cran: gplots | Projects | Ecosyste.ms: Papers

10.1038/s41598-018-37491-w

DRUGPATH – a novel bioinformatic approach identifies DNA-damage pathway as a regulator of size maintenance in human ESCs and iPSCs
Cited by: 5
Author(s): Boris Kovacic, Margit Rosner, Karin Schlangen, Nina Kramer, Markus Hengstschläger
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-38980-2

Epigenome-wide association study in peripheral white blood cells involving insulin resistance
Cited by: 36
Author(s): Ana Arpón, Fermı́n I. Milagro, Omar Ramos-López, María Luisa Mansego, José Luís Santos, José Ignacio Riezu-Boj, J. Alfredo Martínéz
Software Mentions: 1
Published: over 7 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

10.1186/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

10.1186/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

10.18632/oncotarget.14894

Inhibition of CDK8 mediator kinase suppresses estrogen dependent transcription and the growth of estrogen receptor positive breast cancer
Cited by: 91
Author(s): Martina S.J. McDermott, Alexander A. Chumanevich, Chang-Uk Lim, Jiaxin Liang, Mengqian Chen, Serena Altilia, David J. Oliver, James M. Rae, Michael Shtutman, Hippokratis Kiaris, Balázs Győrffy, Igor B. Roninson, Eugenia V. Broude
Software Mentions: 1
Published: over 9 years ago

10.18632/aging.100961

Metabolic drift in the aging brain
Cited by: 73
Author(s): Julijana Ivanišević, Kelly L. Stauch, Michael Petrascheck, H. Paul Benton, Adrian A. Epstein, Mingliang Fang, Santhi Gorantla, Minerva Tran, Linh Hoang, Michael E. Kurczy, Michael D. Boska, Howard Eliot Gendelman, Howard S. Fox, Gary Siuzdak
Software Mentions: 1
Published: over 10 years ago

10.1038/s41598-019-47282-6

Metabolomics reveals a link between homocysteine and lipid metabolism and leukocyte telomere length: the ENGAGE consortium
Cited by: 12
Author(s): Ashley van der Spek, Linda Broer, Harmen H.M. Draisma, René Pool, Eva Albrecht, Marian Beekman, Massimo Mangino, Mait Raag, Dale R. Nyholt, Harish Dharuri, Veryan Codd, Najaf Amin, Eco J. C. de Geus, Joris Deelen, Ayşe Demirkan, İdil Yet, Krista Fischer, Toomas Haller, Anjali K. Henders, Aaron Isaacs, Sarah E. Medland, Grant W. Montgomery, Simon P. Mooijaart, Konstantin Strauch, H. Eka D. Suchiman, Anika A. M. Vaarhorst, Diana van Heemst, Rui Wang-Sattler, John B. Whitfield, Gonneke Willemsen, Margaret J. Wright, Nicholas G. Martin, Nilesh J. Samani, Andres Metspalu, P. Eline Slagboom, Tim D. Spector, Dorret I. Boomsma, Cornelia M. van Duijn, Christian Gieger
Software Mentions: 1
Published: about 7 years ago

10.18632/aging.103395

Identification of immunological subtypes of hepatocellular carcinoma with expression profiling of immune-modulating genes
Cited by: 11
Author(s): Di Cao, Meng-Ke Chen, Qingfeng Zhang, Yufeng Zhou, Mei‐Yin Zhang, Shi-Juan Mai, Yaojun Zhang, Minshan Chen, Xiaoxing Li, Huiyun Wang
Software Mentions: 1
Published: about 6 years ago

10.18632/oncotarget.16320

Targeting the PIM protein kinases for the treatment of a T-cell acute lymphoblastic leukemia subset
Cited by: 32
Author(s): Megha Padi, Libia A. Luevano, Ningfei An, Ritu Pandey, Neha Singh, Jin H. Song, Jon C. Aster, Xue-Zhong Yu, Shikhar Mehrotra, Andrew S. Kraft
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-019-48822-w

Cigarette smoke preparations, not moist snuff, impair expression of genes involved in immune signaling and cytolytic functions
Cited by: 7
Author(s): Gang Liu, Subhashini Arimilli, Evan Savage, G.L. Prasad
Software Mentions: 1
Published: almost 7 years ago

10.1111/jvh.12310

Elevated interferon-stimulated gene transcription in peripheral blood mononuclear cells occurs in patients infected with genotype 1 but not genotype 3 hepatitis C virus
Cited by: 6
Author(s): Mark W. Robinson, Rachael Swann, Alex Sigruener, Stephen T. Barclay, Peter R. Mills, John McLauchlan, Arvind H. Patel
Software Mentions: 1
Published: about 12 years ago

10.1038/s41598-019-50085-4

Olfactory receptor gene abundance in invasive breast carcinoma
Cited by: 44
Author(s): Shirin Masjedi, Laurence J. Zwiebel, Todd D. Giorgio
Software Mentions: 1
Published: almost 7 years ago

10.3390/nu12113252

Bilberry Anthocyanins Ameliorate NAFLD by Improving Dyslipidemia and Gut Microbiome Dysbiosis
Cited by: 33
Author(s): Hironobu Nakano, Shusong Wu, Kozue Sakao, Taichi Hara, Jianhua He, Santos García, Kalidas Shetty, De‐Xing Hou
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-019-53006-7

CBX2-dependent transcriptional landscape: implications for human sex development and its defects
Cited by: 4
Author(s): Patrick Sproll, Wassim Eid, Anna Biason‐Lauber
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-019-54742-6

Molecular response of Deinococcus radiodurans to simulated microgravity explored by proteometabolomic approach
Cited by: 20
Author(s): Emanuel Ott, Felix M. Fuchs, Ralf Moeller, Ruth Hemmersbach, Yuko Kawaguchi, Akihiko Yamagishi, Wolfram Weckwerth, Tetyana Milojevic
Software Mentions: 1
Published: almost 7 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/s41598-019-56396-w

The host generalist phytopathogenic fungus Sclerotinia sclerotiorum differentially expresses multiple metabolic enzymes on two different plant hosts
Cited by: 19
Author(s): Jefferson Allan, Roshan Regmi, Matthew Denton‐Giles, Lars G. Kamphuis, Mark Derbyshire
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-019-56918-6

Population-specific signatures of intra-individual mitochondrial DNA heteroplasmy and their potential evolutionary advantages
Cited by: 11
Author(s): Yaron Tikochinski, Carlos Carreras, Gili Tikochinski, Sibelle Torres Vilaça
Software Mentions: 1
Published: over 6 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

10.1186/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

10.1038/s41598-020-59666-0

Analysis of inflammatory mediators in the vitreous humor of eyes with pan-uveitis according to aetiological classification
Cited by: 20
Author(s): Hisako Fukunaga, Toshikatsu Kaburaki, Shintaro Shirahama, Rie Tanaka, Hiroshi Murata, Tomohito Sato, Masaru Takeuchi, Hideto Tozawa, Yoshihiro Urade, Mari Katsura, Mika Kobayashi, Youichiro Wada, Hirotsugu Soga, Hidetoshi Kawashima, Takahide Kohro, Makoto Aihara
Software Mentions: 1
Published: over 6 years ago

10.18632/oncotarget.17564

Overexpression of a novel candidate oncogene KIF14 correlates with tumor progression and poor prognosis in prostate cancer
Cited by: 38
Author(s): Yixiang Zhang, Yeqing Yuan, Peidong Liang, Zhaoxia Zhang, Xiaojing Guo, Ligang Xia, Yingying Zhao, Xing-sheng Shu, Song Sun, Ying Ying, Yingduan Cheng
Software Mentions: 1
Published: over 9 years ago

10.18632/oncotarget.18664

miR-331-3p and Aurora Kinase inhibitor II co-treatment suppresses prostate cancer tumorigenesis and progression
Cited by: 19
Author(s): Michael R. Epis, Keith M. Giles, Dianne J. Beveridge, Kirsty Richardson, Patrick A. Candy, Lisa M. Stuart, Jacqueline M. Bentel, Ronald J. Cohen, Peter J. Leedman
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-020-62664-x

Transcriptomic features of tumour-infiltrating CD4lowCD8high double positive αβ T cells in melanoma
Cited by: 14
Author(s): Tiphaine Parrot, Romain Oger, Mathilde Allard, Juliette Desfrançois, Diane Raingeard de la Blétière, Anne Coutolleau, Laurence Preisser, Amir Khammari, Brigitte Dréno, Yves Delneste, Philippe Guardiola, Delphine Fradin, Nadine Gervois
Software Mentions: 1
Published: over 6 years ago

10.1128/JVI.00066-20

Characterization and Genomic Analysis of ValSw3-3, a New <i>Siphoviridae</i> Bacteriophage Infecting Vibrio alginolyticus
Cited by: 24
Author(s): Ling Chen, Quan Liu, Fan Jia, Tingwei Yan, Haoran Zhang, Jian Yang, Deng Deng, Chaolan Liu, Ting Wei, Yingfei Ma
Software Mentions: 1
Published: over 6 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

10.1371/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

10.1371/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.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

10.1186/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

10.1371/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

10.1038/s41598-020-66860-7

Genome-wide characterization and expression analyses of the auxin/indole-3-acetic acid (Aux/IAA) gene family in barley (Hordeum vulgare L.)
Cited by: 13
Author(s): Qi Shi, Yueya Zhang, Vinh-Trieu To, Shi Jin, Dabing Zhang, Wenguo Cai
Software Mentions: 1
Published: about 6 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

10.1371/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: over 14 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

10.1371/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.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.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

10.1186/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

10.1371/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

10.1186/1471-2164-14-28

An R2R3 MYB transcription factor determines red petal colour in an Actinidia (kiwifruit) hybrid population
Cited by: 72
Author(s): Lena G. Fraser, Alan Seal, Mirco Montefiori, Tony K. McGhie, G.K. Tsang, Paul M. Datson, Elena Hilario, Herbert W. Marsh, J K Dunn, Roger P. Hellens, Kevin Davies, M.A. McNeilage, H Nihal De Silva, Andrew C. Allan
Software Mentions: 1
Published: over 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

10.1371/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.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

10.1371/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: about 12 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

10.1186/1471-2164-15-318

Pseudomonas aeruginosa clinical and environmental isolates constitute a single population with high phenotypic diversity
Cited by: 77
Author(s): María-Victoria Grosso-Becerra, Christian Santos‐Medellín, Abigail González‐Valdez, José-Luis Méndez, Gabriela Delgado, Rosario Morales-Espinosa, Luis Servı́n‐González, Luis David Alcaraz, Gloria Soberón‐Chávez
Software Mentions: 1
Published: over 12 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

10.1371/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

10.1371/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.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

10.1371/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

10.1371/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

10.1371/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.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

10.3390/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

10.1371/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

10.18632/oncotarget.10479

Synthetic lethal genetic interactions between Rad54 and PARP-1 in mouse development and oncogenesis
Cited by: 2
Author(s): Mirella Tanori, Arianna Casciati, Francesco Berardinelli, Simona Leonardi, Emanuela Pasquali, Francesca Antonelli, Barbara Tanno, Paola Giardullo, Alessandro Pannicelli, Gabriele Babini, Ilaria De Stefano, Antonella Sgura, Mariateresa Mancuso, Anna Saran, Simonetta Pazzaglia
Software Mentions: 1
Published: about 10 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/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/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

10.1186/1471-2164-10-S1-S4

Genome-wide prediction of cis-acting RNA elements regulating tissue-specific pre-mRNA alternative splicing
Cited by: 29
Author(s): Xin Wang, Kejun Wang, Milan Radovich, Yue Wang, Guohua Wang, Weixing Feng, Jeremy R. Sanford, Yunlong Liu
Software Mentions: 1
Published: about 17 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

10.1038/s41598-020-63470-1

SWATH-MS-based quantitative proteomics reveals a uniquely intricate defense response in Cnaphalocrocis medinalis-resistant rice
Cited by: 8
Author(s): Boon Huat Cheah, Hsiao‐Han Lin, Han‐Ju Chien, Chung-Ta Liao, Liyu Liu, Chien‐Chen Lai, Ya-Fen Lin, Wen-Po Chuang
Software Mentions: 1
Published: about 6 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

10.1371/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

10.3390/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

10.1038/s41598-020-70135-6

A panel of anti-influenza virus nucleoprotein antibodies selected from phage-displayed synthetic antibody libraries with rapid diagnostic capability to distinguish diverse influenza virus subtypes
Cited by: 5
Author(s): Yu Chen, Ing-Chien Chen, Chang‐Shung Tung, Hung-Pin Peng, Jhih-Wei Jian, Yi-Kai Chiu, Yueh-Liang Tsou, Hong-Sen Chen, Yu‐Hsuan Huang, Wesley Wei-Wen Hsiao, Yong Alison Wang, An-Suei Yang
Software Mentions: 1
Published: about 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: about 5 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

10.1371/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

10.1038/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

10.1038/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/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/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

10.1038/s41419-020-03252-9

A cross-talk between epithelium and endothelium mediates human alveolar–capillary injury during SARS-CoV-2 infection
Cited by: 73
Author(s): Peng Wang, Rong-Hua Luo, Min Zhang, Yaqing Wang, Tian-Zhang Song, Tingting Tao, Zhongyu Li, Lin Jin, Hong-Yi Zheng, Wenwen Chen, Mengqian Zhao, Yong‐Tang Zheng, Jianhua Qin
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41419-021-03439-8

Akt kinase LANCL2 functions as a key driver in EGFR-mutant lung adenocarcinoma tumorigenesis
Cited by: 12
Author(s): Yu‐Qing Lou, Jianlin Xu, Yanwei Zhang, Wei Zhang, Xueyan Zhang, Ping Gu, Hua Zhong, Huimin Wang, Jun Lü, Baohui Han
Software Mentions: 1
Published: over 5 years ago

10.1038/s41419-018-0605-y

MicroRNA-29b/142-5p contribute to the pathogenesis of biliary atresia by regulating the IFN-γ gene
Cited by: 22
Author(s): Yifan Yang, Jiang Zhu, Rui Dong, Chengchao Zheng, Yanlei Huang, Yijie Zheng, Zhen Shen, Gong Chen, Xiaoying Luo, Shan Zheng
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-020-72311-0

The phosphoproteomic responses of duck (Cairna moschata) to classical/novel duck reovirus infections in the spleen tissue
Cited by: 5
Author(s): Tao Yun, Jionggang Hua, Weicheng Ye, Na Zheng, Liu Chen, Cun Zhang
Software Mentions: 1
Published: almost 6 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

10.1038/s41421-018-0056-8

Four putative SWI2/SNF2 chromatin remodelers have dual roles in regulating DNA methylation in Arabidopsis
Cited by: 18
Author(s): Donglei Yang, Guiping Zhang, Lili Wang, Jingwen Li, Dachao Xu, Cuiru Di, Kai Tang, Lan Yang, Liang Zeng, Daisuke Miki, Cheng‐Guo Duan, Huiming Zhang, Jian‐Kang Zhu
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-020-71967-y

Unique repertoire of anti-carbohydrate antibodies in individual human serum
Cited by: 13
Author(s): Ralph N D Luetscher, Tanya R. McKitrick, Chao Gao, Akul Y. Mehta, Alyssa M McQuillan, Robert Kardish, Kayluz Frias Boligan, Xuezheng Song, Lenette L. Lu, Jamie Heimburg-Molinaro, Stephan von Gunten, Galit Alter, Richard D. Cummings
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12864-018-5320-7

Analysis of the distribution of assimilation products and the characteristics of transcriptomes in rice by submergence during the ripening stage
Cited by: 5
Author(s): Hyeon Seok Lee, Woon Ha Hwang, Jae Hyeok Jeong, Seung Hyeon Ahn, Jeong Seon Baek, Han Yong Jeong, Hong Kyu Park, Bon Il Ku, Jong Tak Yun, Geon Hwi Lee, Kyung San Choi
Software Mentions: 1
Published: over 7 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

10.3390/cells9041003

Sofosbuvir Activates EGFR-Dependent Pathways in Hepatoma Cells with Implications for Liver-Related Pathological Processes
Cited by: 9
Author(s): Denisa Bojkova, Sandra Westhaus, Rui Costa, Lejla Timmer, Nora Funkenberg, Marek Korencak, Hendrik Streeck, Florian W. R. Vondran, Ruth Broering, Stefan Heinrichs, Karl S. Lang, Sandra Ciesek
Software Mentions: 1
Published: over 6 years ago

10.3390/cells10061495

Phenotypic Characterization by Single-Cell Mass Cytometry of Human Intrahepatic and Peripheral NK Cells in Patients with Hepatocellular Carcinoma
Cited by: 6
Author(s): Yuichi Yoshida, Sachiyo Yoshio, Taiji Yamazoe, Taizo Mori, Yuriko Tsustui, Hironari Kawai, Shiori Yoshikawa, Takasuke Fukuhara, Tomoyoshi Okamoto, Yoshihiro Ono, Yu Takahashi, Ryuki Hashida, Takumi Kawaguchi, Akinobu Taketomi, Tatsuya Kanto
Software Mentions: 1
Published: about 5 years ago

10.3390/cells9020513

Helicobacter Pylori Targets the EPHA2 Receptor Tyrosine Kinase in Gastric Cells Modulating Key Cellular Functions
Cited by: 18
Author(s): Marina Concli Leite, Miguel Sardinha Marques, Joana Melo, M. Pinto, Bruno Cavadas, Miguel Aroso, María Gómez-Lázaro, Raquel Seruca, Céu Figueiredo
Software Mentions: 1
Published: over 6 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

10.1186/s12864-015-2153-5

Co-occurrence of resistance genes to antibiotics, biocides and metals reveals novel insights into their co-selection potential
Cited by: 514
Author(s): Chandan Pal, Johan Bengtsson‐Palme, Erik Kristiansson, D. G. Joakim Larsson
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-015-1298-6

RNA Seq analysis of the Eimeria tenella gametocyte transcriptome reveals clues about the molecular basis for sexual reproduction and oocyst biogenesis
Cited by: 77
Author(s): Robert B. Walker, Philippa A Sharman, Catherine M. Miller, Christoph Lippuner, Michał Okoniewski, Ramon M. Eichenberger, Chandra Ramakrishnan, Fabien Brossier, Peter Deplazes, Adrian B. Hehl, Nicholas C. Smith
Software Mentions: 1
Published: over 11 years ago

10.1038/s41598-020-72063-x

Rapid growth inhibitory activity of a YafQ-family endonuclease toxin of the Helicobacter pylori tfs4 integrative and conjugative element
Cited by: 2
Author(s): Kwadwo Boampong, Stephanie L Smith, Robin M Delahay
Software Mentions: 1
Published: almost 6 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

10.1371/journal.pone.0150266

Biological Characterization of Gene Response to Insulin-Induced Hypoglycemia in Mouse Retina
Cited by: 6
Author(s): Martine Emery, Natacha Nanchen, Frédéric Preitner, Mark Ibberson, Raphaël Roduit
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0036358

Wild Skylarks Seasonally Modulate Energy Budgets but Maintain Energetically Costly Inflammatory Immune Responses throughout the Annual Cycle
Cited by: 65
Author(s): Arne Hegemann, Kevin D. Matson, Maaike A. Versteegh, B. Irene Tieleman
Software Mentions: 1
Published: over 14 years ago

10.1186/s13148-018-0541-9

Epigenome-wide DNA methylation regulates cardinal pathological features of psoriasis
Cited by: 66
Author(s): Aditi Chandra, Swapan Senapati, Sudipta Roy, Gobinda Chatterjee, Raghunath Chatterjee
Software Mentions: 1
Published: about 8 years ago

Projects: cran: gplots

Enhanced Analysis

Science Score: 85/100

Bonuses:

Penalties:

Papers Mentioning gplots 2,122