10.3390/jcm10010126

Fenofibrate Reduces the Severity of Neuroretinopathy in a Type 2 Model of Diabetes without Inducing Peroxisome Proliferator-Activated Receptor Alpha-Dependent Retinal Gene Expression
Cited by: 11
Author(s): Jennifer M. Enright, Sheng Zhang, Christina Thebeau, Emily Siebert, Alexander Jin, Veda Gadiraju, Xiaodong Zhang, Shiming Chen, Clay F. Semenkovich, Rithwick Rajagopal
Software Mentions: 2
Published: over 5 years ago

10.3390/genes9030123

Delimiting Coalescence Genes (C-Genes) in Phylogenomic Data Sets
Cited by: 29
Author(s): Mark S. Springer, John Gatesy
Software Mentions: 2
Published: over 8 years ago

10.3390/genes9030142

Integration of lncRNA and mRNA Transcriptome Analyses Reveals Genes and Pathways Potentially Involved in Calf Intestinal Growth and Development during the Early Weeks of Life
Cited by: 22
Author(s): Eveline M. Ibeagha‐Awemu, Duy Ngoc, Pier-Luc Dudemaine, Bridget E. Fomenky, Nathalie Bissonnette
Software Mentions: 2
Published: over 8 years ago

10.1523/ENEURO.0171-21.2021

Glycogen Synthase Kinase 3 Regulates the Genesis of Displaced Retinal Ganglion Cells3
Cited by: 5
Author(s): Elena Kisseleff, Robin Vigouroux, Catherine Hottin, Sophie Lourdel, Leah Thomas, Palak Shah, Alain Chédotal, Muriel Perron, Anand Swaroop, Jérôme E. Roger
Software Mentions: 2
Published: almost 5 years ago

10.1186/s13000-020-01031-w

Clinicopathological findings of pediatric NTRK fusion mesenchymal tumors
Cited by: 22
Author(s): Jeongwan Kang, Jin Woo Park, Jae Kyung Won, Jeong Mo Bae, Jaemoon Koh, Jeemin Yim, Hongseok Yun, Seung Ki Kim, Jung Yoon Choi, Hyoung Jin Kang, Woo Sun Kim, Joo Heon Shin, Shin Young Park
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0223212

Regulatory interaction between the ZPBP2-ORMDL3/Zpbp2-Ormdl3 region and the circadian clock
Cited by: 3
Author(s): Matthew L. Chang, Sanny Moussette, Enrique Gamero-Estévez, José Héctor Gálvez, Victoria Chiwara, Indra R. Gupta, Aimee K. Ryan, Anna K. Naumova
Software Mentions: 2
Published: almost 7 years ago

10.3390/genes10010054

Genomes of Three Closely Related Caribbean Amazons Provide Insight for Species History and Conservation
Cited by: 8
Author(s): Sofia M. Kolchanova, Sergei Kliver, Aleksei S. Komissarov, Pavel Dobrinin, Gaik Tamazian, Kirill Grigorev, Walter Wolfsberger, Audrey J. Majeske, Jafet Vélez-Valentín, Ricardo Valentín de la Rosa, Joanne R Paul-Murphy, David Sánchez-Migallón Guzmán, Michael H. Court, Juan L. Rodríguez-Flores, Juan Carlos Martínez‐Cruzado, Tarás K. Oleksyk
Software Mentions: 2
Published: over 7 years ago

10.7554/eLife.28620

Cooperative interactions enable singular olfactory receptor expression in mouse olfactory neurons
Cited by: 83
Author(s): Kevin D. Monahan, Ira Schieren, Jonah Cheung, Alice Mumbey-Wafula, Edwin S. Monuki, Stavros Lomvardas
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-019-41803-z

Single-cell assessment of transcriptome alterations induced by Scriptaid in early differentiated human haematopoietic progenitors during ex vivo expansion
Cited by: 10
Author(s): Peng Hua, Barbara Kronsteiner, Mark van der Garde, Neil Ashley, Diana Hernandez, Marina Tarunina, Lilian Hook, Yen Choo, Irene Roberts, Adam J. Mead, Suzanne M. Watt
Software Mentions: 2
Published: over 7 years ago

10.3390/genes10030196

Cohesin-Mediated Genome Architecture Does Not Define DNA Replication Timing Domains
Cited by: 17
Author(s): Phoebe Oldach, Conrad A. Nieduszynski
Software Mentions: 2
Published: over 7 years ago

10.3390/genes10060406

Transcriptome Changes of Skeletal Muscle RNA-Seq Speculates the Mechanism of Postprandial Hyperglycemia in Diabetic Goto-Kakizaki Rats During the Early Stage of T2D
Cited by: 7
Author(s): Wenlu Zhang, Yuhuan Meng, Shuang Fu, Xingsong Li, Zixi Chen, Lizhen Huang, Hongli Du
Software Mentions: 2
Published: about 7 years ago

10.3390/nu11092016

Gene Expression and Cardiometabolic Phenotypes of Vitamin D-Deficient Overweight and Obese Black Children
Cited by: 1
Author(s): Kumaravel Rajakumar, Qi Yan, Arshad T Khalid, Eleanor Feingold, Abbe N. Vallejo, Fuat Demirci, M. Ilyas Kamboh
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-019-42162-5

Silencing an insulin-induced lncRNA, LncASIR, impairs the transcriptional response to insulin signalling in adipocytes
Cited by: 16
Author(s): Ufuk Degirmenci, Jia Li, Yen Ching Lim, Diana Teh Chee Siang, Shibo Lin, Hui Liang, Li Sun
Software Mentions: 2
Published: over 7 years ago

10.3390/nu11112584

Combined Omics Reveals That Disruption of the Selenocysteine Lyase Gene Affects Amino Acid Pathways in Mice
Cited by: 6
Author(s): Lucia A. Seale, Vedbar S. Khadka, Mark Menor, Guoxiang Xie, Lígia Moriguchi Watanabe, Alexandru R. Sasuclark, Kyrillos Guirguis, Herena Y. Ha, Ann C. Hashimoto, Karolina Peplowska, Maarit Tiirikainen, Jia Wang, Marla J. Berry, Youping Deng
Software Mentions: 2
Published: over 6 years ago

10.3390/ph14030214

Evaluation of the Interactions between Human Serum Albumin (HSA) and Non-Steroidal Anti-Inflammatory (NSAIDs) Drugs by Multiwavelength Molecular Fluorescence, Structural and Computational Analysis
Cited by: 16
Author(s): Susana Amézqueta, José Luís Beltrán, Anna Maria Bolioli, Lluís Campos-Vicens, F. Javier Luque, Clara Ràfols
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-42019-x

Inheritance patterns of the transcriptome in hybrid chickens and their parents revealed by expression analysis
Cited by: 9
Author(s): Hongchang Gu, Xin Qi, Yaxiong Jia, Zebin Zhang, Changsheng Nie, Xinghua Li, Junying Li, Zhihua Jiang, Qiong Wang, Lujiang Qu
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-42568-1

A molecular biomarker for prediction of clinical outcome in children with ASD, constipation, and intestinal inflammation
Cited by: 10
Author(s): Stephen J. Walker, Carl D. Langefeld, Kip D. Zimmerman, Marshall Z. Schwartz, Arthur Krigsman
Software Mentions: 2
Published: over 7 years ago

10.1007/s00125-021-05517-0

ZBED6 counteracts high-fat diet-induced glucose intolerance by maintaining beta cell area and reducing excess mitochondrial activation
Cited by: 11
Author(s): Xuan Wang, Shady Younis, Jing Cen, Yun Wang, Camilla Krizhanovskii, Leif Andersson, Nils Welsh
Software Mentions: 2
Published: almost 5 years ago

10.3390/genes11010103

The velvet Regulator VosA Governs Survival and Secondary Metabolism of Sexual Spores in Aspergillus nidulans
Cited by: 13
Author(s): Min-Ju Kim, Mi-Kyung Lee, Huy Quang Pham, Myeong Ju Gu, Bohan Zhu, Sung-Hun Son, Dongyup Hahn, Jae‐Ho Shin, Jae‐Hyuk Yu, Hee-Soo Park, Kap-Hoon Han
Software Mentions: 2
Published: over 6 years ago

10.3390/ph14070598

Cell Death and Transcriptional Responses Induced in Larvae of the Nematode Haemonchus contortus by Toxins/Toxicants with Broad Phylogenetic Efficacy
Cited by: 1
Author(s): Douglas P. Jasmer, Bruce A. Rosa, Makedonka Mitreva
Software Mentions: 2
Published: about 5 years ago

10.3390/jcm10143061

Altered Electrical, Biomolecular, and Immunologic Phenotypes in a Novel Patient-Derived Stem Cell Model of Desmoglein-2 Mutant ARVC
Cited by: 16
Author(s): Robert N. Hawthorne, Adriana Blazeski, Justin Lowenthal, Suraj Kannan, Roald Teuben, Deborah DiSilvestre, Justin Morrissette‐McAlmon, Jeffrey E. Saffitz, Kenneth R. Boheler, Cynthia A. James, Stephen P. Chelko, Gordon F. Tomaselli, Leslie Tung
Software Mentions: 2
Published: about 5 years ago

10.3390/genes11020117

Inguinal Ring RNA Sequencing Reveals Downregulation of Muscular Genes Related to Scrotal Hernia in Pigs
Cited by: 6
Author(s): Gabriela Romano, A. M. G. Ibelli, William Raphael Lorenzetti, Tomás Weber, J. de O. Peixoto, Maurício Egídio Cantão, M. A. Z. Morés, N. Morés, Victor Breno Pedrosa, Luiz Lehmann Coutinho, Mônica Corrêa Ledur
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-42578-z

Single cell RNA-sequencing identified Dec2 as a suppressive factor for spermatogonial differentiation by inhibiting Sohlh1 expression
Cited by: 6
Author(s): Yoshinori Makino, Niels H. Jensen, Naoko Yokota, Moritz J. Rossner, Haruhiko Akiyama, Katsuhiko Shirahige, Yuki Okada
Software Mentions: 2
Published: about 7 years ago

10.3390/jcm10184095

Biological Mechanism(s) Underpinning the Association between Antipsychotic Drugs and Weight Gain
Cited by: 8
Author(s): Bruna Panizzutti, Chiara C. Bortolasci, Briana Spolding, Srisaiyini Kidnapillai, Timothy Connor, Mark F. Richardson, Trang T. T. Truong, Zoe Liu, Laura J. Gray, Jee Hyun Kim, Olivia Dean, Michael Berk, Ken Walder
Software Mentions: 2
Published: almost 5 years ago

10.1007/s00125-017-4277-4

A core outcome set for studies evaluating the effectiveness of prepregnancy care for women with pregestational diabetes
Cited by: 37
Author(s): Aoife M. Egan, Sander Galjaard, Michael Maresh, Mary R. Loeken, Angela Napoli, Eleni Anastasiou, Eoin Noctor, Harold W. de Valk, Mireille van Poppel, Marie Todd, Valerie Smith, Declan Devane, Fidelma Dunne
Software Mentions: 2
Published: over 9 years ago

10.3390/genes11040353

Genome-Wide Identification, Classification, and Expression Profiling Reveals R2R3-MYB Transcription Factors Related to Monoterpenoid Biosynthesis in Osmanthus fragrans
Cited by: 18
Author(s): Haiyan Li, Yuanzheng Yue, Wenjie Ding, Gongwei Chen, Ling Li, Yuli Li, Tingting Shi, Xia Yang
Software Mentions: 2
Published: over 6 years ago

10.1007/s00125-017-4467-0

HbA1c is associated with altered expression in blood of cell cycle- and immune response-related genes
Cited by: 9
Author(s): Roderick C. Slieker, Amber A. W. A. van der Heijden, Nienke van Leeuwen, Hailiang Mei, Giel Nijpels, Joline W.J. Beulens, Leen M. ‘t Hart
Software Mentions: 2
Published: over 8 years ago

10.3390/genes11050549

Single-Cell RNA Sequencing of Hematopoietic Stem and Progenitor Cells Treated with Gemcitabine and Carboplatin
Cited by: 2
Author(s): Niclas Björn, Ingrid Jakobsen Falk, Kourosh Lotfi, Henrik Gréen
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-019-42731-8

Abiotic and biotic stresses induce a core transcriptome response in rice
Cited by: 112
Author(s): Stephen P. Cohen, Jan E. Leach
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-019-43269-5

Identification and functional prediction of cold-related long non-coding RNA (lncRNA) in grapevine
Cited by: 40
Author(s): Pengfei Wang, Lingmin Dai, Jun Ai, Yongmei Wang, Fengshan Ren
Software Mentions: 2
Published: about 7 years ago

10.1242/dev.166215

Neural differentiation, selection and transcriptomic profiling of human neuromesodermal progenitors-like cells in vitro
Cited by: 47
Author(s): Laure Verrier, L. S. P. Davidson, Marek Gierliński, Alwyn Dady, Kate G. Storey
Software Mentions: 2
Published: over 8 years ago

10.3390/genes11070784

Differential Alternative Splicing Genes and Isoform Regulation Networks of Rapeseed (Brassica napus L.) Infected with Sclerotinia sclerotiorum
Cited by: 9
Author(s): Jinqi Ma, Wen Xu, Fei Xu, Lin Ai, Wei Sun, Huanhuan Jiang, Kun Lu, Jiana Li, Lijuan Wei
Software Mentions: 2
Published: about 6 years ago

10.1186/s40781-018-0177-5

Examination of the xanthosine response on gene expression of mammary epithelial cells using RNA-seq technology
Cited by: 3
Author(s): Shanti Choudhary, Wenli Li, Derek M. Bickhart, Ramneek Verma, R. S. Sethi, Chandra Sekhar Mukhopadhyay, Ratan K. Choudhary
Software Mentions: 2
Published: about 8 years ago

10.1089/cmb.2016.0147

Accurate Recovery of Ribosome Positions Reveals Slow Translation of Wobble-Pairing Codons in Yeast
Cited by: 21
Author(s): Hao Wang, C. Joel McManus, Carl Kingsford
Software Mentions: 2
Published: about 9 years ago

10.1038/s41598-019-43426-w

Human gut derived-organoids provide model to study gluten response and effects of microbiota-derived molecules in celiac disease
Cited by: 67
Author(s): Rachel Freire, Laura Ingano, Gloria Serena, Murat Çetinbaş, Anthony Anselmo, Anna Sapone, Ruslan I. Sadreyev, Alessio Fasano, Stefania Senger
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0199740

Potential involvement of neutrophils in human thyroid cancer
Cited by: 45
Author(s): Maria Rosaria Galdiero, Gilda Varricchi, Stefania Loffredo, Claudio Bellevicine, Tiziana Lansione, Anne Lise Ferrara, Raffaella Iannone, Sarah Di Somma, Francesco Borriello, Eduardo Clery, Maria Triassi, Giancarlo Troncone, Gianni Marone
Software Mentions: 2
Published: about 8 years ago

10.3390/nu12102952

Co-Administration of Propionate or Protocatechuic Acid Does Not Affect DHA-Specific Transcriptional Effects on Lipid Metabolism in Cultured Hepatic Cells
Cited by: 2
Author(s): Francesca Danesi, Bjørk Ditlev Larsen, Mattia Di Nunzio, Ronni Nielsen, Dario de Biase, Veronica Valli, Susanne Mandrup, Alessandra Bordoni
Software Mentions: 2
Published: almost 6 years ago

10.7554/eLife.56883

KDM5A mutations identified in autism spectrum disorder using forward genetics
Cited by: 23
Author(s): Lauretta El Hayek, İslam Oğuz Tuncay, Nadine Nijem, Jamie L. Russell, Sara Ludwig, Kiran Kaur, Xiaohong Li, Priscilla Anderton, Miao Tang, Amanda Gerard, Anja Heinze, Pia Zacher, Hessa S. Alsaif, Abolfazl Rad, Kazem Hassanpour, Mohammad Reza Abbaszadegan, Camerun Washington, Barbara R. DuPont, Raymond J. Louie, Causes Study, Madeline Couse, Maha Faden, R. Curtis Rogers, Rami Abou Jamra, Ellen Roy Elias, Reza Maroofian, Henry Houlden, Anna Lehman, Bruce Beutler, Maria H. Chahrour
Software Mentions: 2
Published: over 5 years ago

10.1016/j.dib.2021.107436

Dataset on the influence of zinc foliar application and vermicompost on agromorphogenic traits of Aloe vera
Cited by: 1
Author(s): Md. Marufur Rahman, Mufid Alam, Md. Musfikus Salehin, Golam Sagir Ahammad, Rownoke Jannat Janny, Nusrat Jahan, Md. Maksudul Haque
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0207255

MMP-9 inhibition promotes anti-tumor immunity through disruption of biochemical and physical barriers to T-cell trafficking to tumors
Cited by: 54
Author(s): Vladi Juric, Chris O’Sullivan, Erin Stefanutti, М. А. Коваленко, Andrew E. Greenstein, Vivian Barry-Hamilton, Igor Mikaelian, Jeremiah D. Degenhardt, Yue Peng, Victoria Smith, Amanda Mikels‐Vigdal
Software Mentions: 2
Published: over 7 years ago

10.3390/jdb8040034

Mud Loss Restricts Yki-Dependent Hyperplasia in Drosophila Epithelia
Cited by: 2
Author(s): Amalia S. Parra, Christopher A. Johnston
Software Mentions: 2
Published: over 5 years ago

10.1007/s13353-020-00603-2

European context of the diversity and phylogenetic position of SARS-CoV-2 sequences from Polish COVID-19 patients
Cited by: 15
Author(s): Szymon Hryhorowicz, Adam Ustaszewski, Marta Kaczmarek-Ryś, Emilia Lis, Michał Witt, Andrzej Pławski, Ewa Ziętkiewicz
Software Mentions: 2
Published: over 5 years ago

10.1242/jeb.226233

High temperature induces transcriptomic changes in <i>Crassostrea gigas</i> that hinders progress of Ostreid herpesvirus (OsHV-1) and promotes survival
Cited by: 18
Author(s): Lizenn Delisle, Marianna Pauletto, Jérémie Vidal-Dupiol, Bruno Petton, Luca Bargelloni, Caroline Montagnani, Fabrice Pernet, Charlotte Corporeau, Elodie Fleury
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0144014

Newly Constructed Network Models of Different WNT Signaling Cascades Applied to Breast Cancer Expression Data
Cited by: 17
Author(s): Michaela Bayerlová, Florian Klemm, Frank Krämer, Tobias Pukrop, Tim Beißbarth, Annalen Bleckmann
Software Mentions: 2
Published: over 10 years ago

10.3390/genes12010067

Multi-Omics Approach Reveals miR-SNPs Affecting Muscle Fatty Acids Profile in Nelore Cattle
Cited by: 10
Author(s): Tainã Figueiredo Cardoso, Luiz Lehmann Coutinho, Jennifer Jessica Bruscadin, Wellison J. S. Diniz, Juliana Petrini, Bruno de Bezerril Andrade, P. S. N. Oliveira, Mirele Daiana Poleti, Juliano Coelho da Silveira, Marcos Roberto Chiaratti, Adhemar Zerlotini Neto, Gerson Barreto Mourão, L. C. de A. Regitano
Software Mentions: 2
Published: over 5 years ago

10.12688/wellcomeopenres.15044.1

RNA-seq analysis of PHD and VHL inhibitors reveals differences and similarities to the hypoxia response.
Cited by: 10
Author(s): Julianty Frost, Alessio Ciulli, Sónia Rocha
Software Mentions: 2
Published: over 7 years ago

10.3390/cancers12051220

Identification of Distinct Heterogenic Subtypes and Molecular Signatures Associated with African Ancestry in Triple Negative Breast Cancer Using Quantified Genetic Ancestry Models in Admixed Race Populations
Cited by: 16
Author(s): Melissa B. Davis, Rachel Martini, Lisa A. Newman, Olivier Elemento, Jason White, Akanksha Verma, Indrani Datta, Indra Adrianto, Yalei Chen, Kevin Gardner, Hyung‐Gyoon Kim, Windy D. Colomb, Isam-Eldin Eltoum, Andra R. Frost, William E. Grizzle, Andrea Sboner, Upender Manne, Clayton Yates
Software Mentions: 2
Published: about 6 years ago

10.1016/j.jaut.2017.03.004

B cells expressing the IgA receptor FcRL4 participate in the autoimmune response in patients with rheumatoid arthritis
Cited by: 49
Author(s): Khaled Amara, Elizabeth Clay, Lorraine Yeo, Daniel Ramsköld, Julia Spengler, Natalie Sippl, J. A. Cameron, Lena Israelsson, Philip J. Titcombe, Caroline Grönwall, Ilfita Sahbudin, Andrew Filer, Karim Raza, Vivianne Malmström, Dagmar Scheel‐Toellner
Software Mentions: 2
Published: about 9 years ago

10.1093/jxb/eraa064

Successful field performance in warm and dry environments of soybean expressing the sunflower transcription factor HB4
Cited by: 31
Author(s): Karina Fabiana Ribichich, Mariana Chiozza, Selva Ávalos-Britez, Julieta Virginia Cabello, Agustín Lucas Arce, Gerónimo Watson, Carlos Arias, Margarita Portapila, Federico Trucco, Marı́a Elena Otegui, Raquel L. Chan
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-45973-8

Chronic disturbance in the thalamus following cranial irradiation to the developing mouse brain
Cited by: 1
Author(s): Martina Boström, Yohanna Eriksson, Jolie Danial, Thomas Björk‐Eriksson, Marie Kalm
Software Mentions: 2
Published: about 7 years ago

10.1128/JB.00780-18

Refining the Pneumococcal Competence Regulon by RNA Sequencing
Cited by: 33
Author(s): Jelle Slager, Rieza Aprianto, Jan‐Willem Veening
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-019-46656-0

REV-ERBα and REV-ERBβ function as key factors regulating Mammalian Circadian Output
Cited by: 57
Author(s): Ryosuke Ikeda, Yoshiki Tsuchiya, Nobuya Koike, Yasuhiro Umemura, Hitoshi Inokawa, Ryutaro Ono, Maho Inoue, Yuh Sasawaki, Tess Grieten, Naoki Okubo, Kazuya Ikoma, Hiroyoshi Fujiwara, Toshikazu Kubo, Kazuhiro Yagita
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-019-46462-8

HLA class II-Restricted CD8+ T cells in HIV-1 Virus Controllers
Cited by: 5
Author(s): Tinashe Nyanhete, Alyse Frisbee, Todd Bradley, William J. Faison, Elizabeth Robins, Tamika L. Payne, Stephanie A. Freel, Sheetal Sawant, Kent J. Weinhold, Kevin Wiehe, Barton F. Haynes, Guido Ferrari, Qi-Jing Li, M. Anthony Moody, Georgia D. Tomaras
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0232994

GeneTEFlow: A Nextflow-based pipeline for analysing gene and transposable elements expression from RNA-Seq data
Cited by: 1
Author(s): Xiaochuan Liu, Jadwiga Bienkowska, Wenyan Zhong
Software Mentions: 2
Published: almost 6 years ago

10.1074/jbc.RA118.006271

Leukodystrophy-associated POLR3A mutations down-regulate the RNA polymerase III transcript and important regulatory RNA BC200
Cited by: 36
Author(s): Karine Choquet, Diane Forget, Elisabeth Meloche, Marie‐Josée Dicaire, Geneviève Bernard, Adeline Vanderver, Raphael Schiffmann, Marc R. Fabian, Martin Teichmann, Benoit Coulombe, Bernard Brais, Claudia L. Kleinman
Software Mentions: 2
Published: about 7 years ago

10.1093/jxb/eraa469

A new genome allows the identification of genes associated with natural variation in aluminium tolerance in <i>Brachiaria</i> grasses
Cited by: 18
Author(s): Margaret Worthington, Juan Guillermo Pérez, Saule Mussurova, Alexander Silva-Cordoba, Valheria Castiblanco, Juan Andrés Cardoso Arango, Cerys Jones, Narcís Fernández-Fuentes, Leif Skøt, Sarah Dyer, Joe Tohmé, Federica Di Palma, Jacobo Arango, Ian Armstead, Jose J De Vega
Software Mentions: 2
Published: over 5 years ago

10.3390/v13071303

Defense-Related Gene Expression Following an Orthotospovirus Infection Is Influenced by Host Resistance in Arachis hypogaea
Cited by: 4
Author(s): Michael A. Catto, Anita Shrestha, Mark Abney, Donald E. Champagne, A. K. Culbreath, Soraya C. M. Leal‐Bertioli, Brendan G. Hunt, Rajagopalbabu Srinivasan
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0216120

Copy number variants in kiwifruit ETHYLENE RESPONSE FACTOR/APETALA2 (ERF/AP2)-like genes show divergence in fruit ripening associated cold and ethylene responses in C-REPEAT/DRE BINDING FACTOR-like genes
Cited by: 16
Author(s): Kularajathevan Gunaseelan, Peter A. McAtee, Simona Nardozza, P. Pidakala, Ruiling Wang, Karine David, J. Burdon, Robert J. Schaffer
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0228484

Molecular analysis of lymphoid tissue from rhesus macaque rhadinovirus-infected monkeys identifies alterations in host genes associated with oncogenesis
Cited by: 2
Author(s): Ryan D. Estep, Aparna Govindan, Minsha Manoharan, He Li, Suzanne S. Fei, Byung Park, Michael K. Axthelm, Scott W. Wong
Software Mentions: 2
Published: over 6 years ago

10.1093/jxb/erab065

Golgi-localized membrane protein AtTMN1/EMP12 functions in the deposition of rhamnogalacturonan II and I for cell growth in Arabidopsis
Cited by: 6
Author(s): Akihiko Hiroguchi, Shingo Sakamoto, Nobutaka Mitsuda, Kyoko Miwa
Software Mentions: 2
Published: over 5 years ago

10.1074/jbc.RA120.013206

An aberrantly sustained emergency granulopoiesis response accelerates postchemotherapy relapse in MLL1-rearranged acute myeloid leukemia in mice
Cited by: 2
Author(s): Hao Wang, Chirag Shah, Liping Hu, Weiqi Huang, Leonidas C. Platanias, Elizabeth A. Eklund
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-019-47659-7

Colorectal cancer cells respond differentially to autophagy inhibition in vivo
Cited by: 42
Author(s): Annie Lauzier, Josiann Normandeau-Guimond, Vanessa Vaillancourt-Lavigueur, Vincent Boivin, Martine Charbonneau, Nathalie Rivard, Michelle S. Scott, Claire M. Dubois, Steve Jean
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-019-46916-z

Constraints to counting bioluminescence producing cells by a commonly used transgene promoter and its implications for experimental design
Cited by: 5
Author(s): Eman Mosaad, Kathryn Futrega, Inge Seim, Brian Gloss, Karen Chambers, Judith A. Clements, Michael Doran
Software Mentions: 2
Published: almost 7 years ago

10.3390/v13060976

Activation of the STAT3 Signaling Pathway by the RNA-Dependent RNA Polymerase Protein of Arenavirus
Cited by: 1
Author(s): Qingxing Wang, Qilin Xin, Weijuan Shang, Weiwei Wan, Gengfu Xiao, Leike Zhang
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.58641

Optogenetic investigation of BMP target gene expression diversity
Cited by: 29
Author(s): Katherine W. Rogers, Mohammad ElGamacy, Benjamin M Jordan, Patrick Müller
Software Mentions: 2
Published: over 5 years ago

10.1242/dev.161372

Retinoic acid induced expression of Hnf1β and Fzd4 is required for pancreas development in <i>Xenopus laevis</i>
Cited by: 11
Author(s): Maja B. Gere-Becker, Claudia Pommerenke, Thomas Lingner, Tomas Pieler
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.34423

The transcriptomic and epigenetic map of vascular quiescence in the continuous lung endothelium
Cited by: 39
Author(s): Katharina Schlereth, Dieter Weichenhan, Tobias Bauer, Tina Heumann, Evangelia Giannakouri, Daniel B. Lipka, Samira Jaeger, Matthias Schlesner, Patrick Aloy, Roland Eils, Christoph Plass, Hellmut G. Augustin
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.ppat.1004250

Infection with MERS-CoV Causes Lethal Pneumonia in the Common Marmoset
Cited by: 185
Author(s): Darryl Falzarano, Emmie de Wit, Friederike Feldmann, Angela L. Rasmussen, Atsushi Okumura, Xinxia Peng, Matthew Thomas, Neeltje van Doremalen, Elaine Haddock, Lee Nagy, Rachel LaCasse, Tingting Liu, Jiang Zhu, Jason S. McLellan, Dana Scott, Michael G. Katze, Heinz Feldmann, Vincent J. Munster
Software Mentions: 2
Published: almost 12 years ago

10.3390/nu11020407

Next-Generation Sequencing Identifies Polyunsaturated Fatty Acid Responsive Genes in the Juvenile Rat Cerebellum
Cited by: 1
Author(s): Aaron A. Mehus, Aaron M. Dickey, Timothy P. L. Smith, Kathleen M. Yeater, Matthew J. Picklo
Software Mentions: 2
Published: over 7 years ago

10.3390/cancers12092541

Combination Treatment with GSK126 and Pomalidomide Induces B-Cell Differentiation in EZH2 Gain-of-Function Mutant Diffuse Large B-Cell Lymphoma
Cited by: 5
Author(s): Sungryul Park, Seunghyun Jo, Jong-Hwan Kim, Seon‐Young Kim, Jae Du Ha, Jong Yeon Hwang, Myeong Youl Lee, Jong Soon Kang, Tae-Su Han, Sung Goo Park, Sunhong Kim, Byoung Chul Park, Jeong-Hoon Kim
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-49551-w

A multi-omics analysis of the grapevine pathogen Lasiodiplodia theobromae reveals that temperature affects the expression of virulence- and pathogenicity-related genes
Cited by: 44
Author(s): Carina Félix, Rodrigo Meneses, Micael F. M. Gonçalves, Laurentijn Tilleman, Ana Sofia Duarte, Jesús V. Jorrín Novo, Yves Van de Peer, Dieter Deforce, Filip Van Nieuwerburgh, Ana Cristina Esteves, Artur Alves
Software Mentions: 2
Published: almost 7 years ago

10.7554/eLife.26036

Dynamics of genomic innovation in the unicellular ancestry of animals
Cited by: 113
Author(s): Xavier Grau‐Bové, Guifré Torruella, Stuart P. Donachie, Hiroshi Suga, Guy Leonard, Thomas A. Richards, Iñaki Ruiz‐Trillo
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.ppat.1006046

Macrophage Colony Stimulating Factor Derived from CD4+ T Cells Contributes to Control of a Blood-Borne Infection
Cited by: 25
Author(s): Mary F. Fontana, Gabrielly Lunkes de Melo, Chioma Anidi, Rebecca Hamburger, Charles C. Kim, So Youn Lee, Jennifer Pham
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.ppat.1006397

Ebola virus glycoprotein directly triggers T lymphocyte death despite of the lack of infection
Cited by: 52
Author(s): Mathieu Iampietro, Patrick Younan, Andrew Nishida, Mukta Dutta, Ndongala Michel Lubaki, Rodrigo I. Santos, Richard A. Koup, Michael G. Katze, Alexander Bukreyev
Software Mentions: 2
Published: about 9 years ago

10.3390/cancers13184673

Integrative Transcriptome Profiling Reveals SKA3 as a Novel Prognostic Marker in Non-Muscle Invasive Bladder Cancer
Cited by: 4
Author(s): Chaelin You, Xuan‐Mei Piao, Keunsoo Kang, Yong‐June Kim, Ki‐Woon Kang
Software Mentions: 2
Published: almost 5 years ago

10.3390/genes12020189

Long-Term Waterlogging as Factor Contributing to Hypoxia Stress Tolerance Enhancement in Cucumber: Comparative Transcriptome Analysis of Waterlogging Sensitive and Tolerant Accessions
Cited by: 23
Author(s): Kinga Kęska, Michał Wojciech Szcześniak, Izabela Makałowska, Małgorzata Czernicka
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-88703-9

Combined VEGFR and MAPK pathway inhibition in angiosarcoma
Cited by: 13
Author(s): Michael J. Wagner, Yasmin Lyons, Jean H. Siedel, Robert Dood, Archana S. Nagaraja, Monika Haemmerle, Lingegowda S. Mangala, Pritha Chanana, Alexander J. Lazar, Wei Lien Wang, Vinod Ravi, Eric C. Holland, Anil K. Sood
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-89252-x

Effect of plane of nutrition in early life on the transcriptome of visceral adipose tissue in Angus heifer calves
Cited by: 8
Author(s): Kate Keogh, A. K. Kelly, David A. Kenny
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.ppat.1006806

A20 upregulation during treated HIV disease is associated with intestinal epithelial cell recovery and function
Cited by: 10
Author(s): Avantika S. Chitre, Michael G. Kattah, Yenny Y. Rosli, Montha Pao, Monika Deswal, Steven G. Deeks, Peter W. Hunt, Mohamed Abdel‐Mohsen, Luis J. Montaner, Charles C. Kim, Averil Ma, Ma Somsouk, Joseph M. McCune
Software Mentions: 2
Published: over 8 years ago

10.1523/ENEURO.0358-20.2020

Posttranslational Modification of Sox11 Regulates RGC Survival and Axon Regeneration
Cited by: 16
Author(s): Kun-Che Chang, Minjuan Bian, Xin Xia, Ankush Madaan, Catalina Sun, Qizhao Wang, Liang Li, Michael Nahmou, Takahiko Noro, Satoshi Yokota, Joana Galvão, Alexander Kreymerman, Bogdan Tanasă, Yang Hu, Jeffrey L. Goldberg
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.ppat.1007057

Plasmodium parasite exploits host aquaporin-3 during liver stage malaria infection
Cited by: 47
Author(s): Dora Posfai, Kayla Sylvester, Anupama Reddy, Jack G. Ganley, Johannes Wirth, Quinlan E. Cullen, Tushar Dave, Nobutaka Kato, Sandeep S. Davé, Emily R. Derbyshire
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-021-89052-3

Figla promotes secondary follicle growth in mature mice
Cited by: 5
Author(s): Asuka Okunomiya, Akihito Horie, Hirohiko Tani, Yukiyasu Sato, Shiro Takamatsu, J.B. Brown, Miki Sugimoto, Junzo Hamanishi, Eiji Kondoh, Noriomi Matsumura, Masaki Mandai
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-89630-5

Identification and Classification of Rare Variants in NPC1 and NPC2 in Quebec
Cited by: 2
Author(s): Lahoud Touma, Marjorie Labrecque, Martine Tétreault, Antoine Duquette
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-89921-x

Dual RNA-seq analysis of in vitro infection multiplicity and RNA depletion methods in Chlamydia-infected epithelial cells
Cited by: 5
Author(s): Regan J. Hayward, Michael S. Humphrys, Wilhelmina M. Huston, Garry S. A. Myers
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0197983

Gene expression to mitochondrial metabolism: Variability among cultured Trypanosoma cruzi strains
Cited by: 5
Author(s): Murat C. Kalem, Evgeny S. Gerasimov, Pamela K. Vu, Sara L. Zimmer
Software Mentions: 2
Published: about 8 years ago

10.1016/j.dib.2018.10.150

Spatial distribution of marker gene activity in the mouse lung during alveolarization
Cited by: 4
Author(s): M. Cecilia Ljungberg, Mayce Sadi, Yunguan Wang, Bruce J. Aronow, Yan Xu, Rong J. Kao, Ying Liu, Nathan Gaddis, Mary-Anne Ardini-Poleske, Tipparat Umrod, Namasivayam Ambalavanan, Teodora Nicola, Naftali Kaminski, Farida Ahangari, Ryan Sontag, Richard A. Corley, Charles Ansong, James P. Carson
Software Mentions: 2
Published: over 7 years ago

10.1074/jbc.RA120.015152

Genome editing demonstrates that the −5 kb Nanog enhancer regulates Nanog expression by modulating RNAPII initiation and/or recruitment
Cited by: 12
Author(s): Puja Agrawal, Steven Blinka, Kirthi Pulakanti, Michael Reimer, Cary Stelloh, Alison E. Meyer, Sridhar Rao
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0237773

Lack of a site-specific phosphorylation of Presenilin 1 disrupts microglial gene networks and progenitors during development
Cited by: 10
Author(s): José Henrique Ledo, Ran Zhang, Luka Mesin, Diego Mourão-Sá, Estefania P. Azevedo, Olga G. Troyanskaya, Victor Bustos, Paul Greengard
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0041317

Asian Dust Storm Elevates Children’s Respiratory Health Risks: A Spatiotemporal Analysis of Children’s Clinic Visits across Taipei (Taiwan)
Cited by: 43
Author(s): Hwa‐Lung Yu, Lung-Chang Chien, Chen-Cheng Yang
Software Mentions: 2
Published: almost 14 years ago

10.1371/journal.ppat.1007114

CAGE-seq analysis of Epstein-Barr virus lytic gene transcription: 3 kinetic classes from 2 mechanisms
Cited by: 33
Author(s): Reza Djavadian, Mitchell Hayes, Eric Johannsen
Software Mentions: 2
Published: about 8 years ago

10.7717/peerj.869

Low-cost, low-input RNA-seq protocols perform nearly as well as high-input protocols
Cited by: 24
Author(s): Peter A. Combs, Michael B. Eisen
Software Mentions: 2
Published: over 11 years ago

10.7554/eLife.62765

Phylogenomics of white-eyes, a ‘great speciator’, reveals Indonesian archipelago as the center of lineage diversity
Cited by: 13
Author(s): Chyi Yin Gwee, Kritika M. Garg, Balaji Chattopadhyay, Keren R. Sadanandan, Dewi M. Prawiradilaga, Martin Irestedt, Fumin Lei, Luke M. Bloch, Jessica G.H. Lee, Mohammad Irham, Tri Haryoko, Malcolm C. K. Soh, Kelvin S.‐H. Peh, Karen M. C. Rowe, Teuku Reza Ferasyi, Shaoyuan Wu, Guinevere O. U. Wogan, Rauri C. K. Bowie
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-90174-x

In vitro responses to platelet-rich-plasma are associated with variable clinical outcomes in patients with knee osteoarthritis
Cited by: 8
Author(s): Habib Zahir, Bijan Dehghani, Xianglin Yuan, Yurii Chinenov, Christine Kim, Alissa J. Burge, Reyna Bandhari, Daniel Nemirov, Patrick Fava, Peter J. Moley, Hollis G. Potter, Joseph Nguyen, Brian Halpern, Laura T. Donlin, Lionel B. Ivashkiv, Scott A. Rodeo, Miguel Otero
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.ppat.1007365

CD4 T cells control development and maintenance of brain-resident CD8 T cells during polyomavirus infection
Cited by: 26
Author(s): Taryn E Mockus, .. Shwetank, Matthew D Lauver, Heather M. Ren, Colleen S. Netherby, T. Salameh, Yuka Imamura, Feng Yun Yue, James R. Broach, Aron E. Lukacher
Software Mentions: 2
Published: over 7 years ago

10.1016/j.jbc.2021.100386

Two distinct trophectoderm lineage stem cells from human pluripotent stem cells
Cited by: 38
Author(s): Adam Mischler, Victoria Karakis, Jessica Mahinthakumar, Celeste K. Carberry, Adriana San-Miguel, Julia E. Rager, Rebecca C. Fry, Balaji M. Rao
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.ppat.1007734

Signal peptide peptidase activity connects the unfolded protein response to plant defense suppression by Ustilago maydis
Cited by: 18
Author(s): Niko Pinter, Christina A. Hach, Martin Hafner, Dmitrij Rekhter, Krzysztof Zienkiewicz, Ivo Feußner, Anja Poehlein, Rolf Daniel, Florian Finkernagel, Kai Heimel
Software Mentions: 2
Published: about 7 years ago

10.3390/cancers12030769

Accessing a New Dimension in TP53 Biology: Multiplex Long Amplicon Digital PCR to Specifically Detect and Quantitate Individual TP53 Transcripts
Cited by: 8
Author(s): Annette Lasham, Peter Tsai, Sandra Fitzgerald, Sunali Mehta, Nicholas Knowlton, Antony W. Braithwaite, Cristin G. Print
Software Mentions: 2
Published: over 6 years ago

10.3390/v12060610

Differential Effects of Human Adenovirus E1A Protein Isoforms on Aerobic Glycolysis in A549 Human Lung Epithelial Cells
Cited by: 12
Author(s): Martin Prusinkiewicz, Jessie Tu, Mackenzie J. Dodge, Katelyn M. MacNeil, Sandi Radko-Juettner, Gregory J. Fonseca, Peter Pelka, Joe S. Mymryk
Software Mentions: 2
Published: about 6 years ago

10.7554/eLife.54129

A single-parasite transcriptional atlas of Toxoplasma Gondii reveals novel control of antigen expression
Cited by: 43
Author(s): Yuan Xue, Terence C. Theisen, Suchita Rastogi, Abel Ferrel, Stephen R. Quake, John C. Boothroyd
Software Mentions: 2
Published: over 6 years ago

10.3390/ani10050849

Arginine Deiminase and Biotin Metabolism Signaling Pathways Play an Important Role in Human-Derived Serotype V, ST1 Streptococcus agalactiae Virulent Strain upon Infected Tilapia
Cited by: 1
Author(s): Yu Liu, Liping Li, Zhiping Luo, Rui Wang, Ting Huang, Weizheng Liang, Qunhong Gu, Fangzhao Yu, Ming Chen
Software Mentions: 2
Published: about 6 years ago