bioconductor: ComplexHeatmap | Projects

10.1530/REP-19-0293

Blastocyst transfer in mice alters the placental transcriptome and growth
Cited by: 4
Author(s): Katerina Menelaou, Malwina Prater, Simon James Tunster, Georgina E T Blake, Colleen Geary Joo, James C. Cross, Russell S. Hamilton, Erica D. Watson
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12977-018-0401-x

Prediction of HIV-associated neurocognitive disorder (HAND) from three genetic features of envelope gp120 glycoprotein
Cited by: 12
Author(s): Masato Ogishi, Hiroshi Yotsuyanagi
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41598-017-18756-2

Metagenomic and metabolomic analyses unveil dysbiosis of gut microbiota in chronic heart failure patients
Cited by: 199
Author(s): Xiaojie Cui, Lei Ye, Jing Li, Ling Jin, Wenjie Wang, Shuangyue Li, Minghui Bao, Shouling Wu, Lifeng Li, Bin Geng, Xin Zhou, Jian Zhang, Jun Cai
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41598-018-29847-z

The reciprocal interplay between TNFα and the circadian clock impacts on cell proliferation and migration in Hodgkin lymphoma cells
Cited by: 26
Author(s): Marconi Abreu, Alireza Basti, Nikolaï Genov, Gianluigi Mazzoccoli, Angela Relógio
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-018-32904-2

Transcriptomics and co-expression networks reveal tissue-specific responses and regulatory hubs under mild and severe drought in papaya (Carica papaya L.)
Cited by: 33
Author(s): Samuel David Gamboa-Tuz, Alejandro Pereira-Santana, Jesús Alejandro Zamora‐Briseño, Enrique Castaño, Francisco Espadas-Gil, Jorge Tonatiuh Ayala-Sumuano, Miguel A. Keb-Llanes, Lorenzo Felipe Sánchez Teyer, Luis Carlos Rodríguez-Zapata
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-019-42190-1

Changes in the Canine Plasma Lipidome after Short- and Long-Term Excess Glucocorticoid Exposure
Cited by: 15
Author(s): Nadja S Sieber-Ruckstuhl, Bo Burla, Susanne Spoerel, Florence Daniela Schmid, Claudio Venzin, Amaury Cazenave-Gassiot, Anne K. Bendt, Federico Torta, Markus R. Wenk, Felicitas S Boretti
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-73116-x

Base-resolution methylomes of gliomas bearing histone H3.3 mutations reveal a G34 mutant-specific signature shared with bone tumors
Cited by: 10
Author(s): Yuhei Sangatsuda, Fumihito Miura, Hiromitsu Araki, Masahiro Mizoguchi, Nobuhiro Hata, Daisuke Kuga, Ryusuke Hatae, Yojiro Akagi, Takeo Amemiya, Yutaka Fujioka, Yasuhito Arai, Akihiko Yoshida, Tatsuhiro Shibata, Koji Yoshimoto, Koji Iihara, Takashi Ito
Software Mentions: 4
Published: about 4 years ago

10.1038/s41598-020-78352-9

Eight years of homicide evolution in Monterrey, Mexico: a network approach
Cited by: 1
Author(s): Rodrigo Dorantes-Gilardi, Diana García-Cortés, Hiram Hernández-Ramos, Jesús Espinal-Enríquez
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41598-020-78366-3

Human kidney clonal proliferation disclose lineage-restricted precursor characteristics
Cited by: 7
Author(s): Osnat Cohen-Zontag, Rotem Gershon, Orit Harari‐Steinberg, Itamar Kanter, Dorit Omer, Oren Pleniceanu, Gal Tam, Sarit Oriel, H Ben-Hur, Guy Katz, Zohar Dotan, Tomer Kalisky, Benjamin Dekel, Naomi Pode‐Shakked
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41598-021-84564-4

Heterozygous APC germline mutations impart predisposition to colorectal cancer
Cited by: 7
Author(s): Livia Preisler, Aline Habib, Guy Shapira, Liron Kuznitsov-Yanovsky, Yoav Mayshar, Ilana Carmel-Gross, Mira Malcov, Foad Azem, Noam Shomron, Revital Kariv, Dov Hershkovitz, Dalit Ben‐Yosef
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-021-86148-8

Comparative in silico genome analysis of Clostridium perfringens unravels stable phylogroups with different genome characteristics and pathogenic potential
Cited by: 15
Author(s): Mostafa Y. Abdel-Glil, Prasad Thomas, Jörg Linde, Anne Busch, Lothar H. Wieler, Heinrich Neubauer, Christian Seyboldt
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-021-93616-8

MicroRNA-378a-3p is overexpressed in psoriasis and modulates cell cycle arrest in keratinocytes via targeting BMP2 gene
Cited by: 7
Author(s): Wipasiri Soonthornchai, Pattarin Tangtanatakul, Kornvalee Meesilpavikkai, Virgil A. S. H. Dalm, Patipark Kueanjinda, Jongkonnee Wongpiyabovorn
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-021-96837-z

Partitioning of gene expression among zebrafish photoreceptor subtypes
Cited by: 20
Author(s): Yohsuke Ogawa, Joseph C. Corbo
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-021-96886-4

Multiple strain analysis of Streptomyces species from Philippine marine sediments reveals intraspecies heterogeneity in antibiotic activities
Cited by: 11
Author(s): Chuckcris P. Tenebro, Dana Joanne Von L. Trono, Carmela Vannette B. Vicera, Edna M. Sabido, Jovito A. Ysulat, Aaron Joseph M. Macaspac, Kimberly A. Tampus, Trisha Alexis P. Fabrigar, Jonel P. Saludes, Doralyn S. Dalisay
Software Mentions: 4
Published: about 3 years ago

10.1126/scisignal.abf8483

Kynurenic acid may underlie sex-specific immune responses to COVID-19
Cited by: 55
Author(s): Yuping Cai, Daniel Kim, Takehiro Takahashi, David Broadhurst, Yan Hong, Shuanagge Ma, Nicholas J. W. Rattray, Arnau Casanovas‐Massana, Benjamin Israelow, Jonathan Klein, Carolina Lucas, Tianyang Mao, Adam J. Moore, M. Catherine Muenker, Ji Eun Oh, Julio Silva, Patrick Wong, Albert Icksang Ko, Sajid Khan, Akiko Iwasaki, Caroline H. Johnson
Software Mentions: 4
Published: over 3 years ago

10.1128/mBio.01650-17

De Novo Assembly and Phasing of Dikaryotic Genomes from Two Isolates of Puccinia coronata f. sp. avenae , the Causal Agent of Oat Crown Rust
Cited by: 45
Author(s): Marisa E. Miller, Ying Zhang, Vahid Omidvar, Jana Sperschneider, Benjamin Schwessinger, Castle Raley, Jonathan M. Palmer, Diana Garnica, Narayana M. Upadhyaya, John P. Rathjen, Jennifer Taylor, Robert Park, Peter N. Dodds, Cory D. Hirsch, Shahryar F. Kianian, Melania Figueroa
Software Mentions: 4
Published: over 6 years ago

10.1128/mBio.00617-20

EspFu-Mediated Actin Assembly Enhances Enteropathogenic Escherichia coli Adherence and Activates Host Cell Inflammatory Signaling Pathways
Cited by: 12
Author(s): Fernando Henrique Martins, Ashwani Kumar, Cecília M. Abe, Enéas Carvalho, Milton Yutaka Nishiyama-Jr, Chao Xing, Vanessa Sperandio, Waldir P. Elias
Software Mentions: 4
Published: over 4 years ago

10.1128/mBio.01229-21

Diverse Humoral Immune Responses in Younger and Older Adult COVID-19 Patients
Cited by: 18
Author(s): Jennifer Sasson, Joseph J. Campo, Rebecca Carpenter, Mary K. Young, Arlo Randall, Krista Trappl-Kimmons, Amit Oberai, Christopher Hung, Joshua Edgar, Andy Teng, Jozelyn Pablo, Xiaowu Liang, Angela Yee, William A. Petri, David Camerini
Software Mentions: 4
Published: over 3 years ago

10.1128/mSystems.00640-20

Stability of the Virome in Lab- and Field-Collected Aedes albopictus Mosquitoes across Different Developmental Stages and Possible Core Viruses in the Publicly Available Virome Data of Aedes Mosquitoes
Cited by: 34
Author(s): Chengying Shi, Lu Zhao, Evans Atoni, Weihua Zeng, Xiaomin Hu, Jelle Matthijnssens, Zhiming Yuan, Han Xia
Software Mentions: 4
Published: about 4 years ago

10.1101/2021.03.26.21254445

Long non-coding RNAs (lncRNAs) NEAT1 and MALAT1 are differentially expressed in severe COVID-19 patients: An integrated single cell analysis
Cited by: 5
Author(s): Huang Kai, Catherine Wang, Christen Vagts, Vanitha Raguveer, Patricia W. Finn, David L. Perkins
Software Mentions: 4
Published: over 3 years ago

10.1186/s13046-019-1403-9

IFN-gamma-induced PD-L1 expression in melanoma depends on p53 expression
Cited by: 93
Author(s): Alexander Thiem, Sonja Hesbacher, Hermann Kneitz, Teresa di Primio, Markus V. Heppt, Heike M. Hermanns, Matthias Goebeler, Svenja Meierjohann, Roland Houben, David Schrama
Software Mentions: 4
Published: about 5 years ago

10.7554/eLife.62320

Multiplexed proteomics of autophagy-deficient murine macrophages reveals enhanced antimicrobial immunity via the oxidative stress response
Cited by: 9
Author(s): Timurs Maculins, Erik Verschueren, Trent Hinkle, Meena Choi, Patrick Chang, Cécile Chalouni, Shilpa Rao, Youngsu Kwon, Junghyun Lim, Anand Kumar Katakam, Ryan C. Kunz, Brian K. Erickson, Ting Huang, Tsung-Heng Tsai, Olga Vitek, Mike Reichelt, Yasin Şenbabaoğlu, Brent McKenzie, John R. Rohde, Ivan Đikić, Donald S. Kirkpatrick, Aditya Murthy
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.63115

Genetic association and causal inference converge on hyperglycaemia as a modifiable factor to improve lung function
Cited by: 10
Author(s): William R Reay, Sahar I El Shair, Michael Geaghan, Carlos Riveros, Elizabeth G. Holliday, Mark McEvoy, Stephen Hancock, Roseanne Peel, Rodney J. Scott, John Attia, Murray J. Cairns
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.65857

Whole-organism eQTL mapping at cellular resolution with single-cell sequencing
Cited by: 17
Author(s): Eyal Ben-David, James Boocock, Longhua Guo, Stefan Zdraljevic, Joshua S. Bloom, Leonid Kruglyak
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.68714

Deep learning detects cardiotoxicity in a high-content screen with induced pluripotent stem cell-derived cardiomyocytes
Cited by: 17
Author(s): Francis Grafton, Jaclyn J. Ho, Sara Ranjbarvaziri, Farshad Farshidfar, Anastasiia Budan, Stephanie Steltzer, Mahnaz Maddah, Kevin E. Loewke, Kristina Green, Snahel Patel, Tim Hoey, Mohammad A. Mandegar
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.63545

Mutations in SKI in Shprintzen–Goldberg syndrome lead to attenuated TGF-β responses through SKI stabilization
Cited by: 20
Author(s): Ilaria Gori, Roger George, A. Purkiss, Stephanie Strohbuecker, Rebecca A. Randall, R.W. Ogrodowicz, Virginie Carmignac, Laurence Faivre, Dhira Joshi, Svend Kjær, Caroline S. Hill
Software Mentions: 4
Published: almost 4 years ago

10.3390/ijms19102894

Inhibitory Effect of Methotrexate on Rheumatoid Arthritis Inflammation and Comprehensive Metabolomics Analysis Using Ultra-Performance Liquid Chromatography-Quadrupole Time of Flight-Mass Spectrometry (UPLC-Q/TOF-MS)
Cited by: 30
Author(s): Zhiqiang Pang, Guoqiang Wang, Nan Ran, Hongqiang Lin, Ziyan Wang, Xuewa Guan, Yuze Yuan, Keyong Fang, Jinping Liu, Fang Wang
Software Mentions: 4
Published: about 6 years ago

10.3390/ijms20030510

Molecular Insights into the Classification of Luminal Breast Cancers: The Genomic Heterogeneity of Progesterone-Negative Tumors
Cited by: 23
Author(s): Gianluca Lopez, Jole Costanza, M. Colleoni, Laura Fontana, Stefano Ferrero, Monica Miozzo, Nicola Fusco
Software Mentions: 4
Published: almost 6 years ago

10.3390/ijms20123101

Genome-Wide Analysis of ROS Antioxidant Genes in Resurrection Species Suggest an Involvement of Distinct ROS Detoxification Systems during Desiccation
Cited by: 29
Author(s): Saurabh Gupta, Yanni Dong, Paul P. Dijkwel, Bernd Mueller‐Roeber, Tsanko Gechev
Software Mentions: 4
Published: over 5 years ago

10.3390/ijms20194665

Unravelling the Metabolic and Hormonal Machinery During Key Steps of Somatic Embryogenesis: A Case Study in Coffee
Cited by: 15
Author(s): Rayan Awada, Claudine Campa, Estelle Gibault, Eveline Déchamp, Frédéric Georget, Maud Lepelley, Cécile Abdallah, Alexender Erban, Federico Martinez‐Seidel, Joachim Kopka, Laurent Legendre, Sophie Léran, Geneviève Conéjéro, Jean‐Luc Verdeil, Dominique Crouzillat, D. Breton, Benoît Bertrand, Hervé Etienne
Software Mentions: 4
Published: about 5 years ago

10.3390/ijms21239331

Genomic and Transcriptomic Survey Provides New Insight into the Organization and Transposition Activity of Highly Expressed LTR Retrotransposons of Sunflower (Helianthus annuus L.)
Cited by: 13
Author(s): Ilya Kirov, Murad Omarov, Pavel Merkulov, Maxim Dudnikov, Sofya Gvaramiya, Elizaveta Kolganova, Р. А. Комахин, Г. И. Карлов, A. A. Soloviev
Software Mentions: 4
Published: almost 4 years ago

10.3390/ijms22147250

Drugs and Epigenetic Molecular Functions. A Pharmacological Data Scientometric Analysis
Cited by: 5
Author(s): Dario Kringel, Sebastian Malkusch, Jörn Lötsch
Software Mentions: 4
Published: over 3 years ago

10.18632/oncotarget.25701

CAD/POLD2 gene expression is associated with poor overall survival and chemoresistance in bladder urothelial carcinoma
Cited by: 10
Author(s): Kevin B. Givechian, Chad Garner, Hermes Garbán, Shahrooz Rabizadeh, Patrick Soon‐Shiong
Software Mentions: 4
Published: over 6 years ago

10.1186/s12967-019-1824-4

Identification of an immune signature predicting prognosis risk of patients in lung adenocarcinoma
Cited by: 123
Author(s): Qian Song, Jun Shang, Zaixing Yang, Lanlin Zhang, Chufan Zhang, Jianing Chen, Xianghua Wu
Software Mentions: 4
Published: over 5 years ago

10.1007/s00401-020-02218-7

Molecular characterization of CNS paragangliomas identifies cauda equina paragangliomas as a distinct tumor entity
Cited by: 17
Author(s): Leonille Schweizer, Felix Thierfelder, Christian Thomas, Patrick Soschinski, Abigail K Suwala, Damian Stichel, Annika K. Wefers, Lars Wessels, Martin Misch, Hee-Yeong Kim, Ruben Jödicke, Daniel Teichmann, David Kaul, Johannes Kahn, Michael Bockmayr, Martin Hasselblatt, Alexander Younsi, Andreas Unterberg, Bettina Knie, Jan Walter, Diaa Al Safatli, Sven-Axel May, Andreas Jödicke, Georgios Ntoulias, Dag Moskopp, Peter Vajkoczy, Frank L. Heppner, David Capper, Wolfgang Hartmann, Christian Hartmann, Andreas von Deimling, David Reuß, Anne Schöler, Arend Koch
Software Mentions: 4
Published: about 4 years ago

10.1093/bioinformatics/btz023

Large-scale analysis of human gene expression variability associates highly variable drug targets with lower drug effectiveness and safety
Cited by: 22
Author(s): Eyal Simonovsky, Ronen Schuster, Esti Yeger-Lotem
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-019-50962-y

The explant developmental stage profoundly impacts small RNA-mediated regulation at the dedifferentiation step of maize somatic embryogenesis
Cited by: 21
Author(s): Vasti Thamara Juárez-González, Brenda Anabel López-Ruíz, Patricia Baldrich, Eduardo Luján-Soto, Blake C. Meyers, Tzvetanka D. Dinkova
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-53973-x

Identification of Sero-Diagnostic Antigens for the Early Diagnosis of Johne’s Disease using MAP Protein Microarrays
Cited by: 6
Author(s): Lingling Li, John P. Bannantine, Joseph J. Campo, Arlo Randall, Yrjo T. Gröhn, Megan A. Schilling, Robab Katani, Jessica Radzio‐Basu, Laurel A. Easterling, Vivek Kapur
Software Mentions: 3
Published: almost 5 years ago

10.18632/aging.103147

EFEMP2 indicates assembly of M0 macrophage and more malignant phenotypes of glioma
Cited by: 24
Author(s): Lijie Huang, Zheng Wang, Yuanhao Chang, Kuanyu Wang, Xiaoyang Kang, Ruoyu Huang, Ying Zhang, Jing Chen, Fan Zeng, Fan Wu, Zheng Zhao, Guanzhang Li, Hua Huang, Tao Jiang, Huimin Hu
Software Mentions: 3
Published: over 4 years ago

10.3390/plants9121738

Opportunities for Increased Nitrogen Use Efficiency in Wheat for Forage Use
Cited by: 6
Author(s): Naina Sharma, Raquel Schneider-Canny, Konstantin Chekhovskiy, Soonil Kwon, Malay C. Saha
Software Mentions: 3
Published: almost 4 years ago

10.7554/eLife.26129

FXR1 regulates transcription and is required for growth of human cancer cells with TP53/FXR2 homozygous deletion
Cited by: 25
Author(s): Yichao Fan, Yue Jiao, Mengtao Xiao, Han Han‐Zhang, Yao Vickie Wang, Chun Ma, Zhilin Deng, Yingxiang Li, Yanyan Yu, Xinghao Wang, Shen Niu, Youjia Hua, Zhiping Weng, Peter Atadja, En Li, Bin Xiang
Software Mentions: 3
Published: over 7 years ago

10.3390/cancers12040922

Tumor Biomarkers for the Prediction of Distant Metastasis in Head and Neck Squamous Cell Carcinoma
Cited by: 11
Author(s): Salvatore Alfieri, Andrea Carenzo, Francesca Platini, Mara Serena Serafini, Federica Perrone, Donata Galbiati, Andrea Pietro Sponghini, Roberta Depenni, Andrea Vingiani, Pasquale Quattrone, Edoardo Marchesi, Maria Federica Iannò, Arianna Micali, Elisa Mancinelli, Ester Orlandi, Sara Marceglia, Laura D. Locati, Lisa Licitra, Paolo Bossi, Loris De Cecco
Software Mentions: 3
Published: over 4 years ago

10.3390/cells10092376

Transcriptomic Response Dynamics of Human Primary and Immortalized Adrenocortical Cells to Steroidogenic Stimuli
Cited by: 4
Author(s): Kimberly Wellman, Rui Fu, Amber Baldwin, Juilee Rege, Elisabeth Murphy, William E. Rainey, Neelanjan Mukherjee
Software Mentions: 3
Published: about 3 years ago

10.1186/s12920-020-0700-7

Transcriptome analysis of HPV-induced warts and healthy skin in humans
Cited by: 13
Author(s): Laith N. AL-Eitan, Amneh H. Tarkhan, Mansour A. Alghamdi, Firas Al‐Qarqaz, Hadeel Alkofahi
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-64938-w

Gene expression trajectories during male and female reproductive development in balsam poplar (Populus balsamifera L.)
Cited by: 10
Author(s): Quentin Cronk, Raju Soolanayakanahally, Katharina Bräutigam
Software Mentions: 3
Published: over 4 years ago

10.1186/s13073-021-00888-w

Evaluating the transcriptional fidelity of cancer models
Cited by: 23
Author(s): Da Peng, Rachel Gleyzer, Wen Hsin Tai, Pavithra Kumar, Qin Bian, Bradley Isaacs, Edroaldo Lummertz da Rocha, Stephanie Cai, Kathleen T. DiNapoli, Franklin W. Huang, Patrick Cahan
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-020-66747-7

Assessment of Luminal and Basal Phenotypes in Bladder Cancer
Cited by: 77
Author(s): Charles C. Guo, Jolanta Bondaruk, Hui Yao, Ziqiao Wang, Li Zhang, Sangkyou Lee, June Goo Lee, David Cogdell, Miao Zhang, Guoliang Yang, Vipulkumar Dadhania, Woonyoung Choi, Peng Wei, Jianjun Gao, Dan Theodorescu, Christopher J. Logothetis, Colin P. Dinney, Marek Kimmel, John N. Weinstein, David J. McConkey, Bogdan Czerniak
Software Mentions: 3
Published: over 4 years ago

10.1080/19490976.2021.1930872

A microbial signature following bariatric surgery is robustly consistent across multiple cohorts
Cited by: 14
Author(s): Farnaz Fouladi, Ian M. Carroll, Thomas J. Sharpton, Emily C. Bulik-Sullivan, Leslie J. Heinberg, Kristine J. Steffen, Anthony A. Fodor
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41598-020-72610-6

Ontogeny of different subsets of yellow fever virus-specific circulatory CXCR5+ CD4+ T cells after yellow fever vaccination
Cited by: 6
Author(s): Quinn DeGottardi, Theresa J. Gates, Junbao Yang, Eddie A. James, Uma Malhotra, I-Ting Chow, Yannick Simoni, Michael G. Fehlings, Evan W. Newell, Hannah A. DeBerg, William W. Kwok
Software Mentions: 3
Published: about 4 years ago

10.3390/ijms21145025

Role of Flavonoids in the Prevention of AhR-Dependent Resistance During Treatment with BRAF Inhibitors
Cited by: 8
Author(s): Héloïse M Leclair, Nina Tardif, Anaïs Paris, Marie‐Dominique Galibert, Sébastien Corre
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-74033-9

Spirochetes isolated from arthropods constitute a novel genus Entomospira genus novum within the order Spirochaetales
Cited by: 1
Author(s): Lucía Graña-Miraglia, Silvie Šikutová, Marie Vancová, Tomáš Bílý, Volker Fingerle, Andreas Sing, Santiago Castillo-Ramírez, Gabriele Margos, Ivo Rudolf
Software Mentions: 3
Published: about 4 years ago

10.1371/journal.pone.0184373

Identification of sero-reactive antigens for the early diagnosis of Johne’s disease in cattle
Cited by: 14
Author(s): Lingling Li, John P. Bannantine, Joseph J. Campo, Arlo Randall, Yrjo T. Gröhn, Robab Katani, Megan A. Schilling, Jessica Radzio‐Basu, Vivek Kapur
Software Mentions: 3
Published: about 7 years ago

10.1038/s41389-019-0150-2

The epigenetic factor BORIS (CTCFL) controls the androgen receptor regulatory network in ovarian cancer
Cited by: 16
Author(s): Marisol Salgado-Albarrán, Rodrigo González‐Barrios, Lissania Guerra-Calderas, Nicolás Alcaraz, Thalía Estefanía Sánchez-Correa, Clementina Castro-Hernández, Yesennia Sánchez-Pérez, Elena Aréchaga-Ocampo, Alejandro García‐Carrancá, David Cantú de León, Luis A. Herrera, Jan Baumbach, Ernesto Soto-Reyes
Software Mentions: 3
Published: over 5 years ago

10.1155/2020/3074313

Urinary I-FABP, L-FABP, TFF-3, and SAA Can Diagnose and Predict the Disease Course in Necrotizing Enterocolitis at the Early Stage of Disease
Cited by: 22
Author(s): Štěpán Coufal, Alena Kokešová, Helena Tlaskalová‐Hogenová, Barbora Frýbová, J Šnajdauf, Michal Rygl, Miloslav Kverka
Software Mentions: 3
Published: over 4 years ago

10.3390/pathogens10091127

Delineating the Role of Aedes aegypti ABC Transporter Gene Family during Mosquito Development and Arboviral Infection via Transcriptome Analyses
Cited by: 8
Author(s): Vijoy Kumar, Shilpi Garg, Lalita Gupta, Kuldeep Gupta, Cheikh Tidiane Diagne, Dorothée Missé, Julien Pompon, Sanjeev Kumar, Vishal Saxena
Software Mentions: 3
Published: about 3 years ago

10.3390/ijms21145056

Integrated Analysis of Tissue-Specific Promoter Methylation and Gene Expression Profile in Complex Diseases
Cited by: 8
Author(s): Kibaick Lee, Sanghoon Moon, Mi Jin Park, Insong Koh, Nak Hyeon Choi, Ho Yeong Yu, Young Jin Kim, Jinhwa Kong, Hee Gyung Kang, Song Cheol Kim, Bong-Jo Kim
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0195861

Machine learning-based diagnosis for disseminated intravascular coagulation (DIC): Development, external validation, and comparison to scoring systems
Cited by: 9
Author(s): Jihoon G. Yoon, JoonNyung Heo, Minkyu Kim, Yu Jin Park, Min Hyuk Choi, Jaewoo Song, Kangsan Wyi, Hakbeen Kim, Olivier Duchenne, Soowon Eom, Yury Tsoy
Software Mentions: 3
Published: over 6 years ago

10.1016/j.jcmgh.2020.11.008

Distinct and Overlapping Roles of Hippo Effectors YAP and TAZ During Human and Mouse Hepatocarcinogenesis
Cited by: 18
Author(s): Haichuan Wang, Jingxiao Wang, Shanshan Zhang, Jiaoyuan Jia, Xianqiong Liu, Jie Zhang, Pan Wang, Xinhua Song, Li Che, Ke Liu, Silvia Ribback, Antonio Cigliano, Matthias Evert, Hong Wu, Diego F. Calvisi, Yong Zeng
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0202083

Dietary soybean protein ameliorates high-fat diet-induced obesity by modifying the gut microbiota-dependent biotransformation of bile acids
Cited by: 44
Author(s): Kenji Watanabe, Miki Igarashi, Xuan Li, Akiho Nakatani, Junpei Miyamoto, Yuka Inaba, Asuka Sutou, Tsutomu Saito, Takumi Sato, Nobuhiko Tachibana, Hiroshi Inoue, Ikuo Kimura
Software Mentions: 3
Published: over 6 years ago

10.3390/v11100903

Red deer (Cervus elaphus) Did Not Play the Role of Maintenance Host for Bluetongue Virus in France: The Burden of Proof by Long-Term Wildlife Monitoring and Culicoides Snapshots
Cited by: 10
Author(s): Sophie Rossi, Thomas Balenghien, Cyril Viarouge, Eva Faure, Gina Zanella, Corinne Sailleau, Bruno Mathieu, Jean Claude Delécolle, Camille Ninio, Claire Garros, Laëtitia Gardès, Christophe Tholoniat, Agnès Ariston, D. Gauthier, Stevan Mondoloni, Aurélie Barboiron, Maryline Pellerin, P. Gibert, Corinne Novella, Stéphane Barbier, Etienne Guillaumat, Stéphan Zientara, Damien Vitour, Emmanuel Bréard
Software Mentions: 3
Published: about 5 years ago

10.1002/1878-0261.12571

Identification of microRNAs involved in pathways which characterize the expression subtypes of NSCLC
Cited by: 11
Author(s): Ann Rita Halvorsen, Miriam Ragle Aure, Åsa Kristina Öjlert, Odd Terje Brustugun, Steinar Solberg, Daniel J. H. Nebdal, Åslaug Helland
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-021-83057-8

Involvement of bilateral insula in brand extension evaluation: an fMRI study
Cited by: 2
Author(s): Taeyang Yang, Jihyun Kim, Junsuk Kim, Sung-Phil Kim
Software Mentions: 3
Published: almost 4 years ago

10.3390/cancers13071719

Integrative RNA-Seq and H3 Trimethylation ChIP-Seq Analysis of Human Lung Cancer Cells Isolated by Laser-Microdissection
Cited by: 1
Author(s): Quang Ong, Shingo Sakashita, Emi Hanawa, Naomi Kaneko, Masayuki Noguchi, Masafumi Muratani
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-021-84141-9

Major oscillations in spontaneous home-cage activity in C57BL/6 mice housed under constant conditions
Cited by: 15
Author(s): Karin Pernold, Eric Rullman, Brun Ulfhake
Software Mentions: 3
Published: over 3 years ago

10.1155/2020/2496582

Profiles of PD-1, PD-L1, PD-L2 in Gastric Cancer and Their Relation with Mutation, Immune Infiltration, and Survival
Cited by: 7
Author(s): Jingwei Liu, Hao Li, Liping Sun, Yuan Yuan, Chengzhong Xing
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-021-85812-3

Distinct DNA methylation patterns associated with treatment resistance in metastatic castration resistant prostate cancer
Cited by: 8
Author(s): Madonna Peter, Misha Bilenky, Alastair Davies, Ruth Isserlin, Gary D. Bader, Neil Fleshner, Martin Hirst, Amina Zoubeidi, Bharati Bapat
Software Mentions: 3
Published: over 3 years ago

10.3390/biomedicines9070735

Vocal Fold Fibroblasts in Reinke’s Edema Show Alterations Involved in Extracellular Matrix Production, Cytokine Response and Cell Cycle Control
Cited by: 5
Author(s): Magdalena Grill, Isaac Lazzeri, Andrijana Kirsch, Nina Steurer, Tanja Grossmann, Michael Karbiener, Ellen Heitzer, Markus Gugatschka
Software Mentions: 3
Published: over 3 years ago

10.3390/molecules26051340

Metabolome-Based Discrimination Analysis of Five Lilium Bulbs Associated with Differences in Secondary Metabolites
Cited by: 4
Author(s): Ying Kong, Huan Wang, Lixin Lang, Xiaoying Dou, Jinrong Bai
Software Mentions: 3
Published: over 3 years ago

10.1093/molbev/msy125

Homeobox Gene Duplication and Divergence in Arachnids
Cited by: 56
Author(s): Daniel J. Leite, Luís Baudouin-Gonzalez, Sawa Iwasaki-Yokozawa, Jesús Lozano-Fernandez, Natascha Turetzek, Yasuko Akiyama-Oda, Nikola-Michael Prpíc, Davide Pisani, Hiroki Oda, Prashant P. Sharma, Alistair P. McGregor
Software Mentions: 3
Published: over 6 years ago

10.3389/fpls.2018.00968

QTL Mapping and Validation of Adult Plant Resistance to Stripe Rust in Chinese Wheat Landrace Humai 15
Cited by: 38
Author(s): Fengping Yuan, Qingdong Zeng, Jianhui Wu, Qilin Wang, Zujun Yang, Bang-Ping Liang, Xinhong Chen
Software Mentions: 3
Published: over 6 years ago

10.1111/jcmm.16769

Axl‐inhibitor bemcentinib alleviates mitochondrial dysfunction in the unilateral ureter obstruction murine model
Cited by: 8
Author(s): August Hoel, Tarig Al-Hadi Osman, Fredrik Hoel, Hassan Osman Alhassan Elsaid, Tony Chen, Lea Landolt, Janka Bábíčková, Karl Johan Tronstad, James B. Lorens, Gro Gausdal, Hanspeter Marti, Jessica Furriol
Software Mentions: 3
Published: over 3 years ago

10.3389/fmicb.2019.02999

Reproducible Colonization of Germ-Free Mice With the Oligo-Mouse-Microbiota in Different Animal Facilities
Cited by: 57
Author(s): Claudia Eberl, Diana Ring, Philipp Münch, Markus Beutler, Marijana Basic, Emma Slack, Martin Schwarzer, Dagmar Šrůtková, Anna Lange, Julia-Stefanie Frick, Bärbel Stecher
Software Mentions: 3
Published: almost 5 years ago

10.3390/cancers13112549

Genetic Analysis and Operative Outcomes in Patients with Oncogene-Driven Advanced NSCLC Treated with Cytoreductive Surgery as a Component of Local Consolidative Therapy
Cited by: 3
Author(s): Byung Jo Park, Hyo Sup Shim, Chang Young Lee, Jin Gu Lee, Hye Ryun Kim, Sang Hoon Lee, Min Hee Hong, Sung Yong Park
Software Mentions: 3
Published: over 3 years ago

10.18632/aging.101333

Age-related gene expression changes, and transcriptome wide association study of physical and cognitive aging traits, in the Lothian Birth Cohort 1936
Cited by: 32
Author(s): Sarah E. Harris, Valentina Riggio, Louise Evenden, T. L. Gilchrist, Sarah McCafferty, Lee Murphy, Nicola Wrobel, Adele M. Taylor, Janie Corley, Alison Pattie, Simon R. Cox, Carmen Martin-Ruiz, James Prendergast, John M. Starr, Riccardo E. Marioni, Ian J. Deary
Software Mentions: 3
Published: almost 7 years ago

10.3390/jof6040311

Transcriptional Remodeling Patterns in Murine Dendritic Cells Infected with Paracoccidioides brasiliensis: More Is Not Necessarily Better
Cited by: 1
Author(s): Calliandra Maria de-Souza-Silva, Fabián Andrés Hurtado, Aldo Henrique Tavares, Getúlio Pereira de Oliveira Júnior, Tainá Raiol, Christiane Nishibe, Daniel Paiva Agustinho, Nalvo F. Almeida, Maria Tereza Machado Teles Walter, André Moraes Nicola, Anamélia Lorenzetti Bocca, Patrícia Albuquerque, Ildinete Silva-Pereira
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41598-021-93142-7

Time course profiling of host cell response to herpesvirus infection using nanopore and synthetic long-read transcriptome sequencing
Cited by: 3
Author(s): Zoltán Maróti, Dóra Tombácz, Norbert Moldován, Gábor Torma, Victoria A Jefferson, Zsolt Csabai, Gábor Gulyás, Ákos Dörmő, Miklós Boldogkői, Tibor Kalmár, Florencia Meyer, Zsolt Boldogköi
Software Mentions: 3
Published: over 3 years ago

10.26508/lsa.201900453

Cx3cr1-deficient microglia exhibit a premature aging transcriptome
Cited by: 58
Author(s): Stefka Gyoneva, Raghavendra Hosur, David Gosselin, Baohong Zhang, Zhengyu Ouyang, Anne C. Cotleur, Michael A. Peterson, Norm Allaire, Ravi Challa, Patrick Cullen, Chris Roberts, Kelly Miao, Taylor L. Reynolds, Christopher K. Glass, Linda C. Burkly, Richard M. Ransohoff
Software Mentions: 3
Published: almost 5 years ago

10.3389/fmed.2020.581082

Anesthesia-Sepsis-Associated Alterations in Liver Gene Expression Profiles and Mitochondrial Oxidative Phosphorylation Complexes
Cited by: 6
Author(s): Hari Prasad Osuru, Umadevi Paila, Keita Ikeda, Zhiyi Zuo, Robert H. Thiele
Software Mentions: 3
Published: almost 4 years ago

10.1186/s12915-021-01025-0

The epigenetic regulator G9a attenuates stress-induced resistance and metabolic transcriptional programs across different stressors and species
Cited by: 8
Author(s): Human Riahi, Michaela Fencková, Kayla J. Goruk, Annette Schenck, Jamie M. Kramer
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-021-95633-z

Evaluation of drought resistance and transcriptome analysis for the identification of drought-responsive genes in Iris germanica
Cited by: 8
Author(s): Jingwei Zhang, Huang DaZhuang, Xin Zhao, Man Zhang
Software Mentions: 3
Published: over 3 years ago

10.1186/s12920-019-0501-z

Genes CEP55, FOXD3, FOXF2, GNAO1, GRIA4, and KCNA5 as potential diagnostic biomarkers in colorectal cancer
Cited by: 32
Author(s): Nina Hauptman, Daša Jevšinek Skok, Elena Spasovska, Emanuela Boštjančič, Damjan Glavač
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-96150-9

Transcriptomic analysis of the mouse retina after acute and chronic normobaric and hypobaric hypoxia
Cited by: 10
Author(s): Lynn J. A. Ebner, Marijana Samardzija, Federica Storti, Vyara Todorova, Duygu Karademir, Julian Behr, Fraser Simpson, Markus Thiersch, Christian Grimm
Software Mentions: 3
Published: over 3 years ago

10.7150/thno.42986

The molecular landscape and microenvironment of salivary duct carcinoma reveal new therapeutic opportunities
Cited by: 25
Author(s): Mélissa Alame, Emmanuel Cornillot, Valère Cacheux, Guillaume Tosato, Marion Four, Laura de Oliveira, Stéphanie Gofflot, Philippe Delvenne, Evgenia Turtoi, Simon Cabello-Aguilar, Masahiko Nishiyama, Andrei Turtoï, Valérie Costes‐Martineau, Jacques Colinge
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-021-96635-7

Multi-layered proteogenomic analysis unravels cancer metastasis directed by MMP-2 and focal adhesion kinase signaling
Cited by: 11
Author(s): Yumi Kwon, Seongjun Park, Binh Thanh Nguyen, Mi Jeong Kim, Sejin Oh, Hwanho Lee, Narae Park, Hyun‐Seok Kim, Min‐Jung Kang, Byung Soh Min, Jinwon Lee, Eun Gyeong Yang, Cheolju Lee
Software Mentions: 3
Published: about 3 years ago

10.1371/journal.pone.0244682

Metabarcoding on both environmental DNA and RNA highlights differences between fungal communities sampled in different habitats
Cited by: 12
Author(s): Martino Adamo, Samuele Voyron, Matteo Chialva, Roland Marmeisse, Mariangela Girlanda
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41598-021-96844-0

Transcriptional overlap links DNA hypomethylation with DNA hypermethylation at adjacent promoters in cancer
Cited by: 9
Author(s): Jean S. Fain, Axelle Loriot, Anna Diacofotaki, Aurélie Van Tongelen, Charles De Smet
Software Mentions: 3
Published: about 3 years ago

10.1186/s12920-019-0652-y

Germline variants in DNA repair genes associated with hereditary breast and ovarian cancer syndrome: analysis of a 21 gene panel in the Brazilian population
Cited by: 27
Author(s): Simone da Costa e Silva Carvalho, Nathália Moreno Cury, Danielle Barbosa Brotto, Luíza Ferreira de Araújo, Reginaldo Cruz Alves Rosa, Lorena Alves Texeira, Jéssica Rodrigues Plaça, Adriana Aparecida Marques, Kamila Chagas Peronni, Patrícia de Cássia Ruy, Greice Andreotti de Molfetta, Júlio C. Moriguti, Dirce Maria Carraro, Edenir Inêz Palmero, Patrícia Ashton‐Prolla, Victor Evangelista de Faria Ferraz, Wilson A. Silva
Software Mentions: 3
Published: almost 5 years ago

10.3390/ijms22063164

CaMKIIα Expressing Neurons to Report Activity-Related Endogenous Hypoxia upon Motor-Cognitive Challenge
Cited by: 4
Author(s): Umer Javed Butt, Imam Hassouna, Laura Fernandez Garcia-Agudo, Agnes A. Steixner-Kumar, Constanze Depp, Nadine Barnkothe, Matthias R. Zillmann, Anja Ronnenberg, Viktoria Bonet, Sandra Goebbels, Klaus‐Armin Nave
Software Mentions: 3
Published: over 3 years ago

10.3390/genes12081183

Whole-Genome Differentially Hydroxymethylated DNA Regions among Twins Discordant for Cardiovascular Death
Cited by: 1
Author(s): Jun Dai, Ming-Ying Leung, Weihua Guan, Han Guo, Ruth E. Krasnow, Thomas J. Wang, Wael El-Rifai, Zhongming Zhao, Terry Reed
Software Mentions: 3
Published: over 3 years ago

10.3390/cancers12010064

RNA Sequencing of Collecting Duct Renal Cell Carcinoma Suggests an Interaction between miRNA and Target Genes and a Predominance of Deregulated Solute Carrier Genes
Cited by: 15
Author(s): Sven Wach, Helge Täubert, Katrin Weigelt, Nora Hase, Marcel Köhn, Danny Misiak, Stefan Hüttelmaier, Christine Stöhr, Andreas Kahlmeyer, Florian Haller, Julio Vera, Arndt Hartmann, Bernd Wullich, Xin Lai
Software Mentions: 3
Published: almost 5 years ago

10.3390/cells9081828

Gene Expression Clustering and Selected Head and Neck Cancer Gene Signatures Highlight Risk Probability Differences in Oral Premalignant Lesions
Cited by: 12
Author(s): Andrea Carenzo, Mara Serena Serafini, Elisa Roca, Alberto Paderno, Davide Mattavelli, Chiara Romani, Pierre Saintigny, Senada Koljenović, Lisa Licitra, Loris De Cecco, Paolo Bossi
Software Mentions: 3
Published: over 4 years ago

10.3389/fendo.2021.721812

A Novel Diagnostic Predictive Model for Idiopathic Short Stature in Children
Cited by: 4
Author(s): Jinghong Yuan, Du Zhi, Zhiwen Wu, Yanqin Yang, Xigao Cheng, Xijuan Liu, Jingyu Jia
Software Mentions: 3
Published: about 3 years ago

10.3390/cancers12113081

Prognostic Significance of Oxidation Pathway Mutations in Recurrent Laryngeal Squamous Cell Carcinoma
Cited by: 8
Author(s): Molly Heft Neal, Apurva Bhangale, Andrew C. Birkeland, Jonathan B. McHugh, Andrew G. Shuman, Andrew J. Rosko, Paul Swiecicki, Matthew E. Spector, J. Chad Brenner
Software Mentions: 3
Published: about 4 years ago

10.1371/journal.pgen.1008659

A putative silencer variant in a spontaneous canine model of retinitis pigmentosa
Cited by: 9
Author(s): Maria Kaukonen, Ileana B. Quintero, Abdul Kadir Mukarram, Marjo K. Hytönen, Saila Holopainen, Kaisa Wickström, Kaisa Kyöstilä, Meharji Arumilli, Sari Jalomäki, Carsten O. Daub, Juha Kere, Hannes Lohi
Software Mentions: 3
Published: over 4 years ago

10.3389/fimmu.2019.01062

Immune Correlates of Disease Progression in Linked HIV-1 Infection
Cited by: 12
Author(s): Michael Tuen, Jude Bimela, Andrew N. Banin, Shilei Ding, Gordon William Harkins, Svenja Weiß, Vincenza Itri, Allison R. Durham, Stephen F. Porcella, Sonal Soni, Luzia Mayr, Josephine Meli, Judith Torimiro, Marcel Tongo, Xiaohong Wang, Xiang‐Peng Kong, Arthur Nàdas, Daniel E. Kaufmann, Zabrina L. Brumme, Aubin Nanfack, Thomas C. Quinn, Susan Zolla‐Pazner, Andrew D. Redd, Andrés Finzi, Miroslaw K. Gorny, Phillipe N. Nyambi, Ralf Duerr
Software Mentions: 3
Published: over 5 years ago

10.1016/j.ebiom.2021.103332

Metabolomic profiling of pancreatic adenocarcinoma reveals key features driving clinical outcome and drug resistance
Cited by: 16
Author(s): Abdessamad El Kaoutari, Nicolás A. Fraunhoffer, Owen Hoare, Carlos Teyssedou, Philippe Soubeyran, Odile Gayet, Julie Roques, Gwen Lomberk, Raúl Urrutia, Nelson Dusetti, Juan Iovanna
Software Mentions: 3
Published: over 3 years ago

10.15252/embr.202050051

Autoimmunity gene <scp>IRGM</scp> suppresses <scp>cGAS</scp> ‐ <scp>STING</scp> and <scp>RIG</scp> ‐I‐ <scp>MAVS</scp> signaling to control interferon response
Cited by: 38
Author(s): Kautilya Kumar Jena, Subhash Mehto, Parej Nath, Nishant Ranjan Chauhan, Rinku Sahu, Kollori Dhar, Saroj Kumar Das, Srinivasa Prasad Kolapalli, Krushna Chandra Murmu, Ashish Jain, Sivaram Krishna, Bhabani Sankar Sahoo, Soma Chattopadhyay, Tor Erik Rusten, Punit Prasad, Santosh Chauhan
Software Mentions: 3
Published: over 4 years ago

10.1186/s40694-020-00103-2

Extracellular vesicles from the apoplastic fungal wheat pathogen Zymoseptoria tritici
Cited by: 30
Author(s): Erin Hill, Peter S. Solomon
Software Mentions: 3
Published: about 4 years ago

10.3390/ijms20174214

Mitochondrial Genomes of Two Thaparocleidus Species (Platyhelminthes: Monogenea) Reveal the First rRNA Gene Rearrangement among the Neodermata
Cited by: 7
Author(s): Dong Zhang, Hong Zou, Ivan Jakovlić, Shan Wu, Ming Li, Jin Zhang, Rong Chen, Wen X. Li, Gui T. Wang
Software Mentions: 3
Published: about 5 years ago

10.3389/fgene.2021.619056

Dynamic Transcriptome Sequencing of Bovine Alphaherpesvirus Type 1 and Host Cells Carried Out by a Multi-Technique Approach
Cited by: 5
Author(s): Dóra Tombácz, Norbert Moldován, Gábor Torma, Tibor Nagy, Ákos Hornyák, Zsolt Csabai, Gábor Gulyás, Miklós Boldogkői, Victoria A Jefferson, Zoltán Zádori, Florencia Meyer, Zsolt Boldogköi
Software Mentions: 3
Published: over 3 years ago

Projects: bioconductor: ComplexHeatmap

Papers Mentioning ComplexHeatmap 565