bioconductor: DESeq2 | Projects | Ecosyste.ms: Papers

10.3389/fgene.2019.01360

Transcriptional Profiling Reveals the Regulatory Role of CXCL8 in Promoting Colorectal Cancer
Cited by: 16
Author(s): Jie Li, Qin Liu, Xuan Huang, Yurui Cai, Song Li, Qianrong Xie, Fuchuan Liu, Xiaochun Chen, Peng Xu, Fanwei Zeng, Yanpeng Chu, Fanxin Zeng
Software Mentions: 1
Published: almost 7 years ago

10.3389/fgene.2020.00246

Identification of MicroRNAs and Their Targets That Respond to Powdery Mildew Infection in Cucumber by Small RNA and Degradome Sequencing
Cited by: 13
Author(s): Xuewen Xu, Cailian Zhong, Min Keng Tan, Ya Kun Song, Xiaohua Qi, Qiang Xu, Xuehao Chen
Software Mentions: 1
Published: over 6 years ago

10.1128/mBio.02774-19

The Staphylococcus aureus Transcriptome during Cystic Fibrosis Lung Infection
Cited by: 35
Author(s): Carolyn B. Ibberson, Marvin Whiteley
Software Mentions: 1
Published: almost 7 years ago

10.3389/fcell.2021.695545

TCF3 Regulates the Proliferation and Apoptosis of Human Spermatogonial Stem Cells by Targeting PODXL
Cited by: 7
Author(s): Dai Zhou, Jingyu Fan, Zhizhong Liu, Ruiling Tang, Xingming Wang, Hao Bo, Fang Zhu, Xueheng Zhao, Zeng-Hui Huang, Xing Liu, Ke Tao, Han Zhang, Hongchuan Nie, Huan Zhang, Wenbing Zhu, Zuping He, Liqing Fan
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.673765

Establishment of Repertoire of Placentome-Associated MicroRNAs and Their Appearance in Blood Plasma Could Identify Early Establishment of Pregnancy in Buffalo (Bubalus bubalis)
Cited by: 2
Author(s): Parul Sarwalia, Mustafa Raza, Apoorva Soni, Pratiksha Dubey, Rajeev Chandel, Rakesh Kumar, A. Kumaresan, Suneel Kumar Onteru, Ankit Pal, Kalpana Singh, Mir Asif Iquebal, Sarika Jaiswal, Dinesh Kumar, Tirtha Kumar Datta
Software Mentions: 1
Published: about 5 years ago

10.1128/mBio.02788-19

Diversity in Natural Transformation Frequencies and Regulation across Vibrio Species
Cited by: 25
Author(s): Chelsea A. Simpson, Ram Podicheti, Douglas B. Rusch, Ankur B. Dalia, Julia C. van Kessel
Software Mentions: 1
Published: almost 7 years ago

10.3389/fcell.2021.640856

Phenotypic Robustness of Epidermal Stem Cell Number in C. elegans Is Modulated by the Activity of the Conserved N-acetyltransferase nath-10/NAT10
Cited by: 7
Author(s): Mark Hintze, Dimitris Katsanos, Vahid Shahrezaei, Michalis Barkoulas
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2020.604026

Rbm24a Is Necessary for Hair Cell Development Through Regulating mRNA Stability in Zebrafish
Cited by: 10
Author(s): Yan Zhang, Yanfei Wang, Xuebo Yao, Changquan Wang, Fangyi Chen, Dong Liu, Ming Shao, Zhigang Xu
Software Mentions: 1
Published: almost 6 years ago

10.3389/fcell.2021.702462

Depletion of Demethylase KDM6 Enhances Early Neuroectoderm Commitment of Human PSCs
Cited by: 5
Author(s): Yajing Meng, Tianzhe Zhang, Ran Zheng, Song Ding, Jie Yang, Ran Liu, Yingan Jiang, Wei Jiang
Software Mentions: 1
Published: about 5 years ago

10.3389/fcell.2020.580367

YTHDF2 Regulates Maternal Transcriptome Degradation and Embryo Development in Goat
Cited by: 12
Author(s): Mingtian Deng, BaoBao Chen, Zifei Liu, Yu Cai, Yongjie Wan, Guomin Zhang, Yixuan Fan, Yanli Zhang
Software Mentions: 1
Published: about 6 years ago

10.1128/mBio.03193-19

Modulation of Symbiotic Compatibility by Rhizobial Zinc Starvation Machinery
Cited by: 10
Author(s): Pan Zhang, Biliang Zhang, Jian Jiao, Shi-Qi Dai, Wenxin Chen, Chang Fu Tian
Software Mentions: 1
Published: over 6 years ago

10.1186/s12951-021-01008-x

Mithramycin delivery systems to develop effective therapies in sarcomas
Cited by: 9
Author(s): Óscar Estupiñán, Enrique Niza, Iván Bravo, Verónica Rey, Juan Tornín, Borja Gallego, Pilar Clemente-Casares, Francisco Morís, Alberto Ocaña, Verónica Blanco-Lorenzo, Mar Rodríguez-Santamaría, Aitana Vallina-Álvarez, M. Victoria González, Aida Rodríguez, Daniel Hermida‐Merino, Carlos Alonso‐Moreno, René Rodrı́guez
Software Mentions: 1
Published: about 5 years ago

10.1128/mBio.03210-19

Multi-Omic Analyses Provide Links between Low-Dose Antibiotic Treatment and Induction of Secondary Metabolism in Burkholderia thailandensis
Cited by: 17
Author(s): Anran Li, Dainan Mao, Aya Yoshimura, Paul Rosen, Warham Lance Martin, Étienne Gallant, Martin Wühr, Mohammad R. Seyedsayamdost
Software Mentions: 1
Published: over 6 years ago

10.1128/mBio.02777-19

A Sustained Immune Response Supports Long-Term Antiviral Immune Priming in the Pacific Oyster, Crassostrea gigas
Cited by: 41
Author(s): M. Lafont, Agnès Vergnes, Jérémie Vidal-Dupiol, Julien de Lorgeril, Yannick Gueguen, Philippe Haffner, Bruno Petton, Cristian Chaparro, Célia Barrachina, D. Destoumieux-Garzón, Guillaume Mitta, Benjamin Gourbal, Caroline Montagnani
Software Mentions: 1
Published: over 6 years ago

10.1186/s12951-021-00908-2

The neuroprotective effect of pretreatment with carbon dots from Crinis Carbonisatus (carbonized human hair) against cerebral ischemia reperfusion injury
Cited by: 29
Author(s): Yue Zhang, Suna Wang, Fang Lü, Meiling Zhang, Hui Kong, Jinjun Cheng, Jian Luo, Yan Zhao, Huihua Qu
Software Mentions: 1
Published: about 5 years ago

10.3389/fcell.2021.644346

Bhlhe40/Sirt1 Axis-Regulated Mitophagy Is Implicated in All-Trans Retinoic Acid-Induced Spina Bifida Aperta
Cited by: 6
Author(s): Lu Zhao, Dan Liú, Wei Ma, Hui Gu, Xiaowei Wei, Wenting Luo, Zhengwei Yuan
Software Mentions: 1
Published: over 5 years ago

10.1186/s12885-018-4440-4

Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions
Cited by: 7
Author(s): Markus Schulze, Maria Hutterer, Anja Sabo, S Hoja, Julia Lorenz, Tanja Rothhammer-Hampl, Christel Herold‐Mende, Lucia Floßbach, Camelia Monoranu, Markus J. Riemenschneider
Software Mentions: 1
Published: over 8 years ago

10.1128/mBio.00816-20

Aspergillus fumigatus Transcription Factors Involved in the Caspofungin Paradoxical Effect
Cited by: 26
Author(s): Clara Valero, Ana Cristina Colabardini, Jéssica Chiaratto, Lakhansing Pardeshi, Patrícia Alves de Castro, Jaire Alves Ferreira Filho, Lilian Pereira Silva, Marina Campos Rocha, Iran Malavazi, Jonas Henrique Costa, Taícia Pacheco Fill, Mário H. Barros, Sarah Sze Wah Wong, Vishukumar Aimanianda, Koon Ho Wong, Gustavo H. Goldman
Software Mentions: 1
Published: over 6 years ago

10.3389/fcell.2021.724310

Transcriptome Analysis Reveals an Inhibitory Effect of Dihydrotestosterone-Treated 2D- and 3D-Cultured Dermal Papilla Cells on Hair Follicle Growth
Cited by: 6
Author(s): Yufan Zhang, Junfei Huang, Danlan Fu, Zhen Liu, Hailin Wang, Jin Wang, Qian Qu, Kaitao Li, Zhexiang Fan, Yong Miao
Software Mentions: 1
Published: about 5 years ago

10.3389/fcell.2020.585879

RAD-Deficient Human Cardiomyocytes Develop Hypertrophic Cardiomyopathy Phenotypes Due to Calcium Dysregulation
Cited by: 7
Author(s): Yanan Li, Yun Chang, Xiaolei Li, Xiaowei Li, Jian Gao, Yuanyuan Zhou, Fujian Wu, Rui Bai, Tao Dong, Shuhong Ma, Siyao Zhang, Wenjing Lü, Xiaoqiu Tan, Yongming Wang, Feng Lan
Software Mentions: 1
Published: about 6 years ago

10.1128/mBio.01900-20

The Ndr/LATS Kinase Cbk1 Regulates a Specific Subset of Ace2 Functions and Suppresses the Hypha-to-Yeast Transition in Candida albicans
Cited by: 9
Author(s): Rohan S Wakade, Laura C. Ristow, Mark Stamnes, Anuj Kumar, Damian J. Krysan
Software Mentions: 1
Published: about 6 years ago

10.3389/fcell.2021.709280

B Cell Subset Analysis and Gene Expression Characterization in Mid-Luteal Endometrium
Cited by: 5
Author(s): Mengni Shen, Tim Child, Monica Mittal, Geet Sarodey, Rehan Salim, Ingrid Granne, Jennifer H. Southcombe
Software Mentions: 1
Published: over 5 years ago

10.1186/s13293-020-00305-8

Transcriptional analysis of the multiple Sry genes and developmental program at the onset of testis differentiation in the rat
Cited by: 5
Author(s): Jeremy W. Prokop, Surya B. Chhetri, J. Edward Van Veen, Xuqi Chen, Adam Underwood, Katie Uhl, Melinda R. Dwinell, Aron M. Geurts, Stephanie M. Correa, Arthur P. Arnold
Software Mentions: 1
Published: over 6 years ago

10.1128/mBio.01624-20

HbtR, a Heterofunctional Homolog of the Virulence Regulator TcpP, Facilitates the Transition between Symbiotic and Planktonic Lifestyles in Vibrio fischeri
Cited by: 9
Author(s): Brittany D. Bennett, Tara Essock‐Burns, Edward G. Ruby
Software Mentions: 1
Published: about 6 years ago

10.1186/s11689-020-09317-2

Transcriptome analysis of neural progenitor cells derived from Lowe syndrome induced pluripotent stem cells: identification of candidate genes for the neurodevelopmental and eye manifestations
Cited by: 11
Author(s): He-Qun Liu, Jesse Barnes, Erika Pedrosa, Nathaniel S. Herman, Franklin Salas, Ping Wang, Deyou Zheng, Herbert M. Lachman
Software Mentions: 1
Published: over 6 years ago

10.1128/mBio.02458-20

Aspergillus fumigatus G-Protein Coupled Receptors GprM and GprJ Are Important for the Regulation of the Cell Wall Integrity Pathway, Secondary Metabolite Production, and Virulence
Cited by: 9
Author(s): Aílton Pereira da Costa Filho, Guilherme Thomaz Pereira Brancini, Patrícia Alves de Castro, Clara Valero, Jaire Alves Ferreira Filho, Lilian Pereira Silva, Marina Campos Rocha, Iran Malavazi, João Guilherme de Moraes Pontes, Taícia Pacheco Fill, Roberto Nascimento Silva, Fausto Almeida, Jacob L. Steenwyk, Antonis Rokas, Thaila Fernanda dos Reis, Laure Nicolas Annick Ries, Gustavo Henrique Goldman
Software Mentions: 1
Published: about 6 years ago

10.1128/mBio.01063-20

Histone Loaders CAF1 and HIRA Restrict Epstein-Barr Virus B-Cell Lytic Reactivation
Cited by: 16
Author(s): Yuchen Zhang, Chang Jiang, Stephen J. Trudeau, Yohei Narita, Bo Zhao, Mingxiang Teng, Rui Guo, Benjamin E. Gewurz
Software Mentions: 1
Published: about 6 years ago

10.3389/fcell.2021.691050

Hormone-Responsive BMP Signaling Expands Myoepithelial Cell Lineages and Prevents Alveolar Precocity in Mammary Gland
Cited by: 4
Author(s): Chunlei Shao, Pengbo Lou, Ruiqi Liu, Xueyun Bi, Guilin Li, Yang Xu, Xiaole Sheng, Jiuzhi Xu, Cong Lv, Zhengquan Yu
Software Mentions: 1
Published: over 5 years ago

10.1242/bio.030254

Re-evaluating functional landscape of the cardiovascular system during development
Cited by: 6
Author(s): Norio Takada, Madoka Omae, Fumihiko Sagawa, C. Neil, Satsuki Endo, Satoshi Kozawa, Thomas N. Sato
Software Mentions: 1
Published: almost 10 years ago

10.1128/mBio.02804-20

Role of Glutathione in Buffering Excess Intracellular Copper in Streptococcus pyogenes
Cited by: 34
Author(s): Louisa J Stewart, Cheryl-lynn Y. Ong, May M. Zhang, Stephan Brouwer, Liam McIntyre, Mark R. Davies, Mark J. Walker, Alastair G. McEwan, Kevin J. Waldron, Karrera Y. Djoko
Software Mentions: 1
Published: almost 6 years ago

10.1242/bio.046474

Combinatorial genetic replenishments in myocardial and outflow tract tissues restore heart function in tnnt2 mutant zebrafish
Cited by: 5
Author(s): Lian Liu, Fei Fei, Ranran Zhang, Fang Wu, Qian Yang, Feng Wang, Song Sun, Hui Zhao, Qiang Li, Lei Wang, Youhua Wang, Yonghao Gui, Xu Wang
Software Mentions: 1
Published: almost 8 years ago

10.1128/mBio.03079-20

Biogeography of the Relationship between the Child Gut Microbiome and Innate Immune System
Cited by: 7
Author(s): Nelly Amenyogbe, Pedro A. Dimitriu, Kinga K. Smolen, Eric Brown, Casey P. Shannon, Scott J. Tebbutt, Phillip J. Cooper, Arnaud Marchant, Tessa Goetghebuer, Monika Esser, B. Brett Finlay, Tobias R. Kollmann, William W. Mohn
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.641891

Integrated Characterization of lncRNA-Immune Interactions in Prostate Cancer
Cited by: 13
Author(s): Wei Hu, Yanru Wang, Zhixiao Fang, Wei He, Shengli Li
Software Mentions: 1
Published: over 5 years ago

10.1128/mBio.03160-20

TgIF2K-B Is an eIF2α Kinase in Toxoplasma gondii That Responds to Oxidative Stress and Optimizes Pathogenicity
Cited by: 19
Author(s): Leonardo Augusto, Jennifer Martynowicz, Parth H. Amin, Kenneth R Carlson, Ronald C. Wek, William J. Sullivan
Software Mentions: 1
Published: over 5 years ago

10.1128/mBio.03335-20

An Antibiotic-Impacted Microbiota Compromises the Development of Colonic Regulatory T Cells and Predisposes to Dysregulated Immune Responses
Cited by: 26
Author(s): Xiaozhou Zhang, Timothy C. Borbet, Angela Fallegger, Matthew F. Wipperman, Martin J. Blaser, Anne Müller
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.693742

Immature Follicular Origins and Disrupted Oocyte Growth Pathways Contribute to Decreased Gamete Quality During Reproductive Juvenescence in Mice
Cited by: 4
Author(s): Atsuko Kusuhara, Elnur Babayev, Luhan T. Zhou, Vijay Pratap Singh, Jennifer L. Gerton, Francesca E. Duncan
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.604232

SIN3A Regulates Porcine Early Embryonic Development by Modulating CCNB1 Expression
Cited by: 2
Author(s): Lei Luo, Yanna Dang, Yan Shi, Panpan Zhao, Yunhai Zhang, Kun Zhang
Software Mentions: 1
Published: over 5 years ago

10.1128/mBio.00023-21

Regulation of the Mitochondrion-Fatty Acid Axis for the Metabolic Reprogramming of Chlamydia trachomatis during Treatment with β-Lactam Antimicrobials
Cited by: 8
Author(s): Kensuke Shima, Inga Kaufhold, Thomas Eder, Nadja Käding, Nis Schmidt, Iretiolu Mayokun Ogunsulire, René Deenen, Karl Köhrer, Dirk Friedrich, Sophie E. Isay, Florian Grebien, Matthias Klinger, Barbara Richer, Ulrich L. Günther, George S. Deepe, Thomas Rattei, Jan Rupp
Software Mentions: 1
Published: over 5 years ago

10.1128/mBio.00661-21

Functional Characterization of the m 6 A-Dependent Translational Modulator PfYTH.2 in the Human Malaria Parasite
Cited by: 9
Author(s): Ameya Sinha, Sebastian Baumgarten, Amy Jodine Distiller, Emma McHugh, Patty Chen, Meetali Singh, Jessica M. Bryant, Jiaqi Liang, Germano Cecere, Peter C. Dedon, Peter R. Preiser, Stuart A. Ralph, Artur Scherf
Software Mentions: 1
Published: over 5 years ago

10.1128/mBio.03419-20

Chitosan and Chitin Deacetylase Activity Are Necessary for Development and Virulence of Ustilago maydis
Cited by: 25
Author(s): Yanina Soledad Rizzi, Petra Happel, Sandra Lenz, Mounashree J. Urs, Martin Bonin, Stefan Cord‐Landwehr, Ratna Singh, Bruno M. Moerschbacher, Regine Kahmann
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.653724

SPTBN1 Prevents Primary Osteoporosis by Modulating Osteoblasts Proliferation and Differentiation and Blood Vessels Formation in Bone
Cited by: 8
Author(s): Xuejuan Xu, Jiayi Yang, Yanshi Ye, Guoqiang Chen, Yinhua Zhang, Hangtian Wu, Yu-Qian Song, Meichen Feng, Xiaoting Feng, Xingying Chen, Xiao Wang, Xu Lin, Xiaochun Bai, Jie Shen
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2020.601521

THBS1/CD47 Modulates the Interaction of γ-Catenin With E-Cadherin and Participates in Epithelial–Mesenchymal Transformation in Lipid Nephrotoxicity
Cited by: 6
Author(s): Li Gao, Tingting Yang, Junsheng Zhang, Hongxia Liu, Dong-Cheng Cai, Lintao Wang, Jing Wang, Xinwei Li, Kun Gao, Su-Ya Zhang, Yujia Cao, Xiaoxia Ji, Miaomiao Yang, Biao Han, Sheng Wang, Lu He, Xin Nie, Danmei Liu, Gang Ma, Chaoyong He
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2020.613540

CircRNAs Dysregulated in Juvenile Myelomonocytic Leukemia: CircMCTP1 Stands Out
Cited by: 10
Author(s): Anna Dal Molin, Mattias Hofmans, Enrico Gaffo, Alessia Buratin, Hélène Cavé, Christian Flotho, Valérie de Haas, Charlotte M. Niemeyer, Jan Starý, Pieter Van Vlierberghe, Jan Philippé, Barbara De Moerloose, G. te Kronnie, Silvia Bresolin, Tim Lammens, Stefania Bortoluzzi
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12974-015-0431-4

Minocycline counter-regulates pro-inflammatory microglia responses in the retina and protects from degeneration
Cited by: 112
Author(s): Rebecca Scholz, Markus Sobotka, Albert Caramoy, Thomas Stempfl, Christoph Moehle, Thomas Langmann
Software Mentions: 1
Published: almost 11 years ago

10.3389/fcell.2020.618796

Modeling Uremic Vasculopathy With Induced Pluripotent Stem Cell-Derived Endothelial Cells as a Drug Screening System
Cited by: 3
Author(s): Hye Ryoun Jang, Hyung Joon Cho, Yang Zhou, Ning‐Yi Shao, Kyung-Ho Lee, Hoai Huong Thi Le, Junseok Jeon, Jung Eun Lee, Wooseong Huh, Sang-Ging Ong, Won Hee Lee, Yoon-Goo Kim
Software Mentions: 1
Published: almost 6 years ago

10.3389/fcell.2020.565355

LncRNA AC010789.1 Promotes Colorectal Cancer Progression by Targeting MicroRNA-432-3p/ZEB1 Axis and the Wnt/β-Catenin Signaling Pathway
Cited by: 15
Author(s): Weili Duan, Xue Kong, Juan Li, Peilong Li, Yinghui Zhao, Tong Liu, Helen Binang, Yunshan Wang, Du Li, Chuanxin Wang
Software Mentions: 1
Published: about 6 years ago

10.3390/nu13082609

The Role of Reduced Methionine in Mediating the Metabolic Responses to Protein Restriction Using Different Sources of Protein
Cited by: 6
Author(s): Fei Han, Kirsten P. Stone, Sujoy Ghosh, Laura A. Forney, Thomas W. Gettys
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2020.00173

Inhibition of Gamma-Secretase Promotes Axon Regeneration After a Complete Spinal Cord Injury
Cited by: 13
Author(s): Daniel Sobrido‐Cameán, Diego Robledo, Daniel Romaus-Sanjurjo, Vanessa Pérez-Cedrón, Laura Sánchez, Marı́a Celina Rodicio, Antón Barreiro‐Iglesias
Software Mentions: 1
Published: over 6 years ago

10.3389/fcell.2020.00669

Further Evidence That MicroRNAs Can Play a Role in Hemophilia A Disease Manifestation: F8 Gene Downregulation by miR-19b-3p and miR-186-5p
Cited by: 6
Author(s): Katarzyna I. Jankowska, Joseph R. McGill, Behnaz Pezeshkpoor, Johannes Oldenburg, Zuben E. Sauna, Chintamani D. Atreya
Software Mentions: 1
Published: over 6 years ago

10.3389/fcell.2021.634056

Genomic and Transcriptomic Analyses Reveals ZNF124 as a Critical Regulator in Highly Aggressive Medulloblastomas
Cited by: 8
Author(s): Zaili Luo, Xinran Dong, Jianzhong Yu, Yong Xia, Kalen Berry, Rohit Rao, Lei Xu, Ping Xue, Tong Chen, Yifeng Lin, Jiyang Yu, Guoying Huang, Hao Li, Wenhao Zhou, Qi Lu
Software Mentions: 1
Published: over 5 years ago

10.1128/mBio.00799-21

Molecular Features of the Measles Virus Viral Fusion Complex That Favor Infection and Spread in the Brain
Cited by: 20
Author(s): Cyrille Mathieu, Francesca T. Bovier, Marion Ferren, Nicole A P Lieberman, Camilla Predella, Alexandre Lalande, Vikas Peddu, Michelle J. Lin, Amin Addetia, Amar Patel, Victor K. Outlaw, Barbara Corneo, N. Valerio Dorrello, Thomas Briese, Diana Hardie, Branka Horvat, Anne Moscona, Alexander L. Greninger, Matteo Porotto
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.605875

Mdfi Promotes C2C12 Cell Differentiation and Positively Modulates Fast-to-Slow-Twitch Muscle Fiber Transformation
Cited by: 14
Author(s): Bo Huang, Yiren Jiao, Yifan Zhu, Zuocheng Ning, Zijian Ye, Qing X. Li, Chen Hu, Chong Wang
Software Mentions: 1
Published: almost 6 years ago

10.1128/mBio.01620-21

Homeobox Transcription Factors Are Required for Fungal Development and the Suppression of Host Defense Mechanisms in the Colletotrichum scovillei -Pepper Pathosystem
Cited by: 11
Author(s): Teng Fu, Jiye Han, Jung Won Shin, Hyeunjeong Song, Jae–Ho Ko, Yong‐Hwan Lee, Ki-Tae Kim, Kyoung Su Kim
Software Mentions: 1
Published: about 5 years ago

10.3389/fcell.2021.695311

Distinct and Coordinated Regulation of Small Non-coding RNAs by E2f1 and p53 During Drosophila Development and in Response to DNA Damage
Cited by: 3
Author(s): Dong Liu, Ying Ge, Ze Zhao, Rui Zhu, Xiang Wang, Xiaolin Bi
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2020.613497

Crosstalk Between Retinoic Acid and Sex-Related Genes Controls Germ Cell Fate and Gametogenesis in Medaka
Cited by: 2
Author(s): Mateus Contar Adolfi, Amaury Herpin, Anabel Martinez-Bengochea, Susanne Kneitz, Martina Regensburger, David J. Grunwald, Manfred Schartl
Software Mentions: 1
Published: almost 6 years ago

10.3390/nu12103221

A High Protein Calorie Restriction Diet Alters the Gut Microbiome in Obesity
Cited by: 32
Author(s): Tien S. Dong, Kayti Luu, Venu Lagishetty, Farzaneh Sedighian, Sung Oh Woo, Benjamin W. Dreskin, William Katzka, Candace Chang, Yi Zhou, Nerea Arias-Jayo, Julianne C. Yang, Aaron I. Ahdoot, Zhaoping Li, Joseph R. Pisegna, Jonathan P. Jacobs
Software Mentions: 1
Published: about 6 years ago

10.1128/mSphere.00342-16

New Insights into Autoinducer-2 Signaling as a Virulence Regulator in a Mouse Model of Pneumonic Plague
Cited by: 11
Author(s): Eric C. Fitts, Jourdan A. Andersson, Michelle L. Kirtley, Jian Sha, Tatiana E. Erova, Sanjay Chauhan, Vladimir L. Motin, Ashok K. Chopra
Software Mentions: 1
Published: almost 10 years ago

10.1128/mSphere.00297-16

Gut Microbiome of the Canadian Arctic Inuit
Cited by: 36
Author(s): Catherine Girard, Nicolas Tromas, Marc Amyot, B. Jesse Shapiro
Software Mentions: 1
Published: over 9 years ago

10.3389/fcell.2021.668408

Transcriptome Analyses Reveal IL6/Stat3 Signaling Involvement in Radial Glia Proliferation After Stab Wound Injury in the Adult Zebrafish Optic Tectum
Cited by: 6
Author(s): Yuki Shimizu, Mariko Kiyooka, Toshio Ohshima
Software Mentions: 1
Published: over 5 years ago

10.1128/mSphere.00082-17

Sulfide Homeostasis and Nitroxyl Intersect via Formation of Reactive Sulfur Species in Staphylococcus aureus
Cited by: 61
Author(s): Hui Peng, Jianzhao Shen, Katherine A. Edmonds, Justin L. Luebke, Anne K. Hickey, Lauren D. Palmer, Feng-Ming James Chang, Kevin A. Bruce, Thomas E. Kehl-Fie, Eric P. Skaar, David P. Giedroc
Software Mentions: 1
Published: over 9 years ago

10.1128/mSphere.00206-17

A Three-Dimensional Cell Culture System To Model RNA Virus Infections at the Blood-Brain Barrier
Cited by: 33
Author(s): John Bramley, Coyne Drummond, Nicholas J. Lennemann, Charles A. Good, Kwang Sik Kim, Carolyn B. Coyne
Software Mentions: 1
Published: over 9 years ago

10.1242/bio.049684

Neuronal upregulation of Prospero protein is driven by alternative mRNA polyadenylation and Syncrip-mediated mRNA stabilisation
Cited by: 13
Author(s): Tamsin J Samuels, Yoav Arava, Aino I Järvelin, Francesca Robertson, Young Seok Lee, Yang Lu, Ching-Po Yang, Tzumin Lee, David Ish‐Horowicz, Ilan Davis
Software Mentions: 1
Published: almost 7 years ago

10.3389/fcell.2021.623738

TULP2, a New RNA-Binding Protein, Is Required for Mouse Spermatid Differentiation and Male Fertility
Cited by: 10
Author(s): Meimei Zheng, Chen Xu, Yiqiang Cui, Wen Li, Haiqian Dai, Qiuling Yue, Hao Zhang, Zheng Ying, Xuejiang Guo, Hui Zhu
Software Mentions: 1
Published: over 5 years ago

10.1128/mSphere.00462-17

Lanthanide-Dependent Regulation of Methylotrophy in Methylobacterium aquaticum Strain 22A
Cited by: 46
Author(s): Sachiko Masuda, Yutaka Suzuki, Yoshiko Fujitani, Ryoji Mitsui, Tomoyuki Nakagawa, Masaki Shintani, Akio Tani
Software Mentions: 1
Published: over 8 years ago

10.1128/mSphere.00050-18

An LaeA- and BrlA-Dependent Cellular Network Governs Tissue-Specific Secondary Metabolism in the Human Pathogen Aspergillus fumigatus
Cited by: 44
Author(s): Abigail Lind, Fang Yun Lim, Alexandra A. Soukup, Nancy P. Keller, Antonis Rokas
Software Mentions: 1
Published: over 8 years ago

10.3389/fcell.2021.695007

Aberrant Expression of Circulating MicroRNA Leads to the Dysregulation of Alpha-Synuclein and Other Pathogenic Genes in Parkinson’s Disease
Cited by: 15
Author(s): Meng Cai, Songshan Chai, Tao Xiong, Jun Wei, Weibing Mao, Yasha Zhu, Xiang Li, Wei Wei, Xuan Dai, Bangkun Yang, Wen Li, Bing Shu, Mengyang Wang, Taojunjin Lu, Yuankun Cai, Zhixin Zheng, Zhimin Mei, Yixuan Zhou, Jingyi Yang, J. W. Zhao, Lei Shen, Joshua W. K. Ho, Jincao Chen, Nanxiang Xiong
Software Mentions: 1
Published: about 5 years ago

10.1155/2020/1634270

High Throughput Approaches to Unravel the Mechanism of Action of a New Vanadium-Based Compound against Trypanosoma cruzi
Cited by: 13
Author(s): M. Florencia Mosquillo, Pablo Smircich, Analı́a Lima, Sérgio Alexandre Gehrke, Gonzalo Scalese, Ignacio Machado, Dinorah Gambino, Beatríz Garat, Leticia Pérez-Díaz
Software Mentions: 1
Published: over 6 years ago

10.1128/mSphere.00125-18

Iron Acquisition and Siderophore Release by Carbapenem-Resistant Sequence Type 258 Klebsiella pneumoniae
Cited by: 23
Author(s): Victoria Holden, Meredith S. Wright, Sébastien Houle, Abigail Collingwood, Charles M. Dozois, Mark D. Adams, Michael A. Bachman
Software Mentions: 1
Published: over 8 years ago

10.1128/mSphere.00334-18

Transcriptome Assembly and Profiling of Candida auris Reveals Novel Insights into Biofilm-Mediated Resistance
Cited by: 136
Author(s): Ryan Kean, Christopher Delaney, Leighann Sherry, Andrew M. Borman, Elizabeth Johnson, Malcolm Richardson, Riina Rautemaa‐Richardson, Craig Williams, Gordon Ramage
Software Mentions: 1
Published: about 8 years ago

10.3389/fcell.2020.571677

Epidermal Growth Factor Is Essential for the Maintenance of Novel Prostate Epithelial Cells Isolated From Patient-Derived Organoids
Cited by: 12
Author(s): Katia Cheaito, Hisham F. Bahmad, Hiba A. Jalloul, Ola Hadadeh, Hiba Msheik, Albert El Hajj, Deborah Mukherji, Mohamed Al-Sayegh, Wassim Abou-Kheir
Software Mentions: 1
Published: about 6 years ago

10.3389/fcell.2021.672406

Stepwise Induction of Inner Ear Hair Cells From Mouse Embryonic Fibroblasts via Mesenchymal- to-Epithelial Transition and Formation of Otic Epithelial Cells
Cited by: 2
Author(s): Qiong Yang, Haibo Shi, Yizhou Quan, Qianqian Chen, Wang Li, Li Wang, Yonghui Wang, Zhongzhong Ji, Shankai Yin, Huiming Xu, Wei‐Qiang Gao
Software Mentions: 1
Published: over 5 years ago

10.1186/s12974-019-1672-4

Unique molecular signature in mucolipidosis type IV microglia
Cited by: 15
Author(s): Antony Cougnoux, Rebecca A. Drummond, Mason Fellmeth, Fatemeh Navid, Amanda L. Collar, James R. Iben, Ashok B. Kulkarni, James Pickel, Raphael Schiffmann, Christopher A. Wassif, Niamh X. Cawley, Michail S. Lionakis, Forbes D. Porter
Software Mentions: 1
Published: almost 7 years ago

10.1093/bioinformatics/bty998

TriPOINT: a software tool to prioritize important genes in pathways and their non-coding regulators
Cited by: 0
Author(s): Asa Thibodeau, Dong-Guk Shin
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12885-017-3233-5

Aberrant expression of ALK and EZH2 in Merkel cell carcinoma
Cited by: 20
Author(s): Tuukka Veija, Virve Koljonen, Tom Böhling, Mia Kero, Sakari Knuutila, Virinder Sarhadi
Software Mentions: 1
Published: over 9 years ago

10.1128/mSphere.00610-19

Kinesin-5 Is Dispensable for Bipolar Spindle Formation and Elongation in Candida albicans, but Simultaneous Loss of Kinesin-14 Activity Is Lethal
Cited by: 2
Author(s): Irsa Shoukat, Corey Frazer, John S. Allingham
Software Mentions: 1
Published: almost 7 years ago

10.1093/bioinformatics/bty553

An ontology-based method for assessing batch effect adjustment approaches in heterogeneous datasets
Cited by: 10
Author(s): Florian Schmidt, Markus List, Engin Cukuroglu, Sebastian Köhler, Jonathan Göke, Marcel H. Schulz
Software Mentions: 1
Published: about 8 years ago

10.1128/mSphere.00785-19

Regulatory Mechanism of the Atypical AP-1-Like Transcription Factor Yap1 in Cryptococcus neoformans
Cited by: 6
Author(s): Yee Seul So, Shinae Maeng, Dong Hoon Yang, Hyelim Kim, Kyung Tae Lee, Seong Ryong Yu, Jennifer L. Tenor, Vinay K. Giri, Dena L. Toffaletti, Samantha D. M. Arras, James A. Fraser, John R. Perfect, Yong-Sun Bahn
Software Mentions: 1
Published: almost 7 years ago

10.3390/nu13093116

Dietary Supplementation with Transgenic Camelina sativa Oil Containing 20:5n-3 and 22:6n-3 or Fish Oil Induces Differential Changes in the Transcriptome of CD3+ T Lymphocytes
Cited by: 1
Author(s): Annette L. West, Elizabeth A. Miles, Lihua Han, Karen A. Lillycrop, Johnathan A. Napier, Philip C. Calder, Graham C. Burdge
Software Mentions: 1
Published: about 5 years ago

10.3389/fcell.2021.720858

A Model of Waardenburg Syndrome Using Patient-Derived iPSCs With a SOX10 Mutation Displays Compromised Maturation and Function of the Neural Crest That Involves Inner Ear Development
Cited by: 8
Author(s): Jie Wen, Jian Song, Yijiang Bai, Yalan Liu, Xinzhang Cai, Lingyun Mei, Lu Ma, Chufeng He, Yong Feng
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.619538

Conditional Loss of BAF (mSWI/SNF) Scaffolding Subunits Affects Specification and Proliferation of Oligodendrocyte Precursors in Developing Mouse Forebrain
Cited by: 5
Author(s): Eman Abbas, Mohamed A. Hassan, Godwin Sokpor, Kamila A. Kiszka, Linh Pham, Cemil Kerimoğlu, André Fischer, Huu Phuc Nguyen, Jochen F. Staiger, Tran Tuoc
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2021.661122

LECT 2 Antagonizes FOXM1 Signaling via Inhibiting MET to Retard PDAC Progression
Cited by: 2
Author(s): Xin Li, Pingping Lin, Ye Tao, Xin Jiang, Ting Li, Yunshan Wang, Chenjing Wang, Yu Cao
Software Mentions: 1
Published: over 5 years ago

10.3390/nu12123701

Understanding the Heterogeneity of Obesity and the Relationship to the Brain-Gut Axis
Cited by: 6
Author(s): Tony Hung, Tien S. Dong, Zixi Chen, David Elashoff, Janet S. Sinsheimer, Jonathan P. Jacobs, Venu Lagishetty, Priten Vora, Jean Stains, Emeran A. Mayer, Abha R. Gupta
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.bioflm.2019.100002

Interkingdom interactions on the denture surface: Implications for oral hygiene
Cited by: 13
Author(s): Christopher Delaney, Lindsay E. O’Donnell, Ryan Kean, Leighann Sherry, Jason L. Brown, Gareth Calvert, Christopher J. Nile, Laura J. Cross, David J. Bradshaw, Bernd W. Brandt, Douglas Robertson, Gordon Ramage
Software Mentions: 1
Published: almost 7 years ago

10.3389/fcell.2020.563607

Cytomegalovirus Generates Assembly Compartment in the Early Phase of Infection by Perturbation of Host-Cell Factors Recruitment at the Early Endosome/Endosomal Recycling Compartment/Trans-Golgi Interface
Cited by: 12
Author(s): Pero Lučin, Natalia Jug Vučko, Ljerka Karleuša, Hana Mahmutefendić Lučin, Gordana Blagojević Zagorac, Berislav Lisnić, Valentino Pavišić, Marina Marcelić, Kristina Grabušić, Ilija Brizić, Silvija Lukanović Jurić
Software Mentions: 1
Published: about 6 years ago

10.3390/jpm11090923

αβ-T Cells Engineered to Express γδ-T Cell Receptors Can Kill Neuroblastoma Organoids Independent of MHC-I Expression
Cited by: 4
Author(s): Josephine G M Strijker, Ronja Pscheid, Esther Drent, Jessica J. F. van der Hoek, Bianca Koopmans, Kimberley Ober, Sander R. van Hooff, Waleed M. Kholosy, Annelisa M. Cornel, Chris Coomans, Andrea Bisso, Marleen M. van Loenen, Jan J. Molenaar, Judith Wienke
Software Mentions: 1
Published: about 5 years ago

10.3389/fcell.2021.622539

Human Wharton’s Jelly Mesenchymal Stromal Cell-Derived Small Extracellular Vesicles Drive Oligodendroglial Maturation by Restraining MAPK/ERK and Notch Signaling Pathways
Cited by: 10
Author(s): Marianne Joerger-Messerli, Gierin Florence Thomi, Valérie Haesler, Irene Keller, Patricia Renz, Daniel Surbek, Andreina Schoeberlein
Software Mentions: 1
Published: over 5 years ago

10.1128/mSphere.00591-20

ClbR Is the Key Transcriptional Activator of Colibactin Gene Expression in Escherichia coli
Cited by: 15
Author(s): Alexander Wallenstein, Nadine Rehm, Marina Brinkmann, Martina Selle, Nadège Bossuet-Greif, Daniel Sauer, Boyke Bunk, Cathrin Spröer, Haleluya Wami, Stefan Homburg, Rudolf von Bünau, Simone König, Jean-Philippe Nougayrède, Jörg Overmann, Éric Oswald, Rolf Müller, Ulrich Dobrindt
Software Mentions: 1
Published: about 6 years ago

10.3389/fcell.2020.609090

Blockade of Macrophage CD147 Protects Against Foam Cell Formation in Atherosclerosis
Cited by: 3
Author(s): Jianjun Lv, Hao Wang, Hong‐Yong Cui, Ze-Kun Liu, Renyu Zhang, Ling Meng, Can Li, Yu‐Le Yong, Man Liu, Hai Zhang, Tianjiao Zhang, Kun Zhang, Gang Li, Gang Nan, Cong Zhang, Shuangping Guo, Ling Wang, Zhi‐Nan Chen, Huijie Bian
Software Mentions: 1
Published: almost 6 years ago

10.7554/eLife.62585

Proteomic and transcriptomic profiling reveal different aspects of aging in the kidney
Cited by: 52
Author(s): Yuka Takemon, Joel M. Chick, Isabela Gerdes Gyuricza, Daniel A. Skelly, Olivier Devuyst, Steven P. Gygi, Gary A. Churchill, Ron Korstanje
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2020.567610

Impact of Sustained Transforming Growth Factor-β Receptor Inhibition on Chromatin Accessibility and Gene Expression in Cultured Human Endometrial MSC
Cited by: 15
Author(s): Raffaella Lucciola, Pavle Vrljicak, Shanti Gurung, Caitlin E. Filby, Saeedeh Darzi, Joanne Muter, Sascha Ott, Jan J. Brosens, Caroline E. Gargett
Software Mentions: 1
Published: about 6 years ago

10.3389/fcell.2021.685261

Transcriptome Profiling of Mouse Corpus Callosum After Cerebral Hypoperfusion
Cited by: 3
Author(s): Hajime Takase, Gen Hamanaka, Ryo Ohtomo, Hidehiro Ishikawa, Kelly K. Chung, Emiri T. Mandeville, Josephine Lok, Myriam Fornage, Karl Herrup, Kai Hei Tse, Eng H. Lo, Ken Arai
Software Mentions: 1
Published: over 5 years ago

10.3390/jpm11090827

PTGDR2 Expression in Peripheral Blood as a Potential Biomarker in Adult Patients with Asthma
Cited by: 5
Author(s): Asunción Garcı́a-Sánchez, Miguel Estravís, Marı́a Jesús Martı́n, Jacqueline Pérez‐Pazos, Cristina Martín‐García, María Gil-Melcón, Jacinto Ramos‐González, Ibon Eguíluz-Gracia, Juan Carlos Triviño, María Isidoro‐García, Ignacio Dávila, Catalina Sanz
Software Mentions: 1
Published: about 5 years ago

10.3389/fcell.2021.654397

The Scleraxis Transcription Factor Directly Regulates Multiple Distinct Molecular and Cellular Processes During Early Tendon Cell Differentiation
Cited by: 11
Author(s): Han Liu, Jingyue Xu, Yu Lan, Hee‐Woong Lim, Rulang Jiang
Software Mentions: 1
Published: over 5 years ago

10.3389/fcell.2020.621578

Identification of Key Histone Modifications and Their Regulatory Regions on Gene Expression Level Changes in Chronic Myelogenous Leukemia
Cited by: 6
Author(s): Lu-Qiang Zhang, Guoliang Fan, Jun-Jie Liu, Li Liu, Qian‐Zhong Li, Hao Lin
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.bbadis.2018.03.021

SURF1 knockout cloned pigs: Early onset of a severe lethal phenotype
Cited by: 22
Author(s): Corinne Quadalti, Dario Brunetti, Irina Lagutina, Roberto Duchi, Andrea Perota, Giovanna Lazzari, Raffaele Cerutti, Ivano Di Meo, Mark A. Johnson, Emanuela Bottani, Paola Crociara, Cristiano Corona, Silvia Grifoni, Valeria Tiranti, Erika Fernández-Vizarra, Alan J. Robinson, Carlo Viscomi, Cristina Casalone, Massimo Zeviani, Cesare Galli
Software Mentions: 1
Published: over 8 years ago

10.3389/fcvm.2021.639361

Pro-inflammatory Monocyte Phenotype During Acute Progression of Cerebral Small Vessel Disease
Cited by: 6
Author(s): Marlies P. Noz, Annemieke ter Telgte, Kim Wiegertjes, Anil M. Tuladhar, Charlotte Kaffa, Simone Kersten, Siroon Bekkering, Charlotte D C C van der Heijden, Alexander Hoischen, Leo A. B. Joosten, Mihai G. Netea, Marco Duering, Frank–Erik de Leeuw, Niels P. Riksen
Software Mentions: 1
Published: over 5 years ago

10.1016/j.bbrep.2021.101038

Analysis of differentially expressed genes responsible for the suppressive effect of anisomycin on cell proliferation of DLD-1 cells
Cited by: 3
Author(s): Hironori Ushijima, Rina Monzaki, Mika Funakoshi
Software Mentions: 1
Published: about 5 years ago

10.3389/fcvm.2021.737826

microRNA-377 Signaling Modulates Anticancer Drug-Induced Cardiotoxicity in Mice
Cited by: 4
Author(s): John Henderson, Praveen Dubey, Mallikarjun Patil, Sarojini Singh, Shubham Dubey, Rajasekaran Namakkal Soorappan, Ramaswamy Kannappan, Palaniappan Sethu, Gangjian Qin, Jianyi Zhang, Prasanna Krishnamurthy
Software Mentions: 1
Published: over 5 years ago

10.1186/s12885-021-07905-6

EML4-ALK induces cellular senescence in mortal normal human cells and promotes anchorage-independent growth in hTERT-transduced normal human cells
Cited by: 3
Author(s): Akihiko Miyanaga, Masaru Matsumoto, Jessica Beck, Izumi Horikawa, Takahiro Oike, Hirokazu Okayama, Hiromi Tanaka, Sandra Burkett, Ana I. Robles, Mohammed A. Khan, Delphine Lissa, Masahiro Seike, Akihiko Gemma, Hiroyuki Mano, Curtis C. Harris
Software Mentions: 1
Published: over 5 years ago

10.3389/fcvm.2021.664044

Uncovering Potential lncRNAs and mRNAs in the Progression From Acute Myocardial Infarction to Myocardial Fibrosis to Heart Failure
Cited by: 9
Author(s): Shuo Wang, Enmao Wang, Qincong Chen, Yan Yang, Lei Xu, Xiaolei Zhang, Rubing Wu, Xitian Hu, Zhihong Wu
Software Mentions: 1
Published: over 5 years ago

Projects: bioconductor: DESeq2

Enhanced Analysis

Science Score: 100/100

Bonuses:

Papers Mentioning DESeq2 9,583