michelle L. Tas, Miranda P. Dierselhuis, Godelieve A.M. Tytgat, Max M. van Noesel, Kathelijne C.J.M. Kraal, Jaap-Jan Boelens, Alwin D. R. Huitema, Stefan Nierkens
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-015-2151-7

Comprehensive characterization of a time-course transcriptional response induced by autotoxins in Panax ginseng using RNA-Seq
Cited by: 23
Author(s): Bin Wu, Qiliang Long, Yuan Gao, Zi Wang, Tianwei Shao, Yanan Liu, Yong Li, Wanlong Ding
Software Mentions: 1
Published: almost 11 years ago

10.1002/path.5373

Clinicopathological and molecular characterisation of ‘multiple‐classifier’ endometrial carcinomas
Cited by: 169
Author(s): Alicia León‐Castillo, Ester Gilvazquez, Remi A. Nout, Vincent T.H.B.M. Smit, Jessica N. McAlpine, Melissa K. McConechy, Stefan Kommoss, Sara Brucker, Joseph W. Carlson, Elisabeth Epstein, Tilman T. Rau, Robert A. Soslow, Raji Ganesan, Xavier Matías‐Guiu, Esther Oliva, Beth T. Harrison, David N. Church, C. Blake Gilks, Tjalling Bosse
Software Mentions: 1
Published: over 6 years ago

10.1038/srep46308

Profiling the neutralizing antibody response in chronically HIV-1 CRF07_BC-infected intravenous drug users naïve to antiretroviral therapy
Cited by: 5
Author(s): Xintao Hu, Yuanyuan Hu, Chen Zhao, Hongmei Gao, Kelli Greene, Li Ren, Liying Ma, Yuhua Ruan, Marcella Sarzotti‐Kelsoe, David C. Montefiori, Kui Hong, Yiming Shao
Software Mentions: 1
Published: over 9 years ago

10.3390/cancers11101501

Salivary Gland Function, Antioxidant Defence and Oxidative Damage in the Saliva of Patients with Breast Cancer: Does the BRCA1 Mutation Disturb the Salivary Redox Profile?
Cited by: 32
Author(s): Beata Sawczuk, Mateusz Maciejczyk, Magdalena Sawczuk-Siemieniuk, Renata Posmyk, Halina Car
Software Mentions: 1
Published: almost 7 years ago

10.1038/srep46163

Transcriptome Analysis of Mango (Mangifera indica L.) Fruit Epidermal Peel to Identify Putative Cuticle-Associated Genes
Cited by: 57
Author(s): Julio C. Tafolla-Arellano, Yi Zheng, Honghe Sun, Chen Jiao, Eliel Ruíz-May, Miguel Ángel Hernández‐Oñate, Alberto González-León, Reginaldo Báez-Sañudo, Zhangjun Fei, David S. Domozych, Jocelyn K. C. Rose, Martín Ernesto Tiznado-Hérnández
Software Mentions: 1
Published: over 9 years ago

10.3390/cancers13061290

Molecular Profiling of Docetaxel-Resistant Prostate Cancer Cells Identifies Multiple Mechanisms of Therapeutic Resistance
Cited by: 14
Author(s): Thiago Silva Lima, Diego Iglesias-Gato, Luciano D O Souza, Jan Stenvang, Diego Silva Lima, Martin Andreas Røder, Klaus Brasso, José M.A. Moreira
Software Mentions: 1
Published: over 5 years ago

10.3390/cancers12030541

Molecular Profiling of Keratinocyte Skin Tumors Links Staphylococcus aureus Overabundance and Increased Human β-Defensin-2 Expression to Growth Promotion of Squamous Cell Carcinoma
Cited by: 31
Author(s): Nandhitha Madhusudhan, Manuela R. Păuşan, Bettina Halwachs, Marija Durdević, Markus Windisch, Jan Kehrmann, V. Patra, Peter Wolf, Petra Boukamp, Christine Moissl-Eichinger, Lorenzo Cerroni, Jürgen C. Becker, Gregor Gorkiewicz
Software Mentions: 1
Published: over 6 years ago

10.3390/cancers12102730

Transcriptomics-Based Drug Repurposing Approach Identifies Novel Drugs against Sorafenib-Resistant Hepatocellular Carcinoma
Cited by: 20
Author(s): Kelly Regan-Fendt, Ding Li, Ryan Reyes, Lianbo Yu, Nissar Ahmad Wani, Peng Hu, Samson T. Jacob, Kalpana Ghoshal, Philip R. O. Payne, Tasneem Motiwala
Software Mentions: 1
Published: almost 6 years ago

10.3390/cancers13143432

Characterization of Novel Progression Factors in Castration-Resistant Prostate Cancer Based on Global Comparative Proteome Analysis
Cited by: 4
Author(s): Ann-Yae Na, Sie−Young Choi, Eun‐Ju Yang, Kwang-Hyeon Liu, Sunghwan Kim, Hyun Jin Jung, Youngshik Choe, Yun‐Sok Ha, Tae Gyun Kwon, Jun Nyung Lee, Sangkyu Lee
Software Mentions: 1
Published: about 5 years ago

10.1186/1471-2164-10-200

Genome wide expression analysis of CBS domain containing proteins in Arabidopsis thaliana (L.) Heynh and Oryza sativa L. reveals their developmental and stress regulation
Cited by: 98
Author(s): Hemant R. Kushwaha, Anil Kumar Singh, Sudhir K. Sopory, Sneh L. Singla‐Pareek, Ashwani Pareek
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pone.0227575

The interoceptive hippocampus: Mouse brain endocrine receptor expression highlights a dentate gyrus (DG)–cornu ammonis (CA) challenge–sufficiency axis
Cited by: 12
Author(s): Richard Lathe, Sheena Singadia, Crispin Y. Jordan, Gernot Riedel
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0111267

Differential Expressions of the Alternatively Spliced Variant mRNAs of the µ Opioid Receptor Gene, OPRM1, in Brain Regions of Four Inbred Mouse Strains
Cited by: 32
Author(s): Jin Xu, Zhigang Lu, Mingming Xu, Grace C. Rossi, Benjamin Kest, Amanda R. Waxman, Gavril W. Pasternak, Ying–Xian Pan
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0110076

Characterization of Egg Laying Hen and Broiler Fecal Microbiota in Poultry Farms in Croatia, Czech Republic, Hungary and Slovenia
Cited by: 63
Author(s): Petra Vídeňská, Masudur Rahman, Marcela Faldynová, Vladimír Babák, Marta Matulová, Estella Prukner‐Radovčić, Ivan Križek, Sonja Smole-Možina, Jasna Kovač, Ama Szmolka, Béla Nagy, Karel Sedlář, Darina Čejková, Ivan Rychlı́k
Software Mentions: 1
Published: almost 12 years ago

10.3390/ijms22031227

iPSC-Derived Hereditary Breast Cancer Model Reveals the BRCA1-Deleted Tumor Niche as a New Culprit in Disease Progression
Cited by: 13
Author(s): Lucie Portier, Christophe Desterke, Diana Chaker, Noufϊssa Oudrhiri, Afag Asgarova, Fatima Dkhissi, Ali G. Turhan, Annelise Bennaceur-Griscelli, Frank Griscelli
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0226425

Genome-wide comparisons of gene expression in adult versus elderly burn patients
Cited by: 5
Author(s): Stephanie Dreckmann, Saeid Amini-Nik, Ronald G. Tompkins, Miliana Vojvodic, Marc G. Jeschke
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-017-04251-1

Proteomic analysis reveals large amounts of decomposition enzymes and major metabolic pathways involved in algicidal process of Trametes versicolor F21a
Cited by: 15
Author(s): Xueyan Gao, Congyan Wang, Wei Dai, Shenrong Ren, Fang Tao, Xueli He, Guomin Han, Wei Wang
Software Mentions: 1
Published: about 9 years ago

10.3390/ani9010004

Effects of Saccharomyces Cerevisiae Fermentation Products on the Microbial Community throughout the Gastrointestinal Tract of Calves
Cited by: 6
Author(s): Zhijun Cao, Jianxin Xiao, Gibson Maswayi Alugongo, Shoukun Ji, Zhaohai Wu, Shuang Dong, Shengi Li, I. Yoon, Ruby Chung
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0102949

Differences in Gene Expression between Mouse and Human for Dynamically Regulated Genes in Early Embryo
Cited by: 25
Author(s): Elo Madissoon, Virpi Töhönen, Liselotte Vesterlund, Shintaro Katayama, Per Unneberg, José Inzunza, Outi Hovatta, Juha Kere
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0116915

SHBG Gene Polymorphism (rs1799941) Associates with Metabolic Syndrome in Children and Adolescents
Cited by: 7
Author(s): Marquitta J. White, Fatih Eren, Deniz Ağırbaşlı, Scott M. Williams, Mehmet Ağırbaşlı
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2164-13-359

The ribonuclease Dis3 is an essential regulator of the developmental transcriptome
Cited by: 32
Author(s): Dong Hou, Miriam Osés Ruiz, Erik D. Andrulis
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0052481

Primed Pluripotent Cell Lines Derived from Various Embryonic Origins and Somatic Cells in Pig
Cited by: 60
Author(s): Jin Kyu Park, Hye Sun Kim, Kyungjun Uh, Kwang‐Hwan Choi, Hyeong Min Kim, Taeheon Lee, Byung Chul Yang, Hyun Jong Kim, Hak Hyun Ka, Heebal Kim, Chang Kyu Lee
Software Mentions: 1
Published: over 13 years ago

10.1038/s41598-017-06999-y

Locus of Adhesion and Autoaggregation (LAA), a pathogenicity island present in emerging Shiga Toxin–producing Escherichia coli strains
Cited by: 60
Author(s): David A. Montero, Juliana Velasco, Felipe Del Canto, José L. Puente, Nora Lía Padola, David A. Rasko, Mauricio J. Farfán, Juan Carlos Salazar, Roberto Vidal
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0101480

Intrinsic Differences between Oral and Skin Keratinocytes
Cited by: 90
Author(s): Anna Turabelidze, Shujuan Guo, Allison Yen Chung, Lin Chen, Yang Dai, Phillip T. Marucha, Luisa A. DiPietro
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0214085

Identification of the microbial diversity after fecal microbiota transplantation therapy for chronic intractable constipation using 16s rRNA amplicon sequencing
Cited by: 35
Author(s): Tadashi Ohara
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0190897

The endocannabinoid gene faah2a modulates stress-associated behavior in zebrafish
Cited by: 16
Author(s): Randall G. Krug, Han B. Lee, Louis El Khoury, Ashley N. Sigafoos, Morgan O. Petersen, Karl J. Clark
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0159030

Functional Comparison of Bacteria from the Human Gut and Closely Related Non-Gut Bacteria Reveals the Importance of Conjugation and a Paucity of Motility and Chemotaxis Functions in the Gut Environment
Cited by: 8
Author(s): Dragana Dobrijevic, Anne-Laure Abraham, Alexandre Jamet, Emmanuelle Maguin, Maarten van de Guchte
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0054644

A Novel Proteomics-Based Clinical Diagnostics Technology Identifies Heterogeneity in Activated Signaling Pathways in Gastric Cancers
Cited by: 35
Author(s): Jeeyun Lee, Sung Hoon Kim, Philip Kim, Xinjun Liu, Tani Lee, Kyoung‐Mee Kim, In‐Gu Do, Joon Oh Park, Se Hoon Park, Jiryeon Jang, Nicholas Hoe, Gulia Harvie, Anne Kuller, Anjali Jain, Gary Meyer, Glen Leesman, Young Suk Park, Min Gew Choi, Tae Sung Sohn, Jae Moon Bae, Ho Yeong Lim, Sharat Singh, Won Ki Kang
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0117261

CD14 and Complement Crosstalk and Largely Mediate the Transcriptional Response to Escherichia coli in Human Whole Blood as Revealed by DNA Microarray
Cited by: 15
Author(s): Corinna Lau, Ståle Nygård, Hilde Fure, Ole Kristoffer Olstad, Matthew T. G. Holden, Knut Tore Lappegård, Ole-Lars Brekke, Terje Espevik, Eivind Hovig, Tom Eirik Mollnes
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0010167

Increased Adherence and Expression of Virulence Genes in a Lineage of Escherichia coli O157:H7 Commonly Associated with Human Infections
Cited by: 72
Author(s): Galeb Abu-Ali, Lindsey Ouellette, Scott T. Henderson, David W. Lacher, James T. Riordan, Thomas S. Whittam, Shannon D. Manning
Software Mentions: 1
Published: over 16 years ago

10.1038/s41598-017-09439-z

α7 nicotinic acetylcholine receptor signaling modulates the inflammatory phenotype of fetal brain microglia: first evidence of interference by iron homeostasis
Cited by: 22
Author(s): Marina Farrel Cortês, Mingju Cao, H. L. Liu, Craig S. Moore, Lucien Daniel Durosier, Patrick Burns, Gilles Fecteau, André Desrochers, Luis B. Barreiro, Jack P. Antel, Martin G. Frasch
Software Mentions: 1
Published: almost 9 years ago

10.21451/1984-3143-2017-AR966

Diversity of ejaculated sperm proteins in Moxotó bucks (Capra hircus) evaluated by multiple extraction methods
Cited by: 2
Author(s): Raulzito Fernandes Moreira, Maria Nágila Carneiro Matos, João Garcia Alves, Roberta Vianna do Valle, Â. M. X. Eloy, Tatiana Maria Farias Pinto, Saris Pinto Machado, Cíntia Renata Rocha Costa, José Luiz de Lima, Jorge Lima, Rodrigo Maranguape Silva da Cunha
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0037945

DNA Barcoding the Native Flowering Plants and Conifers of Wales
Cited by: 140
Author(s): Natasha de Vere, Tim C. G. Rich, Col R. Ford, Sarah A. Trinder, Charlotte Long, Chris W. Moore, Satterthwaite Danielle, Helena Davies, Joël Allainguillaume, Sandra Ronca, Tatiana V. Tatarinova, Garbett Hannah, Kevin J. Walker, M. J. Wilkinson
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0153425

Whole Blood Gene Expression Profiling in Preclinical and Clinical Cattle Infected with Atypical Bovine Spongiform Encephalopathy
Cited by: 8
Author(s): Elena Xerxa, Maura Barbisin, MN Chieppa, Helena Krmac, Elena Vallino Costassa, Paolo Vatta, Marion Simmons, Maria Caramelli, Cristina Casalone, Cristiano Corona, Giuseppe Legname
Software Mentions: 1
Published: over 10 years ago

10.1038/s41598-017-12362-y

Combinatorial control of gene expression in Aspergillus niger grown on sugar beet pectin
Cited by: 47
Author(s): Joanna E. Kowalczyk, Ronnie J.M. Lubbers, Mao Peng, Evy Battaglia, Jaap Visser, Ronald P. de Vries
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-13265-8

microRNA profiling in lung tissue and bronchoalveolar lavage of cigarette smoke-exposed mice and in COPD patients: a translational approach
Cited by: 40
Author(s): Griet Conickx, Francisco Avila Cobos, Maarten van den Berge, Alen Faiz, Wim Timens, Pieter S. Hiemstra, Guy Joos, Guy Brusselle, Pieter Mestdagh, Ken R. Bracke
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0201380

The bacterial microbiota in first-void urine from men with and without idiopathic urethritis
Cited by: 30
Author(s): Maria Frølund, Arne Wikström, Peter Lidbrink, Waleed Abu Al‐Soud, Niels Larsen, Christoffer Bugge Harder, Søren J. Sørensen, Jørgen Skov Jensen, Peter Ahrens
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0191690

Splenic macrophages are required for protective innate immunity against West Nile virus
Cited by: 13
Author(s): Marianne A. Bryan, Daniela Giordano, Kevin E. Draves, Richard Green, Michael Gale, Edward A. Clark
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-14161-x

Recurrent water deficit causes epigenetic and hormonal changes in citrus plants
Cited by: 56
Author(s): Diana Matos Neves, Lucas Aragão da Hora Almeida, Dayse Drielly Souza Santana-Vieira, Luciano Freschi, Cláudia Fortes Ferreira, Walter dos Santos Soares Filho, Márcio Gilberto Cardoso Costa, Fabienne Micheli, M. A. Coelho Filho, Abelmon da Silva Gesteira
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0185008

Microbial analysis of Zetaproteobacteria and co-colonizers of iron mats in the Troll Wall Vent Field, Arctic Mid-Ocean Ridge
Cited by: 22
Author(s): Jan Vander Roost, Ingunn H. Thorseth, Helge K. Dahle
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-14823-w

High throughput discovery of influenza virus neutralizing antibodies from phage-displayed synthetic antibody libraries
Cited by: 15
Author(s): Ing-Chien Chen, Yi-Kai Chiu, Yu Chen, Cheng-Chung Lee, Chang‐Shung Tung, Yueh-Liang Tsou, Yu‐Hsuan Huang, Chii-Wann Lin, Hong-Sen Chen, Andrew H.J. Wang, An-Suei Yang
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0246150

Uncovering potential host proteins and pathways that may interact with eukaryotic short linear motifs in viral proteins of MERS, SARS and SARS2 coronaviruses that infect humans
Cited by: 5
Author(s): Cheng Yang, Zhi Ling Shi
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0162851

Quantitative Proteomic Analysis of Wheat Seeds during Artificial Ageing and Priming Using the Isobaric Tandem Mass Tag Labeling
Cited by: 39
Author(s): Yangyong Lv, Shuai-Bing Zhang, Jinshui Wang, Yuansen Hu
Software Mentions: 1
Published: almost 10 years ago

10.1098/rsob.130097

Ubiquitination site preferences in anaphase promoting complex/cyclosome (APC/C) substrates
Cited by: 38
Author(s): Mingwei Min, Ugo Mayor, Catherine Lindon
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0089958

Transcriptomic Analysis of (Group I) Clostridium botulinum ATCC 3502 Cold Shock Response
Cited by: 27
Author(s): Elias Dahlsten, Marita A. Isokallio, Panu Somervuo, Miia Lindström, Hannu Korkeala
Software Mentions: 1
Published: over 12 years ago

10.1038/s41598-017-15660-7

Fungal networks serve as novel ecological routes for enrichment and dissemination of antibiotic resistance genes as exhibited by microcosm experiments
Cited by: 18
Author(s): Rashid Nazir, Ju-Pei Shen, Jun‐Tao Wang, Hang‐Wei Hu, Ji‐Zheng He
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-16082-1

Microbial communities in the native habitats of Agaricus sinodeliciosus from Xinjiang Province revealed by amplicon sequencing
Cited by: 18
Author(s): Jiemin Zhou, Xuming Bai, Rui-Lin Zhao
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12864-015-2258-x

Genome-wide analysis of the basic leucine zipper (bZIP) transcription factor gene family in six legume genomes
Cited by: 69
Author(s): Zhihui Wang, Ke Cheng, Ling‐Shu Wan, Liying Yan, Huifang Jiang, Liu S, Yong Lei, Boshou Liao
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0120463

In vivo Investigations of the Effect of Short- and Long-Term Recombinant Growth Hormone Treatment on DNA-Methylation in Humans
Cited by: 7
Author(s): Julia Kolarova, Ole Ammerpohl, Jana Gutwein, Maik Welzel, Inka Baus, Felix G. Riepe, Thomas Eggermann, Almuth Caliebe, Paul‐Martin Holterhus, Reiner Siebert, Susanne Bens
Software Mentions: 1
Published: over 11 years ago

10.1038/s41598-017-16858-5

Adrenergic receptor agonists induce the differentiation of pluripotent stem cell-derived hepatoblasts into hepatocyte-like cells
Cited by: 9
Author(s): Maki Kotaka, Tarō Toyoda, Katsutaro Yasuda, Yuko Kitano, Chihiro Okada, Akira Ohta, Akira Watanabe, Motonari Uesugi, Kenji Osafune
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-017-17689-0

DUSP1 regulates apoptosis and cell migration, but not the JIP1-protected cytokine response, during Respiratory Syncytial Virus and Sendai Virus infection
Cited by: 18
Author(s): Alexa C. Robitaille, Élise Caron, Nicolas Zucchini, Espérance Mukawera, Damien Adam, Mélissa K. Mariani, Anaïs Gélinas, Audray Fortin, Emmanuelle Brochiero, Nathalie Grandvaux
Software Mentions: 1
Published: over 8 years ago

10.1098/rsob.150190

Transcriptional and phenotypical heterogeneity of <i>Trypanosoma cruzi</i> cell populations
Cited by: 17
Author(s): Víctor Seco-Hidalgo, Luis Miguel De Pablos, Antonio Osuna
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0056702

Elite Model for the Generation of Induced Pluripotent Cancer Cells (iPCs)
Cited by: 10
Author(s): Jason Lai, Chunyang Kong, Dashayini Mahalingam, Xiaojin Xie, Xueying Wang
Software Mentions: 1
Published: over 13 years ago

10.1038/s41598-017-18236-7

Involvement of Innate Immune System in Late Stages of Inherited Photoreceptor Degeneration
Cited by: 30
Author(s): Raghavi Sudharsan, Daniel P. Beiting, Gustavo D. Aguirre, William A. Beltran
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-19093-0

Phenotypic and Functional Characterization of Peripheral Sensory Neurons derived from Human Embryonic Stem Cells
Cited by: 36
Author(s): Abdullah J Alshawaf, Serena Viventi, Wanzhi Qiu, Giovanna M. D’Abaco, Bryony A Nayagam, Michael Erlichster, Gursharan Chana, Ian Everall, Jason J. Ivanusic, Efstratios Skafidas, Mirella Dottori
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0177679

Food restriction increase the expression of mTORC1 complex genes in the skeletal muscle of juvenile pacu (Piaractus mesopotamicus)
Cited by: 33
Author(s): Tassiana Gutierrez de Paula, Bruna Tereza Thomazini Zanella, Bruno Evaristo de Almeida Fantinatti, Leonardo Nazário de Moraes, Bruno Oliveira da Silva Duran, Caroline Bredariol de Oliveira, Rondinelle Artur Simões Salomão, Rafaela Nunes da Silva, Carlos Roberto Padovani, Vander Bruno dos Santos, Edson Assunção Mareco, Robson Francisco Carvalho, Maeli Dal-Pai-Silva
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-019-5737-7

Comparative proteomic analysis of okra (Abelmoschus esculentus L.) seedlings under salt stress
Cited by: 36
Author(s): Yihua Zhan, Qingfei Wu, Yue Chen, Mengling Tang, Chendong Sun, Junwei Sun, Chenliang Yu
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-018-21591-8

In silico guided reconstruction and analysis of ICAM-1-binding var genes from Plasmodium falciparum
Cited by: 4
Author(s): Eilidh Carrington, Thomas D. Otto, Tadge Szestak, Frank Lennartz, Matthew K. Higgins, Chris Newbold, Alister G. Craig
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-016-2874-0

Transcriptomic changes in relation to early-life events in the gilthead sea bream (Sparus aurata)
Cited by: 13
Author(s): Elena Sarropoulou, A. Tsalafouta, Arvind Sundaram, Gregor D. Gilfillan, Georgios Kotoulas, Nikos Papandroulakis, M. Pavlidis
Software Mentions: 1
Published: about 10 years ago

10.1038/s41598-018-23090-2

A proteomic insight into vitellogenesis during tick ovary maturation
Cited by: 26
Author(s): Marina Amaral Xavier, Lucas Tirloni, Antônio Frederico Michel Pinto, Jolene K. Diedrich, John R. Yates, Albert Mulenga, Carlos Logullo, Itabajara da Silva Vaz, Adriana Seixas, Carlos Termignoni
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0056111

A Multi-Omic Systems-Based Approach Reveals Metabolic Markers of Bacterial Vaginosis and Insight into the Disease
Cited by: 106
Author(s): Carl J. Yeoman, Susan M. Thomas, Margret E. Berg Miller, Alexander Ulanov, Manolito Torralba, Lucas Sk, Marcus Gillis, Melissa Cregger, Andrés Gómez, Mengfei Ho, Steven R. Leigh, Rebecca M. Stumpf, Douglas J. Creedon, Michael A. Smith, Jon S. Weisbaum, Karen E. Nelson, Brenda A. Wilson, Bryan A. White
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0218630

Differential immune gene response in gills, skin, and spleen of rainbow trout Oncorhynchus mykiss infected by Ichthyophthirius multifiliis
Cited by: 23
Author(s): Khairul Syahputra, Per W. Kania, Azmi Al‐Jubury, Huria Marnis, Agung Cahyo Setyawan, Kurt Buchmann
Software Mentions: 1
Published: about 7 years ago

10.1186/1471-2164-15-962

Genome-wide patterns of copy number variation in the diversified chicken genomes using next-generation sequencing
Cited by: 67
Author(s): Guoqiang Yi, Lujiang Qu, J. Liu, Yong-Bin Yan, Guiyun Xu, Ning Yang
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0062483

ARID1A Alterations Are Associated with FGFR3-Wild Type, Poor-Prognosis, Urothelial Bladder Tumors
Cited by: 53
Author(s): Cristina Balbás-Martínez, María Rodríguez-Pinilla, Ariel Casanova, Orlando Domı́nguez, David G. Pisano, Gonzalo Vázquez Gómez, Josep Lloreta, José A. Lorente, Núria Malats, Francisco X. Real
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0035659

Proteome-Wide Analysis of Functional Divergence in Bacteria: Exploring a Host of Ecological Adaptations
Cited by: 16
Author(s): Brian E. Caffrey, Tom A. Williams, Xiaowei Jiang, Christina Toft, Karsten Hokamp, Mario A. Fares
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0022548

Stage-Specific Histone Modification Profiles Reveal Global Transitions in the Xenopus Embryonic Epigenome
Cited by: 38
Author(s): Tobias D. Schneider, José M. Arteaga-Salas, Edith Mentele, Róbert Dávid, Dario Nicetto, Axel Imhof, Ralph A.W. Rupp
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0148682

Evaluating the Metal Tolerance Capacity of Microbial Communities Isolated from Alberta Oil Sands Process Water
Cited by: 8
Author(s): Mathew L. Frankel, Marc A. Demeter, Joe Lemire, Raymond J. Turner
Software Mentions: 1
Published: over 10 years ago

10.1186/s12864-015-2231-8

Differential expression of small RNAs under chemical stress and fed-batch fermentation in E. coli
Cited by: 22
Author(s): Martin Holm Rau, Klara Bojanovič, Alex Toftgaard Nielsen, Katherine S. Long
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0098420

Deep 16S rRNA Pyrosequencing Reveals a Bacterial Community Associated with Banana Fusarium Wilt Disease Suppression Induced by Bio-Organic Fertilizer Application
Cited by: 79
Author(s): Zongzhuan Shen, Dongsheng Wang, Yunze Ruan, Cong Xue, Jian Zhang
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0148815

The Impact of Ischemia/Reperfusion Injury on Liver Allografts from Deceased after Cardiac Death versus Deceased after Brain Death Donors
Cited by: 28
Author(s): Jin Xu, Blayne A. Sayed, Ana María Casas-Ferreira, Parthi Srinivasan, Nigel Heaton, Mohammed Rela, Yun Ma, Susan V. Fuggle, Cristina Legido‐Quigley, Wayel Jassem
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0105323

In Vitro and In Vivo Studies for Assessing the Immune Response and Protection-Inducing Ability Conferred by Fasciola hepatica-Derived Synthetic Peptides Containing B- and T-Cell Epitopes
Cited by: 29
Author(s): José Rojas-Caraballo, Julio López‐Abán, Luis Villar, Carolina Vizcaíno, Belén Vicente, Pedro Fernández‐Soto, Esther del Olmo, Manuel A. Patarroyo, Antonio Muro
Software Mentions: 1
Published: about 12 years ago

10.1186/s12864-019-6119-x

A high-resolution genomic composition-based method with the ability to distinguish similar bacterial organisms
Cited by: 4
Author(s): Yizhuang Zhou, Wenting Zhang, Huixian Wu, Kai Huang, Junfei Jin
Software Mentions: 1
Published: almost 7 years ago

10.3390/ijms22179513

Follistatin-Like-1 (FSTL1) Is a Fibroblast-Derived Growth Factor That Contributes to Progression of Chronic Kidney Disease
Cited by: 6
Author(s): Nicholas Maksimowski, Xuewen Song, Eun Hui Bae, Heather N. Reich, Rohan John, York Pei, James W. Scholey
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0061463

Shedding Light on the Microbial Community of the Macropod Foregut Using 454-Amplicon Pyrosequencing
Cited by: 29
Author(s): Lisa-Maree Gulino, D. Ouwerkerk, Alicia Kang, A. J. Maguire, Marco Kienzle, Athol V. Klieve
Software Mentions: 1
Published: over 13 years ago

10.1038/s41598-021-85356-6

Wnt5A modulates integrin expression in a receptor-dependent manner in ovarian cancer cells
Cited by: 6
Author(s): Vajihe Azimian-Zavareh, Zeinab Dehghani-Ghobadi, Marzieh Ebrahimi, Kian Mirzazadeh, Irina Nazarenko, Ghamartaj Hossein
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0004677

Insect-Specific microRNA Involved in the Development of the Silkworm Bombyx mori
Cited by: 86
Author(s): Yong Zhang, Xue Zhou, Xie Ge, Jiang-Hao Jiang, Muwang Li, Shihai Jia, Xiaonan Yang, Yunchao Kan, Miao Xing, Guoping Zhao, Fēi Li, Yongping Huang
Software Mentions: 1
Published: over 17 years ago

10.3390/ijms22179402

Comparative Proteomic Analysis of Tolerant and Sensitive Varieties Reveals That Phenylpropanoid Biosynthesis Contributes to Salt Tolerance in Mulberry
Cited by: 17
Author(s): Tiantian Gan, Ziwei Lin, Lijun Bao, Tian Hui, Xiaopeng Cui, Yanzhen Huang, Hexin Wang, Chao Su, Jiao Feng, Minjuan Zhang, Yonghua Qian
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-021-86593-5

Exercise rapidly alters proteomes in mice following spinal cord demyelination
Cited by: 14
Author(s): Brian Lozinski, Luiz G. N. de Almeida, Claudia Silva, Yifei Dong, Dennis Brown, Sameeksha Chopra, V. Wee Yong, Antoine Dufour
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-021-07429-0

Borrelia burgdorferi infection modifies protein content in saliva of Ixodes scapularis nymphs
Cited by: 9
Author(s): Tae Kwon Kim, Lucas Tirloni, Emily Bencosme-Cuevas, Jolene K. Diedrich, John R. Yates, Albert Mulenga
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-021-86548-w

Systemic alterations play a dominant role in epigenetic predisposition to breast cancer in offspring of obese fathers and is transmitted to a second generation
Cited by: 1
Author(s): Camile Castilho Fontelles, Raquel Santana da Cruz, Alexandra K. Gonsiewski, Ersilia Barin, Volkan Tekmen, Lü Jin, M. Idalia Cruz, Olivier Loudig, Anni Wärri, Sônia de Assis
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0153476

Impact of the Chromatin Remodeling Factor CHD1 on Gut Microbiome Composition of Drosophila melanogaster
Cited by: 11
Author(s): Sebald Johanna, Michaela Willi, Ines Schoberleitner, Anne Krogsdam, Dorothea Orth−Höller, Zlatko Trajanoski, Alexandra Lusser
Software Mentions: 1
Published: over 10 years ago

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Papers Mentioning gplots 2,122