cran: STAR | Projects | Ecosyste.ms: Papers

10.3389/fgene.2019.00889

Best Foot Forward: Nanopore Long Reads, Hybrid Meta-Assembly, and Haplotig Purging Optimizes the First Genome Assembly for the Southern Hemisphere Blacklip Abalone (Haliotis rubra)
Cited by: 17
Author(s): Han Ming Gan, Mun Hua Tan, Christopher M. Austin, Craig D. H. Sherman, Yen Ting Wong, Jan M. Strugnell, Mark Gervis, Luke McPherson, Adam D. Miller
Software Mentions: 2
Published: about 5 years ago

10.3389/fgene.2020.562855

Whole Transcriptome Analysis Identifies the Taxonomic Status of a New Chinese Native Cattle Breed and Reveals Genes Related to Body Size
Cited by: 2
Author(s): Xiaodong Zheng, Jin Cheng, Wenjuan Qin, Nyamsuren Balsai, Xuan-Jian Shang, Mengting Zhang, Hongquan Chen
Software Mentions: 2
Published: about 4 years ago

10.3389/fgene.2021.683959

Camk2a-Cre and Tshz3 Expression in Mouse Striatal Cholinergic Interneurons: Implications for Autism Spectrum Disorder
Cited by: 3
Author(s): Xavier Caubit, Elise Arbeille, Dorian Chabbert, Florence Desprez, Imane Messak, Ahmed Fatmi, Bianca Habermann, Paolo Gubellini, Laurent Fasano
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2020.00474

Bulked Segregant RNA-Seq Reveals Distinct Expression Profiling in Chinese Wheat Cultivar Jimai 23 Responding to Powdery Mildew
Cited by: 10
Author(s): Tong Zhu, Liru Wu, Huagang He, Jiancheng Song, Mengshu Jia, Liancheng Liu, Xiaolu Wang, Ran Han, Liping Niu, Wei Du, Xu Zhang, Wenrui Wang, Liang Xiao, Haosheng Li, Jing Liu, Hongxing Xu, Cheng Liu, Pengtao Ma
Software Mentions: 2
Published: over 4 years ago

10.3389/fgene.2020.601003

The Effects of Gene Duplication Modes on the Evolution of Regulatory Divergence in Wild and Cultivated Soybean
Cited by: 8
Author(s): Na Zhao, Xiaoyang Ding, Taotao Lian, Meng Wang, Yan Tong, Di Liang, Qi An, Shutao Sun, Scott A. Jackson, Liu B, Chunming Xu
Software Mentions: 2
Published: almost 4 years ago

10.3389/fgene.2018.00647

Interpreting Non-coding Genetic Variation in Multiple Sclerosis Genome-Wide Associated Regions
Cited by: 21
Author(s): Elvezia Maria Paraboschi, Giulia Cardamone, Giulia Soldà, Stefano Duga, Rosanna Asselta
Software Mentions: 2
Published: almost 6 years ago

10.3389/fgene.2019.00586

Chromosome-Level Alpaca Reference Genome VicPac3.1 Improves Genomic Insight Into the Biology of New World Camelids
Cited by: 15
Author(s): Mark F. Richardson, Kylie Munyard, Larry Croft, Theo R. Allnutt, Felicity C. Jackling, Fahad Alshanbari, Matthew Jevit, Gus A. Wright, Rhys Cransberg, Ahmed Tibary, Polina L. Perelman, Belinda Appleton, Terje Raudsepp
Software Mentions: 2
Published: over 5 years ago

10.1128/mSystems.00833-20

Lost and Found: Re-searching and Re-scoring Proteomics Data Aids Genome Annotation and Improves Proteome Coverage
Cited by: 10
Author(s): Patrick J. Willems, Igor Fijałkowski, Petra Van Damme
Software Mentions: 2
Published: about 4 years ago

10.3389/fgene.2018.00683

Regulation of LINE-1 Elements by miR-128 Is Not Conserved in Mouse Embryonic Stem Cells
Cited by: 2
Author(s): Maxime Bodak, Jian Yu, Constance Ciaudo
Software Mentions: 2
Published: almost 6 years ago

10.3389/fgene.2019.00643

Depletion of Hemoglobin Transcripts and Long-Read Sequencing Improves the Transcriptome Annotation of the Polar Bear (Ursus maritimus)
Cited by: 20
Author(s): Ashley Byrne, Megan A. Supple, Roger Volden, Kristin L. Laidre, Beth Shapiro, Christopher Vollmers
Software Mentions: 2
Published: over 5 years ago

10.1016/j.cub.2020.12.041

Biomechanics of the human thumb and the evolution of dexterity
Cited by: 30
Author(s): Fotios Alexandros Karakostis, Daniel F. B. Haeufle, Ioanna Anastopoulou, Konstantinos Moraitis, Günter Hotz, Vangelis Tourloukis, Katerina Harvati
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2020.535622

The FpPPR1 Gene Encodes a Pentatricopeptide Repeat Protein That Is Essential for Asexual Development, Sporulation, and Pathogenesis in Fusarium pseudograminearum
Cited by: 2
Author(s): Limin Wang, Shunpei Xie, Yinshan Zhang, Ruijiao Kang, Mengjuan Zhang, Min Wang, Haiyang Li, Linlin Chen, Hongxia Yuan, Shengli Ding, Liang Shen, Honglian Li
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.cub.2017.12.041

Maternal Inheritance of a Single Somatic Animal Cell Displayed by the Bacteriocyte in the Whitefly Bemisia tabaci
Cited by: 52
Author(s): Jing Luan, Xuepeng Sun, Zhangjun Fei, Angela E. Douglas
Software Mentions: 2
Published: almost 7 years ago

10.3389/fgene.2020.552490

Plant miRNAs Reduce Cancer Cell Proliferation by Targeting MALAT1 and NEAT1: A Beneficial Cross-Kingdom Interaction
Cited by: 11
Author(s): Flaviana Marzano, Mariano Francesco Caratozzolo, Arianna Consiglio, Flavio Licciulli, Sabino Liuni, Elisabetta Sbisà, Domenica D’Elia, Apollonia Tullo, Domenico Catalano
Software Mentions: 2
Published: about 4 years ago

10.1186/s12935-020-01458-7

Napabucasin overcomes cisplatin resistance in ovarian germ cell tumor-derived cell line by inhibiting cancer stemness
Cited by: 15
Author(s): Silvia Schmidtova, Lambert C. J. Dorssers, Katarína Kalavska, Ad J. M. Gillis, J. Wolter Oosterhuis, Hans Stoop, Svetlana Miklikova, Zuzana Kozovská, Monika Buríková, Katarina Gercakova, Erika Durinikova, Michal Chovanec, Michal Mego, Lucia Kučerová, Leendert Looijenga
Software Mentions: 2
Published: over 4 years ago

10.1016/j.cub.2021.01.005

Hippocampal place cells encode global location but not connectivity in a complex space
Cited by: 26
Author(s): Éléonore Duvelle, Roddy M. Grieves, Anyi Liu, Selim Jedidi-Ayoub, Joanna Holeniewska, Adam Harris, Nils T. Nyberg, Francesco Rigoli, Julie Lefort, Kate J. Jeffery, Christopher Summerfield, Giovanni Pezzulo, Hugo J. Spiers
Software Mentions: 2
Published: over 3 years ago

10.1186/s12935-020-01337-1

Exploiting collateral sensitivity controls growth of mixed culture of sensitive and resistant cells and decreases selection for resistant cells in a cell line model
Cited by: 17
Author(s): Vince Grolmusz, Jinfeng Chen, Rena Emond, Patrick A. Cosgrove, Lance Pflieger, Aritro Nath, Philip J. Moos, Andrea Bild
Software Mentions: 2
Published: over 4 years ago

10.1016/j.cub.2017.12.044

Nanoscale Dynamism of Actin Enables Secretory Function in Cytolytic Cells
Cited by: 89
Author(s): Alexandre F. Carisey, Emily M. Mace, Mezida B. Saeed, Daniel M. Davis, Jordan S. Orange
Software Mentions: 2
Published: almost 7 years ago

10.3389/fgene.2018.00379

SUMO-Targeted Ubiquitin Ligases (STUbLs) Reduce the Toxicity and Abnormal Transcriptional Activity Associated With a Mutant, Aggregation-Prone Fragment of Huntingtin
Cited by: 7
Author(s): Kentaro Ohkuni, Nagesh Pasupala, Jennifer L Peek, Grace Lauren Holloway, Gloria D. Sclar, Reuben Levy-Myers, Richard E. Baker, Munira A. Basrai, Oliver Kerscher
Software Mentions: 2
Published: about 6 years ago

10.1186/s12935-020-1141-2

Depletion of histone methyltransferase KMT9 inhibits lung cancer cell proliferation by inducing non-apoptotic cell death
Cited by: 18
Author(s): Hannah Maria Baumert, Eric Metzger, Matthias Fahrner, Julie George, Roman K. Thomas, Oliver Schilling, Roland Schüle
Software Mentions: 2
Published: almost 5 years ago

10.3389/fgene.2019.00710

Transcriptome Analysis Reveals Differential Expression of Genes Regulating Hepatic Triglyceride Metabolism in Pekin Ducks During Dietary Threonine Deficiency
Cited by: 9
Author(s): Yong Jiang, Ming Xie, Wenlei Fan, Jiajia Xue, Zhengkui Zhou, Jing Tang, Chen Guo-hong, Shuisheng Hou
Software Mentions: 2
Published: over 5 years ago

10.1186/s12935-020-1145-y

Engrailed 2 (EN2) acts as a glioma suppressor by inhibiting tumor proliferation/invasion and enhancing sensitivity to temozolomide
Cited by: 6
Author(s): Tengfei Li, Wanchun Yang, Li Mao, Shuxin Zhang, Xingwang Zhou, Mingrong Zuo, Qiuyun Yuan, Mina Chen, Yan‐Hui Liu
Software Mentions: 2
Published: over 4 years ago

10.1128/mSystems.00214-18

Ribosome Profiling Reveals HSP90 Inhibitor Effects on Stage-Specific Protein Synthesis in Leishmania donovani
Cited by: 18
Author(s): Eugenia Bifeld, Stephan Lorenzen, Katharina Bartsch, Juan-José Vasquez, T. Nicolai Siegel, Joachim Clos
Software Mentions: 2
Published: about 6 years ago

10.1186/s13054-018-2242-3

Identification of a transcriptome profile associated with improvement of organ function in septic shock patients after early supportive therapy
Cited by: 14
Author(s): Matteo Barcella, Bernardo Bollen Pinto, Daniele Braga, Francesca D’Avila, Federico Tagliaferri, Marie-Angélique Cazalis, Guillaume Monneret, Antoine Herpain, Karim Bendjelid, Cristina Barlassina
Software Mentions: 2
Published: about 6 years ago

10.20892/j.issn.2095-3941.2021.0158

Hypoxic microenvironment induced spatial transcriptome changes in pancreatic cancer
Cited by: 20
Author(s): Hongxia Sun, Danfang Zhang, Chongbiao Huang, Yuhong Guo, Yupei Zhao, Nan Yao, Xueyi Dong, Run-Fen Cheng, Nan Zhao, Jie Meng, Bei Sun, Jihui Hao
Software Mentions: 2
Published: almost 4 years ago

10.1186/s13054-019-2670-8

A longitudinal study highlights shared aspects of the transcriptomic response to cardiogenic and septic shock
Cited by: 17
Author(s): Daniele Braga, Matteo Barcella, Antoine Herpain, Federico Aletti, Erik B. Kistler, Bernardo Bollen Pinto, Karim Bendjelid, Cristina Barlassina
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-020-63357-1

Neuronal LXR Regulates Neuregulin 1 Expression and Sciatic Nerve-Associated Cell Signaling in Western Diet-fed Rodents
Cited by: 6
Author(s): Chaitanya K. Gavini, Raiza Bonomo, Virginie Mansuy‐Aubert
Software Mentions: 2
Published: over 4 years ago

10.3389/fgene.2019.00500

Identification of Breast Cancer Stem Cell Related Genes Using Functional Cellular Assays Combined With Single-Cell RNA Sequencing in MDA-MB-231 Cells
Cited by: 25
Author(s): Emma Jonasson, Salim Ghannoum, Emma Persson, Jan Ch Karlsson, Thomas Kroneis, Erik Larsson, Göran Landberg, Anders Ståhlberg
Software Mentions: 2
Published: over 5 years ago

10.1186/s40163-020-00116-7

A systematic review on spatial crime forecasting
Cited by: 39
Author(s): Ourania Kounadi, Alina Ristea, Adelson de Araujo, Michael Leitner
Software Mentions: 2
Published: over 4 years ago

10.3389/fgene.2021.657330

Transcriptional Profiling of Porcine HCC Xenografts Provides Insights Into Tumor Cell Microenvironment Signaling
Cited by: 3
Author(s): Shovik S. Patel, Amitha Sandur, Mohammed El-Kebir, Ron C. Gaba, Lawrence B. Schook, Kyle M. Schachtschneider
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-021-01901-z

Inside-out chicken enteroids with leukocyte component as a model to study host–pathogen interactions
Cited by: 38
Author(s): Tessa Nash, Katrina M. Morris, Neil A. Mabbott, Lonneke Vervelde
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-021-01940-6

INPP4B protects from metabolic syndrome and associated disorders
Cited by: 7
Author(s): Manqi Zhang, Yasemin Ceyhan, Elena M. Kaftanovskaya, Judy L. Vasquez, Jean Vacher, Filip K. Knop, Lubov Nathanson, Alexander I. Agoulnik, Michael Ittmann, Irina U. Agoulnik
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.ppat.1009419

Epstein-Barr virus nuclear antigen 3C (EBNA3C) interacts with the metabolism sensing C-terminal binding protein (CtBP) repressor to upregulate host genes
Cited by: 6
Author(s): Makoto Ohashi, Mitchell Hayes, Kyle G. McChesney, Eric Johannsen
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2020.606285

Identification of Key Tissue-Specific, Biological Processes by Integrating Enhancer Information in Maize Gene Regulatory Networks
Cited by: 7
Author(s): Maud Fagny, Marieke L. Kuijjer, Maike Stam, Johann Joets, Olivier Turc, Julien Rozière, Stéphanie Pateyron, Anthony Venon, Clémentine Vitte
Software Mentions: 2
Published: almost 4 years ago

10.1038/s42003-020-0805-8

Variant phasing and haplotypic expression from long-read sequencing in maize
Cited by: 16
Author(s): Bo Wang, Elizabeth Tseng, Primo Baybayan, Kevin Eng, Michael Regulski, Yinping Jiao, Liya Wang, Andrew Olson, Kapeel Chougule, Peter Van Buren, Doreen Ware
Software Mentions: 2
Published: almost 5 years ago

10.1128/mSphere.00105-21

Cellular Management of Zinc in Group B Streptococcus Supports Bacterial Resistance against Metal Intoxication and Promotes Disseminated Infection
Cited by: 16
Author(s): Matthew J. Sullivan, Kelvin G. K. Goh, Glen C. Ulett
Software Mentions: 2
Published: over 3 years ago

10.1128/mSphere.00545-19

Rapid Bladder Interleukin-10 Synthesis in Response to Uropathogenic Escherichia coli Is Part of a Defense Strategy Triggered by the Major Bacterial Flagellar Filament FliC and Contingent on TLR5
Cited by: 19
Author(s): Dev Raj Acharya, Matthew J. Sullivan, Benjamin L. Duell, Kelvin G. K. Goh, Lahiru Katupitiya, Dean Gosling, Michelle N. Chamoun, Asha Kakkanat, Debasish Chattopadhyay, Michael R. Crowley, David K. Crossman, Mark A. Schembri, Glen C. Ulett
Software Mentions: 2
Published: almost 5 years ago

10.1128/mSphere.00248-19

High-Throughput Sequence Analysis of Peripheral T-Cell Lymphomas Indicates Subtype-Specific Viral Gene Expression Patterns and Immune Cell Microenvironments
Cited by: 12
Author(s): Hani Nakhoul, Zhen Lin, Xia Wang, Claire Roberts, Yan Dong, Erik K. Flemington
Software Mentions: 2
Published: about 5 years ago

10.1038/s42003-020-01359-5

Cancer-associated hypersialylated MUC1 drives the differentiation of human monocytes into macrophages with a pathogenic phenotype
Cited by: 29
Author(s): Richard Beatson, Rosalind Graham, Fabio Grundland-Freile, Domenico Cozzetto, Shichina Kannambath, Ester Pfeifer, Natalie Woodman, Julie Owen, Rosamond Nuamah, Ulla Mandel, Sarah Pinder, Cheryl Gillett, Thomas Noll, Ihssane Bouybayoune, Joyce Taylor‐Papadimitriou, Joy Burchell
Software Mentions: 2
Published: about 4 years ago

10.1038/s42003-020-01527-7

Functional annotation of genetic associations by transcriptome-wide association analysis provides insights into neutrophil development regulation
Cited by: 1
Author(s): Yao Yao, Jia Yang, Qian Qin, Chao Tang, Zhidan Li, Li Chen, Kailong Li, Chunyan Ren, Lu Chen, Shuquan Rao
Software Mentions: 2
Published: almost 4 years ago

10.3389/fimmu.2019.00816

Comparative Transcriptomic Analysis Identifies a Range of Immunologically Related Functional Elaborations of Lymph Node Associated Lymphatic and Blood Endothelial Cells
Cited by: 34
Author(s): Stella J. Berendam, Alexander F. Koeppel, Nicole R. Godfrey, Sherin J. Rouhani, Amber N. Woods, Anthony B. Rodriguez, J. David Peske, Kara L. Cummings, Stephen D. Turner, Víctor H. Engelhard
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-020-67208-x

Vaccination of koalas during antibiotic treatment for Chlamydia-induced cystitis induces an improved antibody response to Chlamydia pecorum
Cited by: 7
Author(s): Samuel Phillips, Bonnie Chaban, Olusola Olagoke, Rosemary Booth, Michael Pyne, Peter Timms
Software Mentions: 2
Published: over 4 years ago

10.1038/s42003-021-02321-9

Androgen receptor variant shows heterogeneous expression in prostate cancer according to differentiation stage
Cited by: 3
Author(s): Ada Gjyrezi, Giuseppe Galletti, Jiaren Zhang, Daniel Worroll, Michael Sigouros, Seaho Kim, Victoria Cooley, Karla V. Ballman, Allyson J. Ocean, Manish A. Shah, Joseph M. Scandura, Andrea Sboner, David M. Nanus, Himisha Beltran, Scott T. Tagawa, Paraskevi Giannakakou
Software Mentions: 2
Published: over 3 years ago

10.1128/mSphere.00219-19

Robust Transcriptional Response to Heat Shock Impacting Diverse Cellular Processes despite Lack of Heat Shock Factor in Microsporidia
Cited by: 6
Author(s): Nora K. McNamara-Bordewick, Mia McKinstry, Jonathan W. Snow
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0166520

Genome-Guided Analysis and Whole Transcriptome Profiling of the Mesophilic Syntrophic Acetate Oxidising Bacterium Syntrophaceticus schinkii
Cited by: 38
Author(s): Shahid Manzoor, Erik Bongcam‐Rudloff, Anna Schnürer, Bettina Müller
Software Mentions: 2
Published: about 8 years ago

10.1038/s42003-021-01944-2

Deletion of LBR N-terminal domains recapitulates Pelger-Huet anomaly phenotypes in mouse without disrupting X chromosome inactivation
Cited by: 4
Author(s): Alexander N. Young, Emerald Perlas, Nerea Ruiz-Blanes, Andreas Hierholzer, Nicola Pomella, Belén Martı́n-Martı́n, Alessandra Liverziani, Joanna W. Jachowicz, Thomas Giannakouŕos, Andrea Cerase
Software Mentions: 2
Published: over 3 years ago

10.3389/fimmu.2020.00453

Tissue-Specific Factors Differentially Regulate the Expression of Antigen-Processing Enzymes During Dendritic Cell Ontogeny
Cited by: 9
Author(s): Karim Mahiddine, Chervin Hassel, Claire Murat, Maeva Girard, Sylvie Guerder
Software Mentions: 2
Published: over 4 years ago

10.1080/21505594.2021.1927609

Adaptation of the emerging pathogenic yeast Candida auris to high caspofungin concentrations correlates with cell wall changes
Cited by: 12
Author(s): Violeta Lara-Aguilar, Cristina Rueda, Irene García-Barbazán, Sarai Varona, Sara Monzón, Pilar Jiménez, Isabel Cuesta, Ángel Zaballos, Óscar Zaragoza
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-020-01543-7

Systemic viral spreading and defective host responses are associated with fatal Lassa fever in macaques
Cited by: 17
Author(s): Nicolas Baillet, Stéphanie Reynard, Émeline Perthame, Jimmy Hortion, Alexandra Journeaux, Mathieu Mateo, Xavier Carnec, Justine Schaeffer, Caroline Picard, Laura Barrot, Stéphane Barron, Audrey Vallvé, Aurélie Duthey, Frédéric Jacquot, Cathy Boehringer, Grégory Jouvion, Natalia Pietrosemoli, Rachel Legendre, Marie‐Agnès Dillies, Richard Allan, Catherine Legras-Lachuer, Caroline Carbonnelle, Hervé Raoul, Sylvain Baize
Software Mentions: 2
Published: almost 4 years ago

10.1042/BSR20201590

Profiling and bioinformatics analyses reveal differential circular RNA expression in NK/T-cell lymphoma-associated hemophagocytic syndrome
Cited by: 0
Author(s): Changfeng Man, Yu Fan, Guangli Yin, Jiayu Huang, Jujuan Wang, Hai-Rong Qiu
Software Mentions: 2
Published: about 4 years ago

10.3390/biomedicines9070705

Multiplex Patient-Based Drug Response Assay in Pancreatic Ductal Adenocarcinoma
Cited by: 8
Author(s): Andrew Armstrong, Muhammad R. Haque, Sina Mirbagheri, Usman Barlass, Douglas Gilbert, Jaimin Amin, Ajaypal Singh, Ankur Naqib, Faraz Bishehsari
Software Mentions: 2
Published: over 3 years ago

10.1242/bio.023739

The role of nitric oxide during embryonic epidermis development ofXenopus laevis
Cited by: 7
Author(s): Silvie Tománková, Pavel Abaffy, Radek Šindelka
Software Mentions: 2
Published: almost 8 years ago

10.3389/fimmu.2017.01352

Human Primary Macrophages Derived In Vitro from Circulating Monocytes Comprise Adherent and Non-Adherent Subsets with Differential Expression of Siglec-1 and CD4 and Permissiveness to HIV-1 Infection
Cited by: 12
Author(s): Ousman Jobe, Jiae Kim, Eric Tycksen, Sayali Onkar, Nelson L. Michael, Carl R. Alving, Mangala Rao
Software Mentions: 2
Published: about 7 years ago

10.1038/s42003-019-0657-2

Transcriptional programming and T cell receptor repertoires distinguish human lung and lymph node memory T cells
Cited by: 14
Author(s): Nathan Schoettler, Cara L. Hrusch, Kelly M. Blaine, Anne I. Sperling, Carole Ober
Software Mentions: 2
Published: about 5 years ago

10.1080/21505594.2021.1950268

Importance of twitching and surface-associated motility in the virulence of Acinetobacter baumannii
Cited by: 12
Author(s): Jordi Corral, María Pérez-Varela, Miquel Sánchez-Osuna, Pilar Cortés, Jordi Barbé, Jesús Aranda
Software Mentions: 2
Published: about 3 years ago

10.1155/2020/7165893

Profiling and Bioinformatics Analysis of Differentially Expressed circRNAs in Spinal Ligament Tissues of Patients with Ankylosing Spondylitis
Cited by: 16
Author(s): Jianqiang Kou, Guoming Liu, Xiangyun Liu, LI Tian-mi, Ying Wei, Yuanliang Sun, Ting Wang, Yingzhen Wang, Xiujun Zheng
Software Mentions: 2
Published: over 4 years ago

10.1038/s42003-021-01844-5

Targeting natural splicing plasticity of APOBEC3B restricts its expression and mutagenic activity
Cited by: 7
Author(s): Abdul Rouf Banday, Olusegun O. Onabajo, Seraph Han-Yin Lin, Adeola Obajemu, Joselin M. Vargas, Krista A. Delviks-Frankenberry, Philippe Lamy, Ariunaa Bayanjargal, Clara Zettelmeyer, Óscar Flórez-Vargas, Vinay K. Pathak, Lars Dyrskjøt, Ludmila Prokunina‐Olsson
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-020-01411-4

Altered transcriptional and chromatin responses to rhinovirus in bronchial epithelial cells from adults with asthma
Cited by: 11
Author(s): Britney A. Helling, Débora R. Sobreira, Grace Hansen, Noboru Jo Sakabe, Kaixuan Luo, Christine Billstrand, Bharathi Laxman, Raluca Nicolae, Dan L. Nicolae, Yury A. Bochkov, James E. Gern, Marcelo A. Nóbrega, Steven R. White, Carole Ober
Software Mentions: 2
Published: about 4 years ago

10.3390/v10060308

The E. coli Global Regulator DksA Reduces Transcription during T4 Infection
Cited by: 9
Author(s): Jennifer Patterson-West, Tamara D. James, Llorenç Fernández-Coll, James R. Iben, Kyung Ho Moon, Leslie Knipling, Michael Cashel, Deborah M. Hinton
Software Mentions: 2
Published: over 6 years ago

10.1038/s42003-021-02123-z

Telomere damage promotes vascular smooth muscle cell senescence and immune cell recruitment after vessel injury
Cited by: 27
Author(s): Anna Uryga, Mandy O.J. Grootaert, Abel Martin Garrido, Sebnem Oc, Kirsty Foote, Joel Chappell, Alison Finigan, Francesca Rossiello, Fabrizio d’Adda di Fagagna, Dimitra Aravani, Helle F. Jørgensen, Martin R. Bennett
Software Mentions: 2
Published: over 3 years ago

10.3389/fimmu.2021.625649

Complement-Opsonized HIV Modulates Pathways Involved in Infection of Cervical Mucosal Tissues: A Transcriptomic and Proteomic Study
Cited by: 2
Author(s): Cecilia Svanberg, Rada Ellegård, Elisa Crisci, Mohammad Khalid, Ninnie Borendal Wodlin, Maria Svenvik, Sofia Nyström, Kenzie Birse, Adam Burgener, Esaki M. Shankar, Marie Larsson
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-021-02194-y

Menstrual flow as a non-invasive source of endometrial organoids
Cited by: 35
Author(s): Tereza Cindrová‐Davies, Xiaohui Zhao, Kay Elder, Carolyn J.P. Jones, Ashley Moffett, Graham J. Burton, Margherita Y. Turco
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-021-02327-3

Multiomic analysis of the Arabian camel (Camelus dromedarius) kidney reveals a role for cholesterol in water conservation
Cited by: 6
Author(s): Fernando Alvira Iraizoz, Benjamin Gillard, Panjiao Lin, Alex Paterson, Audrys G Pauža, Mahmoud A. Ali, Ammar H. Alabsi, Pamela A. Burger, Naserddine Hamadi, Abdu Adem, David Murphy, Michael Greenwood
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-020-01613-w

LRIG proteins regulate lipid metabolism via BMP signaling and affect the risk of type 2 diabetes
Cited by: 12
Author(s): Carl Herdenberg, Pascal M. Mutie, Ola Billing, Ahmad Abdullah, Rona J. Strawbridge, Ingrid Dahlman, Simon Tuck, Camilla Holmlund, Peter Arner, Roger Henriksson, Paul W. Franks, Håkan Hedman
Software Mentions: 2
Published: almost 4 years ago

10.1155/2020/4951251

Comprehensive Analysis of Differentially Expressed Circular RNAs in Patients with Senile Osteoporotic Vertebral Compression Fracture
Cited by: 3
Author(s): Xiaocong Yao, Minbo Liu, Fang Jin, Zhongxin Zhu
Software Mentions: 2
Published: about 4 years ago

10.1186/s13058-015-0616-x

Decoding breast cancer tissue–stroma interactions using species-specific sequencing
Cited by: 10
Author(s): Indira V. Chivukula, Daniel Ramsköld, Helena Storvall, Charlotte Anderberg, Shaobo Jin, Veronika Mamaeva, Cecilia Sahlgren, Kristian Pietras, Rickard Sandberg, Urban Lendahl
Software Mentions: 2
Published: over 9 years ago

10.1038/tp.2017.202

The BET/BRD inhibitor JQ1 improves brain plasticity in WT and APP mice
Cited by: 52
Author(s): Eva Benito, Binu Ramachandran, Henning Schroeder, G. Schmídt, Hendrik Urbanke, Susanne Burkhardt, Vincenzo Capece, Camin Dean, André Fischer
Software Mentions: 2
Published: about 7 years ago

10.1042/BSR20210691

Histone H3K4me1 strongly activates the DNase I hypersensitive sites in super-enhancers than those in typical enhancers
Cited by: 2
Author(s): Young-Seok Kang, Jin Gu Kang, AeRi Kim
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-021-02295-8

FUT6 deficiency compromises basophil function by selectively abrogating their sialyl-Lewis x expression
Cited by: 6
Author(s): Kia Joo Puan, Boris San Luis, Nurhashikin Yusof, Dilip Kumar, Anand Kumar Andiappan, Wendy Lee, Samanta Cajic, Dragana Vuckovic, Jing De Chan, Tobias Döllner, Han Wei Hou, Yunxuan Jiang, Chao Tian, Erdmann Rapp, Michael Poidinger, De Yun Wang, Nicole Soranzo, Bernett Lee, Olaf Rötzschke
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-020-63741-x

Smooth-muscle-derived WNT5A augments allergen-induced airway remodelling and Th2 type inflammation
Cited by: 12
Author(s): Tim Koopmans, Laura Hesse, Martijn C. Nawijn, Kuldeep Kumawat, Mark H. Menzen, I. Sophie T. Bos, Ron Smits, Elvira Bakker, Maarten van den Berge, Gerard H. Koppelman, Victor Guryev, Reinoud Gosens
Software Mentions: 2
Published: over 4 years ago

10.1128/mBio.03044-20

A Noncanonical DNA Damage Checkpoint Response in a Major Fungal Pathogen
Cited by: 10
Author(s): Erika Shor, Rocio Garcia-Rubio, Lucius DeGregorio, David S. Perlin
Software Mentions: 2
Published: almost 4 years ago

10.1128/mBio.02623-20

DDX56 Binds to Chikungunya Virus RNA To Control Infection
Cited by: 12
Author(s): Frances Taschuk, Iulia Tapescu, Ryan H. Moy, Sara Cherry
Software Mentions: 2
Published: about 4 years ago

10.1038/s42003-020-0933-1

Targeting the interaction between RNA-binding protein HuR and FOXQ1 suppresses breast cancer invasion and metastasis
Cited by: 52
Author(s): Xiaoqing Wu, Gulhumay Gardashova, Lan Lan, Shuang Han, Cuncong Zhong, Rebecca T. Marquez, Lanjing Wei, Spencer D. Wood, Sudeshna Roy, Ragul Gowthaman, John Karanicolas, Fei Gao, Dan A. Dixon, Danny R. Welch, Ling Li, Min Ji, Jeffrey Aubé, Liang Xu
Software Mentions: 2
Published: over 4 years ago

10.3389/fimmu.2017.01807

Computational Pipeline for the PGV-001 Neoantigen Vaccine Trial
Cited by: 48
Author(s): Alex Rubinsteyn, Julia Kodysh, Isaac Hodes, Sebastien Mondet, Bülent Arman Aksoy, John P. Finnigan, Nina Bhardwaj, Jeff Hammerbacher
Software Mentions: 2
Published: almost 7 years ago

10.1128/mBio.02027-20

Survey of Early-Diverging Lineages of Fungi Reveals Abundant and Diverse Mycoviruses
Cited by: 32
Author(s): Jillian M. Myers, Anne E. Bonds, Rebecca A. Clemons, Natasha Thapa, D. Rabern Simmons, Derreck Carter-House, Jericho Ortañez, P. Liu, Alejandro Miralles-Durán, Alessandro Desirò, Joyce E. Longcore, Gregory Bonito, Jason E. Stajich, J. W. Spatafora, Ying Chang, Luis M. Corrochano, Andrii P. Gryganskyi, Igor V. Grigoriev, Timothy Y. James
Software Mentions: 2
Published: about 4 years ago

10.1242/bio.028548

Transcriptome sequencing of the naked mole rat (Heterocephalus glaber) and identification of hypoxia tolerance genes
Cited by: 9
Author(s): Bao Xiao, Li Li, Chang Xu, Shihua Zhao, Lei Lin, Jishuai Cheng, Wenjing Yang, Cong Wang, Guanghan Kan, Shufang Cui
Software Mentions: 2
Published: almost 8 years ago

10.1038/tp.2017.80

Maternal immune activation results in complex microglial transcriptome signature in the adult offspring that is reversed by minocycline treatment
Cited by: 157
Author(s): Daniele Mattei, Andranik Ivanov, Carmelo Ferrai, Philipp Jordan, Dilansu Güneykaya, Alice Buonfiglioli, W. Schaafsma, Piotr Przanowski, Winnie Deuther‐Conrad, Peter Brust, Swen Hesse, Marianne Patt, Osama Sabri, Tobias L. Roß, Bart J. L. Eggen, Erik Boddeke, Bożena Kamińska, Dieter Beule, Ana Pombo, Helmut Kettenmann, Susanne Wolf
Software Mentions: 2
Published: over 7 years ago

10.3390/v12030311

Suppression of a Subset of Interferon-Induced Genes by Human Papillomavirus Type 16 E7 via a Cyclin Dependent Kinase 8-Dependent Mechanism
Cited by: 5
Author(s): Sadie Rice, Seong‐Man Kim, Cynthia Rodríguez, William K. Songock, G. Raikhy, Rebecca Lopez, Lauren A. Henderson, Arjun Yusufji, Jason M. Bodily
Software Mentions: 2
Published: over 4 years ago

10.1186/s13058-019-1214-0

BRCA1 mutation influences progesterone response in human benign mammary organoids
Cited by: 14
Author(s): Batzaya Davaadelger, Mehee Choi, Hari Singhal, Susan E. Clare, Seema A. Khan, Julie Kim
Software Mentions: 2
Published: almost 5 years ago

10.1038/s42003-019-0416-4

Treatment of volumetric muscle loss in mice using nanofibrillar scaffolds enhances vascular organization and integration
Cited by: 58
Author(s): Karina H. Nakayama, Marco Quarta, Patrick Paine, Cynthia Alcazar, Ioannis Karakikes, Víctor García, Oscar J. Abilez, Nicholas S. Calvo, Chelsey S. Simmons, Thomas A. Rando, Ngan F Huang
Software Mentions: 2
Published: over 5 years ago

10.1038/s42003-018-0068-9

Coding variants in RPL3L and MYZAP increase risk of atrial fibrillation
Cited by: 37
Author(s): Rósa B. Þórólfsdóttir, Garðar Sveinbjörnsson, Patrick Sulem, Nielsen Jb, Stefan Jönsson, Gisli H. Halldorsson, Páll Melsted, Erna V. Ívarsdóttir, Olafur B. Davidsson, Ragnar P. Kristjansson, Guðmar Þorleifsson, Anna Helgadóttir, Sólveig Grétarsdóttir, Gudmundur L. Norddahl, Sridharan Rajamani, Bjarni Torfason, Atli S Valgardsson, Jon Th. Sverrisson, Vinicius Tragante, Oddgeir L. Holmen, Folkert W. Asselbergs, Dan M. Roden, Dawood Darbar, Terje R. Pedersen, Marc S. Sabatine, Cristen J. Willer, Maja‐Lisa Løchen, Bjarni V. Halldórsson, Ingileif Jónsdóttir, Kristian Hveem, Davíð O. Arnar, Unnur Þorsteinsdóttir, Daníel F. Guðbjartsson, Hilma Hólm, Kāri Stefánsson
Software Mentions: 2
Published: over 6 years ago

10.1002/cti2.1334

Expression of CD49f defines subsets of human regulatory T cells with divergent transcriptional landscape and function that correlate with ulcerative colitis disease activity
Cited by: 4
Author(s): Harshi Weerakoon, Jasmin Straube, Katie E. Lineburg, Leanne Cooper, Steven Lane, Corey Smith, Saleh Alabbas, Jakob Begun, John J. Miles, Michelle M. Hill, Ailin Lepletier
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-019-50298-7

CD138 plasma cells may predict brain metastasis recurrence following resection and stereotactic radiosurgery
Cited by: 3
Author(s): M. Soike, Jennifer Logue, Shadi Qasem, Ryan T. Hughes, E. McTyre, Jing Su, Pierre L. Triozzi, Maurizio Bendandi, Hui-Wen Lo, Tamjeed Ahmed, Stacey S. O’Neill, Waldemar Debinski, Boris Pasche, Kounosuke Watabe, Lance D. Miller, Michael D. Chan, Jimmy Ruiz
Software Mentions: 2
Published: about 5 years ago

10.1128/mBio.00719-20

Sterol-Response Pathways Mediate Alkaline Survival in Diverse Fungi
Cited by: 20
Author(s): Hannah E. Brown, Calla L. Telzrow, Joseph W. Saelens, Larissa Fernandes, J. Andrew Alspaugh
Software Mentions: 2
Published: over 4 years ago

10.1002/cti2.1175

Partial absence of PD‐1 expression by tumor‐infiltrating EBV‐specific CD8+ T cells in EBV‐driven lymphoepithelioma‐like carcinoma
Cited by: 7
Author(s): Yannick Simoni, Étienne Becht, Shamin Li, Chiew Yee Loh, Joe Yeong, Tony Kiat Hon Lim, Angela Takano, Daniel S.W. Tan, Evan W. Newell
Software Mentions: 2
Published: almost 5 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: over 4 years ago

10.1242/bio.048652

Perturbation of maternal PIASy abundance disrupts zygotic genome activation and embryonic development via SUMOylation pathway
Cited by: 12
Author(s): Chika Higuchi, Masanobu Yamamoto, Seung Wook Shin, Kazuaki Miyamoto, Kazuya Matsumoto
Software Mentions: 2
Published: almost 6 years ago

10.1186/s13148-020-00892-8

Ten-eleven translocation methyl-cytosine dioxygenase 2 deficiency exacerbates renal ischemia-reperfusion injury
Cited by: 5
Author(s): Yan Huang, Li Tan, Yuqi Liu, Ning Huang, Jing Cang, Hao Wang
Software Mentions: 2
Published: over 4 years ago

10.1155/2021/5955343

High-Throughput Screen of Natural Compounds and Biomarkers for NSCLC Treatment by Differential Expression and Weighted Gene Coexpression Network Analysis (WGCNA)
Cited by: 1
Author(s): Ling Kui, Min Li, Xiaonan Yang, Ling Yang, Qinghua Kong, Yunbing Pan, Zetan Xu, Shouling Wang, Dan-Dan Mo, Yang Dong, Yao Liu, Jun Miao
Software Mentions: 2
Published: about 3 years ago

10.1186/s13058-021-01468-x

Transcriptome analysis of heterogeneity in mouse model of metastatic breast cancer
Cited by: 9
Author(s): Anastasia A. Ionkina, Gabriela Balderrama-Gutierrez, Krystian J Ibanez, Steve Huy D. Phan, Angelique Cortez, A Mortazavi, Jennifer A. Prescher
Software Mentions: 2
Published: about 3 years ago

10.3389/fvets.2020.00615

Synthetic Alkaloid Treatment Influences the Intestinal Epithelium and Mesenteric Adipose Transcriptome in Holstein Steers
Cited by: 4
Author(s): Kyle J McLean, R.L. Baldwin, Congjun Li, J. L. Klotz, J. L. Edwards, K. R. McLeod
Software Mentions: 2
Published: about 4 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: over 4 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: about 4 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: about 3 years ago

10.1007/s10142-017-0555-y

Transcriptome profile of the human placenta
Cited by: 27
Author(s): Marta Majewska, Aleksandra Lipka, Łukasz Paukszto, J Jastrzebski, Kamil Myszczyński, Marek Gowkielewicz, Marcin Jóźwik, Mariusz Majewski
Software Mentions: 2
Published: over 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 4 years ago

10.3390/cancers13040901

STAT3β Enhances Sensitivity to Concurrent Chemoradiotherapy by Inducing Cellular Necroptosis in Esophageal Squamous Cell Carcinoma
Cited by: 14
Author(s): Zhen-Yuan Zheng, Ping-Lian Yang, Wei Luo, Shuai-Xia Yu, Hanbing Xu, Ying Huang, Rong-Yao Li, Yang Chen, Xiu‐E Xu, Lian‐Di Liao, Shaohong Wang, Huaiyi Huang, En‐Min Li, Li‐Yan Xu
Software Mentions: 2
Published: almost 4 years ago

10.1128/mBio.00937-19

Endogenous Retrovirus-Derived Long Noncoding RNA Enhances Innate Immune Responses via Derepressing RELA Expression
Cited by: 34
Author(s): Bin Zhou, Fei Qi, Fang–Jing Wu, Hongbo Nie, Yifan Song, Lu Shao, Jingxuan Han, Zhiyong Wu, Hexige Saiyin, Gang Wei, Penghua Wang, Ting Ni, Feng Qian
Software Mentions: 2
Published: about 5 years ago

10.1155/2019/8427042

Application of Computational Biology and Artificial Intelligence Technologies in Cancer Precision Drug Discovery
Cited by: 37
Author(s): Nagarajan Nagasundaram, Edward Kien Yee Yapp, Nguyen Quoc Khanh Le, Balu Kamaraj, Abeer Mohammed Al‐Subaie, Hui‐Yuan Yeh
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0222817

Oral dosing for antenatal corticosteroids in the Rhesus macaque
Cited by: 11
Author(s): Augusto F. Schmidt, Matthew W. Kemp, Mark A. Milad, Lisa Miller, James P. Bridges, Michael Clarke, Paranthaman Senthamaraikannan, Alan H. Jobe
Software Mentions: 2
Published: about 5 years ago

Projects: cran: STAR

Papers Mentioning STAR 5,759