cran: gplots | Projects | Ecosyste.ms: Papers

10.1371/journal.pone.0097338

Core Microbial Functional Activities in Ocean Environments Revealed by Global Metagenomic Profiling Analyses
Cited by: 18
Author(s): Ari J. S. Ferreira, Rania Siam, João Carlos Setúbal, Ahmed Moustafa, Ahmed A. Sayed, Felipe S. Chambergo, Adam Dawe, Mohamed A. Ghazy, Hazem Sharaf, Amged Ouf, Intikhab Álam, Alyaa M. Abdel-Haleem, Heikki Lehväslaiho, Eman Ramadan, André Antunes, Ulrich Stingl, John Archer, Boris R. Janković, Mitchell L. Sogin, Vladimir B. Bajic, Hamza A. El-Dorry
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0111581

MiRNA Expression May Account for Chronic but Not for Acute Regulation of mRNA Expression in Human Thyroid Tumor Models
Cited by: 9
Author(s): Sébastien Floor, Aline Hébrant, Jaime Miguel Gomes Pita, Manuel Saiselet, Christophe Trésallet, Frédérick Libert, Guy Andry, Jacques Emile Dumont, Wilma Van Staveren, Carine Maenhaut
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0239998

Distinctiveness of genes contributing to growth of Pseudomonas syringae in diverse host plant species
Cited by: 10
Author(s): Tyler C. Helmann, Adam M. Deutschbauer, Steven E. Lindow
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0025584

An Integrated Transcriptomic and Meta-Analysis of Hepatoma Cells Reveals Factors That Influence Susceptibility to HCV Infection
Cited by: 19
Author(s): Jamie MacPherson, Ben S. Sidders, Stefan Wieland, Jin Zhong, Paul Targett-Adams, Volker Lohmann, Perdita Backes, Oona E Delpuech-Adams, Francis V. Chisari, Marilyn Lewis, Tanya Parkinson, David L. Robertson
Software Mentions: 2
Published: almost 15 years ago

10.1038/s41598-021-82538-0

Alterations in the gut bacterial microbiome in people with type 2 diabetes mellitus and diabetic retinopathy
Cited by: 83
Author(s): Taraprasad Das, Rajagopalaboopathi Jayasudha, SamaKalyana Chakravarthy, Gumpili Sai Prashanthi, Archana Bhargava, Mudit Tyagi, Padmaja Kumari Rani, Rajeev Reddy Pappuru, Savitri Sharma, Sisinthy Shivaji
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2164-12-526

Variation in chromosome copy number influences the virulence of Cryptococcus neoformans and occurs in isolates from AIDS patients
Cited by: 66
Author(s): Guanggan Hu, Joyce Wang, Jaehyuk Choi, Won Hee Jung, Iris Liu, Anastasia P. Litvintseva, Tihana Bicanic, Rajeev Aurora, Thomas G. Mitchell, John R. Perfect, James W. Kronstad
Software Mentions: 2
Published: almost 15 years ago

10.1186/s12864-015-1659-1

Six host-range restricted poxviruses from three genera induce distinct gene expression profiles in an in vivo mouse model
Cited by: 12
Author(s): Kristy Offerman, Armin Deffur, Olivia Carulei, Robert J. Wilkinson, Nicola Douglass, Anna‐Lise Williamson
Software Mentions: 2
Published: about 11 years ago

10.1186/s12935-020-1128-z

Establishment and characterization of patient-derived cancer models of malignant peripheral nerve sheath tumors
Cited by: 10
Author(s): Rieko Oyama, Fusako Kito, Mami Takahashi, Emi Hattori, Rei Noguchi, Yoko Takai, Marimu Sakumoto, Zhiwei Qiao, Shunichi Toki, Michio Sugawara, Yoshikazu Tanzawa, Eisuke Kobayashi, Fumihiko Nakatani, Shintaro Iwata, Akihiko Yoshida, Akira Kawai, Tadashi Kondo
Software Mentions: 2
Published: over 6 years ago

10.3389/fmed.2021.704328

Effects of Previous Kasai Surgery on Gut Microbiota and Bile Acid in Biliary Atresia With End-Stage Liver Disease
Cited by: 2
Author(s): Wei Song, Li‐Ying Sun, Zhi‐Jun Zhu
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-021-82801-4

Drosophila oocyte proteome composition covaries with female mating status
Cited by: 9
Author(s): Caitlin E. McDonough-Goldstein, Scott Pitnick, Steve Dorus
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-82640-3

The distribution of antibiotic resistance genes in chicken gut microbiota commensals
Cited by: 26
Author(s): Helena Juřicová, Jitka Matiasovicova, Tereza Kubasová, Darina Čejková, Ivan Rychlı́k
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0051075

Bacterial Indicator of Agricultural Management for Soil under No-Till Crop Production
Cited by: 75
Author(s): Eva Lucía Margarita Figuerola, Leandro D. Guerrero, Silvina Mariana Rosa, Leandro Simonetti, Matías Ezequiel Duval, Juán Alberto Galantini, José Camilo Bedano, Luis Gabriel Wall, Leonardo Erijman
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0103115

Microbial Diversity in Hummock and Hollow Soils of Three Wetlands on the Qinghai-Tibetan Plateau Revealed by 16S rRNA Pyrosequencing
Cited by: 54
Author(s): Yangfan Deng, Xiaoyong Cui, Marcela Hernández, Marc G. Dumont
Software Mentions: 2
Published: about 12 years ago

10.1186/s13059-016-1032-y

Full-length autonomous transposable elements are preferentially targeted by expression-dependent forms of RNA-directed DNA methylation
Cited by: 108
Author(s): Kaushik Panda, Lexiang Ji, Drexel A. Neumann, Josquin Daron, Robert J. Schmitz, R. Keith Slotkin
Software Mentions: 2
Published: about 10 years ago

10.1093/brain/awz291

Mutations in PCYT2 disrupt etherlipid biosynthesis and cause a complex hereditary spastic paraplegia
Cited by: 73
Author(s): Frédéric M. Vaz, John H McDermott, Mariëlle Alders, Saskia B. Wortmann, Stefan Kölker, Mia L. Pras‐Raves, Martin A. T. Vervaart, Henk van Lenthe, Angela C. M. Luyf, Hyung L. Elfrink, Kay Metcalfe, Sara Cuvertino, Peter E. Clayton, Rebecca Yarwood, Martin Lowe, Simon C. Lovell, R. Curtis Rogers, Deciphering Developmental Disorders Study, Antoine H. C. van Kampen, J. P. N. Ruiter, Ronald J. A. Wanders, Sacha Ferdinandusse, Michel van Weeghel, Marc Engelen, Siddharth Banka
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0227243

Transcriptome-wide identification of novel circular RNAs in soybean in response to low-phosphorus stress
Cited by: 21
Author(s): Lingling Lv, Kaiye Yu, Haiyan Lü, Xiangqian Zhang, Xiaoqian Liu, Chongyuan Sun, Huanqing Xu, Jinyu Zhang, Xiaohong He, Dan Zhang
Software Mentions: 2
Published: over 6 years ago

10.1186/ar4369

Proteomic profiling and functional characterization of early and late shoulder osteoarthritis
Cited by: 32
Author(s): John Paul Wanner, Roopashree Subbaiah, Yelenna Skomorovska-Prokvolit, Yousef Shishani, Éric Boilard, Sujatha Mohan, Robert J. Gillespie, Masaru Miyagi, Reuben Gobezie
Software Mentions: 2
Published: over 13 years ago

10.18632/oncotarget.27712

Down syndrome iPSC model: endothelial perspective on tumor development
Cited by: 2
Author(s): Mariana Perepitchka, Yekaterina Galat, Igor P. Beletsky, Philip M. Iannaccone, Vasiliy Galat
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0128872

Multi-Pathway Cellular Analysis on Crude Natural Drugs/Herbs from Japanese Kampo Formulations
Cited by: 1
Author(s): Shizuka Eshima, Satoru Yokoyama, Takashi Abe, Yoshihiro Hayakawa, Ikuo Saiki
Software Mentions: 2
Published: about 11 years ago

10.1038/s41598-021-83380-0

The acute transcriptional responses to dietary methionine restriction are triggered by inhibition of ternary complex formation and linked to Erk1/2, mTOR, and ATF4
Cited by: 15
Author(s): Kirsten P. Stone, Sujoy Ghosh, Jean Paul Kovalik, Manda Orgeron, Desiree Wanders, Landon C. Sims, Thomas W. Gettys
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2017.01578

Community Structure of Lithotrophically-Driven Hydrothermal Microbial Mats from the Mariana Arc and Back-Arc
Cited by: 18
Author(s): Kyle R. Hager, Heather Fullerton, D. A. Butterfield, Craig L. Moyer
Software Mentions: 2
Published: about 9 years ago

10.1186/s13068-017-0720-5

Development of a genetically programed vanillin-sensing bacterium for high-throughput screening of lignin-degrading enzyme libraries
Cited by: 24
Author(s): Barindra Sana, Burton K. Chia, Sarada Raghavan, R. Balamurugan, Niranjan Nagarajan, Jayasree Seayad, Farid J. Ghadessy
Software Mentions: 2
Published: over 9 years ago

10.12688/wellcomeopenres.15452.1

Untargeted metabolomics to understand the basis of phenotypic differences in amphotericin B-resistant Leishmania parasites
Cited by: 10
Author(s): Andrew W. Pountain, Michael P. Barrett
Software Mentions: 2
Published: almost 7 years ago

10.1042/BSR20204171

Ddhd1 knockout mouse as a model of locomotive and physiological abnormality in familial spastic paraplegia
Cited by: 2
Author(s): Takuya Morikawa, Hiroaki Ohishi, Kengo Kosaka, Tomofumi Shimojo, Akihiro Nagano, Itsuki Taniguchi, Ryuta Fujioka, Kousuke Moriyama, Motoko Unoki, Masatomo Takahashi, Motonao Nakao, Yoshihiro Izumi, Takeshi Bamba, Hidetada Sasaki, Satoshi Miura, Hiroki Shibata
Software Mentions: 2
Published: over 5 years ago

10.1042/BSR20191554

Comprehensive analysis of prognostic biomarkers in lung adenocarcinoma based on aberrant lncRNA–miRNA–mRNA networks and Cox regression models
Cited by: 14
Author(s): Yan Yao, Tingting Zhang, Ling‐Yu Qi, Ruijuan Liu, Gongxi Liu, Wei Hua Jia, Qi Song, Changgang Sun
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0179652

Contrasting bacterial communities in two indigenous Chionochloa (Poaceae) grassland soils in New Zealand
Cited by: 14
Author(s): Jocelyn Chua Griffith, William G. Lee, David A. Orlovich, Tina C. Summerfield
Software Mentions: 2
Published: about 9 years ago

10.3390/molecules23123151

Alteration of Intestinal Flora Stimulates Pulmonary microRNAs to Interfere with Host Antiviral Immunity in Influenza
Cited by: 15
Author(s): Ping Peng, Bin Yu, Yucong Shi, Li Deng, Huachong Xu, Sizhi Wu
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0088584

Effect of Diet on Expression of Genes Involved in Lipid Metabolism, Oxidative Stress, and Inflammation in Mouse Liver–Insights into Mechanisms of Hepatic Steatosis
Cited by: 73
Author(s): Helen J. Renaud, Julia Yue Cui, Hong Lü, Curtis D. Klaassen
Software Mentions: 2
Published: over 12 years ago

10.3389/fmicb.2021.653283

Illumina Sequencing and Metabolomics Analysis Reveal Thiamine Modulation of Ruminal Microbiota and Metabolome Characteristics in Goats Fed a High-Concentrate Diet
Cited by: 15
Author(s): Yuxiang Ma, Chao Wang, Hao Zhang, Lihuai Yu, Dong Li, Daoqing Gong, Junhu Yao, Hongrong Wang
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0240612

Study of the differentially abundant proteins among Leishmania amazonensis, L. braziliensis, and L. infantum
Cited by: 1
Author(s): Bruna Soares de Souza Lima, Barbara Beiral Esteves, Luiz Carlos Fialho-Júnior, Tiago Antônio de Oliveira Mendes, Simone da Fonseca Pires, Alexander Chapeourouge, Jonás Perales, Hélida Monteiro de Andrade
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0089680

A Selected Core Microbiome Drives the Early Stages of Three Popular Italian Cheese Manufactures
Cited by: 1,029
Author(s): Francesca De Filippis, Antonietta La Storia, Giuseppina Stellato, Monica Gatti
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0197911

Deconvolution of expression microarray data reveals 131I-induced responses otherwise undetected in thyroid tissue
Cited by: 5
Author(s): Britta Langen, Nils Rudqvist, Johan Spetz, Khalil Helou, Eva Forssell-Aronsson
Software Mentions: 2
Published: about 8 years ago

10.1155/2020/3268505

The Role of Overexpressed Apolipoprotein AV in Insulin-Resistant Hepatocytes
Cited by: 0
Author(s): Wang Zhao, Yaqiong Liu, Xiao‐Bo Liao, Shui‐Ping Zhao
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms19030726

Functional Characterization of the Steroid Reductase Genes GmDET2a and GmDET2b from Glycine max
Cited by: 8
Author(s): Weige Huo, Bodi Li, Jiebing Kuang, Ping‐an He, Zhihao Xu, Jinxiang Wang
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0190960

A systematic approach to analyze the social determinants of cardiovascular disease
Cited by: 23
Author(s): Mireya Martínez-García, Magaly Salinas-Ortega, Iván Estrada-Arriaga, Enrique Hernández‐Lemus, Rodrigo García-Herrera, Maité Vallejo
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0174411

The rhizospheric microbial community structure and diversity of deciduous and evergreen forests in Taihu Lake area, China
Cited by: 39
Author(s): Zhiwen Wei, Xiaolong Hu, Xunhang Li, Yanzhou Zhang, Leichun Jiang, Jing Li, Guan Zhang, Yujie Cai, Xiangru Liao
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0245855

Transcriptomic analysis reveals key transcription factors associated to drought tolerance in a wild papaya (Carica papaya) genotype
Cited by: 9
Author(s): Humberto Estrella‐Maldonado, Amaranta Girón Ramírez, Gabriela Fuentes Ortíz, Santy Peraza-Echeverría, Octavio Martínez-de la Vega, Elsa Góngora-Castillo, Jorge M. Santamaría
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-83913-7

CIBERSORT analysis of TCGA and METABRIC identifies subgroups with better outcomes in triple negative breast cancer
Cited by: 47
Author(s): Kelly E. Craven, Yesim Gökmen‐Polar, Sunil Badve
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms22052452

A Systems Biology Approach to Investigating the Interaction between Serotonin Synthesis by Tryptophan Hydroxylase and the Metabolic Homeostasis
Cited by: 11
Author(s): Suhyeon Park, Yumin Kim, Jibeom Lee, Jeong Yun Lee, Hail Kim, Sunjae Lee, Chang‐Myung Oh
Software Mentions: 2
Published: over 5 years ago

10.3390/molecules26092664

Microbiological Study in Petrol-Spiked Soil
Cited by: 9
Author(s): Agata Borowik, Jadwiga Wyszkowska, J. Kucharski
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2164-13-441

Transcriptomic and metabolomic profiling of chicken adipose tissue in response to insulin neutralization and fasting
Cited by: 87
Author(s): Bo Ji, Ben Ernest, Jessica Gooding, Suchita Das, Arnold M. Saxton, Jean Simon, Joëlle Dupont, Sonia Métayer-Coustard, Shawn R. Campagna, Brynn H. Voy
Software Mentions: 2
Published: almost 14 years ago

10.1371/journal.pone.0208352

Characterization of longitudinal canal tissue in the acorn barnacle Amphibalanus amphitrite
Cited by: 8
Author(s): Chenyue Wang, Janna N. Schultzhaus, Chris R. Taitt, Dagmar H. Leary, Lisa C. Shriver‐Lake, Daniel A. Snellings, Samantha L Sturiale, Stella H. North, Beatriz Orihuela, Daniel Rittschof, Kathryn J. Wahl, Christopher M. Spillmann
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0124969

Transcriptional and Phenotypic Characterization of Novel Spx-Regulated Genes in Streptococcus mutans
Cited by: 28
Author(s): Lívia C. C. Galvão, James H. Miller, Jessica K. Kajfasz, Kathy Scott-Anne, Irlan Almeida Freires, Gilson César Nobre Franco, Jacqueline Abranches, Pedro Luiz Rosalen, José A. Lemos
Software Mentions: 2
Published: over 11 years ago

10.7717/peerj.8176

Systematic evaluation of the gut microbiome of swamp eel (Monopterus albus) by 16S rRNA gene sequencing
Cited by: 6
Author(s): Xuan Chen, Shouguo Fang, Lili Wei, Qiuyan Zhong
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0160577

Diurnal Variations of Human Circulating Cell-Free Micro-RNA
Cited by: 42
Author(s): Niels H. H. Heegaard, Anting Liu Carlsen, Berit Lilje, Kim Lee Ng, Birte Svensson, Henrik L. Jørgensen, Henriette P Sennels, Jan Fahrenkrug
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pone.0171797

Transcriptional response to 131I exposure of rat thyroid gland
Cited by: 10
Author(s): Nils Rudqvist, Johan Spetz, Emil Schüler, Toshima Z. Parris, Britta Langen, Khalil Helou, Eva Forssell-Aronsson
Software Mentions: 2
Published: over 9 years ago

10.1186/s13073-015-0169-8

A bioinformatic framework for immune repertoire diversity profiling enables detection of immunological status
Cited by: 146
Author(s): Victor Greiff, Pooja Bhat, Skylar C. Cook, Ulrike Menzel, Wenjing Kang, Sai T. Reddy
Software Mentions: 2
Published: over 11 years ago

10.3390/biology10080782

Phylogenomic Analyses of the Genus Pseudomonas Lead to the Rearrangement of Several Species and the Definition of New Genera
Cited by: 105
Author(s): Zaki Saati‐Santamaría, Ezequiel Peral-Aranega, Encarna Velázquez, Raúl Rivas, Paula García‐Fraile
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0065347

Impact of Oil on Bacterial Community Structure in Bioturbated Sediments
Cited by: 61
Author(s): Magalie Stauffert, Cristiana Cravo‐Laureau, Ronan Jézéquel, Sandra Barantal, Philippe Cuny, Franck Gilbert, Christine Cagnon, Cécile Militon, David Amouroux, Fatima Mahdaoui, Brice Bouyssière, Georges Stora, François-Xavier Merlin, Robert Duran
Software Mentions: 2
Published: about 13 years ago

10.1186/s13073-017-0418-0

Genetic pleiotropy between age-related macular degeneration and 16 complex diseases and traits
Cited by: 50
Author(s): Felix Graßmann, Christina Kiel, Martina E. Zimmermann, Florian Kronenberg, Veronika Grassmann, Klaus Stark, Iris M. Heid, Bernhard H. F. Weber
Software Mentions: 2
Published: over 9 years ago

10.1016/j.stem.2018.01.020

Macrophage-Derived Extracellular Succinate Licenses Neural Stem Cells to Suppress Chronic Neuroinflammation
Cited by: 189
Author(s): Luca Peruzzotti‐Jametti, Joshua D. Bernstock, Nunzio Vicario, Ana S.H. Costa, Chee Keong Kwok, Tommaso Leonardi, Lee M. Booty, Iacopo Bicci, Beatrice Balzarotti, Giulio Volpe, Giulia Mallucci, Giulia Manferrari, Matteo Donegà, Nunzio Iraci, Alice Braga, John M. Hallenbeck, Michael P. Murphy, Frank Edenhofer, Christian Frezza, Stefano Pluchino
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-021-85230-5

Modeling preeclampsia using human induced pluripotent stem cells
Cited by: 25
Author(s): Mariko Horii, Robert Morey, Tony Bui, Ojeni Touma, Katelyn N. Nelson, Hee-Young Cho, Hannah Rishik, Louise C. Laurent, Mana M. Parast
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms22062936

Overexpression of AtBBD1, Arabidopsis Bifunctional Nuclease, Confers Drought Tolerance by Enhancing the Expression of Regulatory Genes in ABA-Mediated Drought Stress Signaling
Cited by: 10
Author(s): Amdadul Huque, Wonmi So, Minsoo Noh, Min Kyoung You, Jeong Sheop Shin
Software Mentions: 2
Published: over 5 years ago

10.3390/biology8020021

Transcriptome Analysis of Yamame (Oncorhynchus masou) in Normal Conditions after Heat Stress
Cited by: 1
Author(s): Waraporn Kraitavin, Kazutoshi Yoshitake, Yoji Igarashi, Susumu Mitsuyama, Shigeharu Kinoshita, Daisuke Kambayashi, Shugo Watabe, Shuichi Asakawa
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0135565

Temporal Gene Expression of the Cyanobacterium Arthrospira in Response to Gamma Rays
Cited by: 10
Author(s): Hanène Badri, Pieter Monsieurs, Ilse Coninx, Robin Nauts, Ruddy Wattiez, Natalie Leys
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0233729

Plant life at the dry limit—Spatial patterns of floristic diversity and composition around the hyperarid core of the Atacama Desert
Cited by: 15
Author(s): Jonathan Ruhm, Tim Böhnert, Maximilian Weigend, Félix F. Merklinger, Alexandra Stoll, Dietmar Quandt, Federico Luebert
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0186440

Multi-time series RNA-seq analysis of Enterobacter lignolyticus SCF1 during growth in lignin-amended medium
Cited by: 13
Author(s): Roberto Orellana, Gina Chaput, Lye Meng Markillie, Hugh D. Mitchell, Matt Gaffrey, Galya Orr, Kristen M. DeAngelis
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0039621

A Daphnane Diterpenoid Isolated from Wikstroemia polyantha Induces an Inflammatory Response and Modulates miRNA Activity
Cited by: 9
Author(s): Anthony Khong, Roberto Forestieri, David E. Williams, Brian O. Patrick, Andrea D. Olmstead, Victoria Svinti, Emily K. Schaeffer, François Jean, Michel Roberge, Raymond J. Andersen, Eric Jan
Software Mentions: 2
Published: about 14 years ago

10.1371/journal.pone.0096333

Profiling of Olfactory Receptor Gene Expression in Whole Human Olfactory Mucosa
Cited by: 103
Author(s): Christophe Verbeurgt, Françoise Wilkin, Maxime Tarabichi, Françoise Grégoire, Jacques Emile Dumont, Pierre Chatelain
Software Mentions: 2
Published: over 12 years ago

10.7717/peerj.11386

Prokaryotic communities from a lava tube cave in La Palma Island (Spain) are involved in the biogeochemical cycle of major elements
Cited by: 18
Author(s): Jose Luis Gonzalez-Pimentel, Tamara Martin-Pozas, Valme Jurado, Ana Z. Miller, Ana Teresa Caldeira, Octavio Fernandez-Lorenzo, Sergio Sánchez‐Moral, Cesáreo Sáiz‐Jiménez
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0046202

Influence of the Male Ejaculate on Post-Mating Prezygotic Barriers in Field Crickets
Cited by: 22
Author(s): Erica L. Larson, José Á. Andrés, Richard G. Harrison
Software Mentions: 2
Published: almost 14 years ago

10.1186/s40659-020-00299-y

Microarray profiling and functional analysis of differentially expressed plasma exosomal circular RNAs in Graves’ disease
Cited by: 16
Author(s): Ying Sun, Wei Wang, Yuxiao Tang, Daping Wang, Liang Li, Na Min, Guantong Jiang, Qian Li, Shulin Chen, Jin Zhou
Software Mentions: 2
Published: about 6 years ago

10.1186/1471-230X-13-131

Association of gut microbiota with post-operative clinical course in Crohn’s disease
Cited by: 88
Author(s): Neelendu Dey, David Soergel, Susanna Repo, Steven E. Brenner
Software Mentions: 2
Published: about 13 years ago

10.7717/peerj.8101

Co-expression analysis and ceRNA network reveal eight novel potential lncRNA biomarkers in hepatocellular carcinoma
Cited by: 6
Author(s): Renchao Zou, Zhitian Shi, Shufeng Xiao, Ke Yang, Haoran Tang, Taihu Wu, Zhitang Guo, Ni Fan, Sanqi An, Lin Wang
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0074599

Specific Extracellular Matrix Remodeling Signature of Colon Hepatic Metastases
Cited by: 42
Author(s): Maguy Del Rio, Caroline Mollévi, Nadia Vezzio-Vié, Fréderic Bibeau, Marc Ychou, Pierre Martineau
Software Mentions: 2
Published: almost 13 years ago

10.1371/journal.pone.0096924

Rhythms and Community Dynamics of a Hydrothermal Tubeworm Assemblage at Main Endeavour Field – A Multidisciplinary Deep-Sea Observatory Approach
Cited by: 45
Author(s): Daphné Cuvelier, Pierre Legendre, Agathe Laës-Huon, Pierre‐Marie Sarradin, Jozée Sarrazin
Software Mentions: 2
Published: over 12 years ago

10.1186/s13100-018-0109-4

Phylogeographic diversity and mosaicism of the Helicobacter pylori tfs integrative and conjugative elements
Cited by: 18
Author(s): Robin M. Delahay, Nicola Croxall, Amberley D. Stephens
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0139401

The Effects of Synthetic Estrogen Exposure on the Sexually Dimorphic Liver Transcriptome of the Sex-Role-Reversed Gulf Pipefish
Cited by: 15
Author(s): Emily Rose, Sarah P. Flanagan, Adam G. Jones
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pgen.1004868

Genome-Wide Analysis of DNA Methylation Dynamics during Early Human Development
Cited by: 202
Author(s): Hiroaki Okae, Hayato Chiba, Hitoshi Hiura, Hirofumi Hamada, Akiko Satô, Takafumi Utsunomiya, Hiroyuki Kikuchi, Hiroaki Yoshida, Atsushi Tanaka, Mikita Suyama, Takahiro Arima
Software Mentions: 2
Published: over 11 years ago

10.3390/nu11122839

Hormonal Therapy Resistance and Breast Cancer: Involvement of Adipocytes and Leptin
Cited by: 21
Author(s): Laëtitia Delort, Laurianne Bougaret, Juliette Cholet, Marion Vermerie, Hermine Billard, Caroline Decombat, Céline Bourgne, Marc Berger, Charles Dumontet, Florence Caldefie‐Chezet
Software Mentions: 2
Published: almost 7 years ago

10.1016/j.cels.2018.02.001

Microenvironment-Mediated Mechanisms of Resistance to HER2 Inhibitors Differ between HER2+ Breast Cancer Subtypes
Cited by: 64
Author(s): Spencer S. Watson, Mark Dane, Koei Chin, Zuzana Tatárová, Moqing Liu, Tiera Liby, Wallace Thompson, Rebecca Smith, Michel Nederlof, Elmar Bucher, David Kilburn, Matthew A. Whitman, Damir Sudar, Gordon B. Mills, Laura M. Heiser, Oliver Jonas, Joe W. Gray, James E. Korkola
Software Mentions: 2
Published: over 8 years ago

10.1186/1471-230X-14-55

DNA methylation subgroups and the CpG island methylator phenotype in gastric cancer: a comprehensive profiling approach
Cited by: 34
Author(s): Marie Loh, Natalia Liem, Aparna Vaithilingam, Pei Li Lim, Nur Sabrina Sapari, Eiram Elahi, Zuan Yu Mok, Chee Leong Cheng, Benedict Yan, Brendan Pang, Manuel Salto-Tellez, Wei Peng Yong, Barry Iacopetta, Richie Soong
Software Mentions: 2
Published: over 12 years ago

10.3390/microorganisms9020205

Taxonomic and Functional Diversity of Heterotrophic Protists (Cercozoa and Endomyxa) from Biological Soil Crusts
Cited by: 15
Author(s): Samira Khanipour Roshan, Kenneth Dumack, Michael Bonkowski, Peter Leinweber, Ulf Karsten, Karin Glaser
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0094325

Genes Influenced by the Non-Muscle Isoform of Myosin Light Chain Kinase Impact Human Cancer Prognosis
Cited by: 17
Author(s): Tong Zhou, Ting Wang, Joe G.N. Garcia
Software Mentions: 2
Published: over 12 years ago

10.1186/1752-0509-5-202

A chemokine gene expression signature derived from meta-analysis predicts the pathogenicity of viral respiratory infections
Cited by: 18
Author(s): Stewart T. Chang, Nicolas Tchitchek, Debashis Ghosh, Arndt Benecke, Michael G. Katze
Software Mentions: 2
Published: over 14 years ago

10.1186/s12918-015-0159-x

Genome-scale resources for Thermoanaerobacterium saccharolyticum
Cited by: 22
Author(s): Devin H. Currie, Babu Raman, Christopher M. Gowen, Timothy J. Tschaplinski, Miriam Land, Steven D. Brown, Sean F. Covalla, Dawn M. Klingeman, Zamin K. Yang, Nancy L. Engle, C. M. Johnson, Miguel Rodríguez, Aubie Shaw, William R. Kenealy, Lee R. Lynd, Stephen S. Fong, Jonathan R. Mielenz, Brian H. Davison, David A. Hogsett, Christopher D. Herring
Software Mentions: 2
Published: about 11 years ago

10.1007/s00204-021-03008-0

Integration of transcriptome analysis with pathophysiological endpoints to evaluate cigarette smoke toxicity in an in vitro human airway tissue model
Cited by: 8
Author(s): Rui Xiong, Yue Wu, Qiangen Wu, Levan Muskhelishvili, Kelly J. Davis, Priya Tripathi, Ying Chen, Tao Chen, Matthew Bryant, Hans Rosenfeldt, Sheila M. Healy, Xuefei Cao
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pcbi.1004107

Protein Complexes in Bacteria
Cited by: 17
Author(s): J. Harry Caufield, Marco A Abreu, Christopher Wimble, Peter Uetz
Software Mentions: 2
Published: over 11 years ago

10.1111/tan.14127

The <scp>HLA</scp> diversity of the Anthony Nolan register
Cited by: 10
Author(s): Gayle Leen, Jeremy E. Stein, James T. Robinson, H. Maldonado Torres, S. G. E. Marsh
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12918-018-0639-x

Co-expression of long non-coding RNAs and autism risk genes in the developing human brain
Cited by: 24
Author(s): Steven Cogill, Anand Srivastava, Mary Qu Yang, Liangjiang Wang
Software Mentions: 2
Published: over 7 years ago

10.1186/1756-0500-7-761

Expression level of a flavonoid 3′-hydroxylase gene determines pathogen-induced color variation in sorghum
Cited by: 20
Author(s): Hiroshi Mizuno, Takayuki Yazawa, Shigemitsu Kasuga, Yuji Sawada, Jun Ogata, Tsuyu Ando, Hajime Kanamori, Jun‐ichi Yonemaru, Jianzhong Wu, Masami Yokota Hirai, Takashi Matsumoto, Hiroyuki Kawahigashi
Software Mentions: 2
Published: almost 12 years ago

10.1186/1756-0500-7-440

Evolutionary and sequence-based relationships in bacterial AdoMet-dependent non-coding RNA methyltransferases
Cited by: 13
Author(s): Jeanneth Mosquera-Rendón, Sonia Cárdenas-Brito, Juan D Pineda, Mauricio Corredor, Alfonso Benı́tez-Páez
Software Mentions: 2
Published: about 12 years ago

10.1186/s13104-015-1017-z

BMX: a tool for computing bacterial phyletic composition from orthologous maps
Cited by: 8
Author(s): Benard W. Kulohoma
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0142693

Transcriptomic Analysis of Induced Pluripotent Stem Cells Derived from Patients with Bipolar Disorder from an Old Order Amish Pedigree
Cited by: 32
Author(s): Kwi Hye Kim, Jiangang Liu, Rachelle J. Sells Galvin, Jeffrey L. Dage, Janice A. Egeland, Rosamund C. Smith, Kalpana Merchant, Steven M. Paul
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0220924

Epidemiological survey of serum titers from adults against various Gram-negative bacterial V-antigens
Cited by: 4
Author(s): Mao Kinoshita, Masaru Shimizu, Koichi Akiyama, Hideya Kato, Kiyoshi Moriyama, Teiji Sawa
Software Mentions: 2
Published: over 6 years ago

10.1002/hbm.24964

Impact of b‐value on estimates of apparent fibre density
Cited by: 58
Author(s): Sila Genc, Chantal M. W. Tax, Erika P. Raven, Maxime Chamberland, Greg D. Parker, Derek K. Jones
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pbio.1001430

The Nuclear Effector of Wnt-Signaling, Tcf1, Functions as a T-Cell–Specific Tumor Suppressor for Development of Lymphomas
Cited by: 66
Author(s): Machteld M. Tiemessen, M.R.M. Baert, Tom Schonewille, Martijn H. Brugman, Farbod Famili, Daniela Salvatori, Jules P.P. Meijerink, Uğur Özbek, Hans Clevers, Jacques J. M. van Dongen, Frank J. T. Staal
Software Mentions: 2
Published: almost 14 years ago

10.3390/ijms22073752

Molecular Analysis of ZNF71 KRAB in Non-Small-Cell Lung Cancer
Cited by: 12
Author(s): Qing Ye, Rehab F. Mohamed, Duaa Dukhlallah, Marieta Gencheva, Gangqing Hu, Martin C. Pearce, Siva Kumar Kolluri, Clay B. Marsh, Timothy D. Eubank, Alexey V. Ivanov, Nancy Lan Guo
Software Mentions: 2
Published: over 5 years ago

10.3390/cancers11111766

Collagen Induces a More Proliferative, Migratory and Chemoresistant Phenotype in Head and Neck Cancer via DDR1
Cited by: 35
Author(s): Sook Ling Lai, Malcolm Tan, Robert Hollows, Max Robinson, Maha Ibrahim, Sandra Margielewska, Eric Kenneth Parkinson, Anand Ramanathan, Rosnah Binti Zain, Hisham Mehanna, Rachel Spruce, Wenbin Wei, Ivy Chung, Paul G. Murray, Lee Fah Yap, Ian C. Paterson
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pbio.2006519

Copper-dependent amino oxidase 3 governs selection of metabolic fuels in adipocytes
Cited by: 41
Author(s): Haojun Yang, Martina Ralle, Michael J. Wolfgang, Neha Dhawan, Jason L. Burkhead, Susana Rodriguez, Jack H. Kaplan, G. William Wong, Norman J. Haughey, Svetlana Lutsenko
Software Mentions: 2
Published: almost 8 years ago

10.3390/microorganisms9081546

Experimental Selection of Paromomycin Resistance in Leishmania donovani Amastigotes Induces Variable Genomic Polymorphisms
Cited by: 6
Author(s): Sarah Hendrickx, João Luís Reis-Cunha, Sarah Forrester, Daniel C. Jeffares, Guy Caljon
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pbio.1000494

Chromosomal Redistribution of Male-Biased Genes in Mammalian Evolution with Two Bursts of Gene Gain on the X Chromosome
Cited by: 175
Author(s): Yong E. Zhang, Maria D. Vibranovski, Patrick Landback, Gabriel Marais, Manyuan Long
Software Mentions: 2
Published: almost 16 years ago

10.3390/cancers12051147

Plasma-Derived Extracellular Vesicles Convey Protein Signatures That Reflect Pathophysiology in Lung and Pancreatic Adenocarcinomas
Cited by: 19
Author(s): Johannes F. Fahrmann, Xiangying Mao, Ehsan Irajizad, Hiroyuki Katayama, Michela Capello, Ichidai Tanaka, Toshiro Kato, Ignacio I. Wistuba, Anirban Maitra, Edwin J. Ostrin, Samir Hanash, Jody Vykoukal
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.41517

Genetic diversity of CHC22 clathrin impacts its function in glucose metabolism
Cited by: 20
Author(s): Matteo Fumagalli, Stéphane M. Camus, Yoan Diekmann, Alice Burke, Marine Camus, Paul J. Norman, Agnel Praveen Joseph, Laurent Abi-Rached, Andrea Benazzo, Rita Rasteiro, Iain Mathieson, Maya Topf, Peter Parham, Mark G. Thomas, Frances M. Brodsky
Software Mentions: 2
Published: about 7 years ago

10.3389/fmicb.2018.00226

Impervious Surfaces Alter Soil Bacterial Communities in Urban Areas: A Case Study in Beijing, China
Cited by: 28
Author(s): Yinhong Hu, Xiaohui Dou, Juanyong Li, Feng Li
Software Mentions: 2
Published: over 8 years ago

10.1186/s12870-021-02969-9

The physiological and molecular mechanisms of N transfer in Eucalyptus and Dalbergia odorifera intercropping systems using root proteomics
Cited by: 6
Author(s): Xianyu Yao, Lusheng Liao, Yongzhen Huang, Ge Fan, Mei Yang, Shaoming Ye
Software Mentions: 2
Published: over 5 years ago

10.3390/cancers13051134

Distinct Signatures of Genomic Copy Number Variants Define Subgroups of Merkel Cell Carcinoma Tumors
Cited by: 6
Author(s): Natasha T. Hill, David Kim, Klaus J. Busam, Emily Y. Chu, Clayton Green, Isaac Brownell
Software Mentions: 2
Published: over 5 years ago

10.3390/cancers11010034

Antrocin Sensitizes Prostate Cancer Cells to Radiotherapy through Inhibiting PI3K/AKT and MAPK Signaling Pathways
Cited by: 31
Author(s): Yuan Chen, David T.W. Tzeng, Yiping Huang, Chun–Ming Lin, U‐Ging Lo, Chia‐Lin Wu, Lin H, Jer‐Tsong Hsieh, Chih‐Hsin Tang, Chih‐Ho Lai
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2013.00342

Functional gene pyrosequencing and network analysis: an approach to examine the response of denitrifying bacteria to increased nitrogen supply in salt marsh sediments
Cited by: 44
Author(s): Jennifer L. Bowen, Jarrett E. K. Byrnes, David Weisman, Cory Colaneri
Software Mentions: 2
Published: over 13 years ago

10.3390/cancers11091359

Allosteric AKT Inhibitors Target Synthetic Lethal Vulnerabilities in E-Cadherin-Deficient Cells
Cited by: 22
Author(s): Nicola Bougen-Zhukov, Yasmin Nouri, Tanis Godwin, Megan Taylor, Christopher Hakkaart, Andrew Single, Tom P. Brew, Elizabeth Permina, Augustine Chen, Michael A. Black, Parry Guilford
Software Mentions: 2
Published: almost 7 years ago

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