cran: STAR | Projects | Ecosyste.ms: Papers

10.1371/journal.pgen.1008036

LINE-2 transposable elements are a source of functional human microRNAs and target sites
Cited by: 42
Author(s): Rebecca Petri, Per Ludvik Brattås, Yogita Sharma, Marie E. Jönsson, Karolina Pircs, Johan Bengzon, Johan Jakobsson
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pgen.1007058

Gli3 is a negative regulator of Tas1r3-expressing taste cells
Cited by: 25
Author(s): Yumei Qin, Sunil K. Sukumaran, Masafumi Jyotaki, Kevin Redding, Peihua Jiang, Robert F. Margolskee
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pgen.1005001

Discovery of CTCF-Sensitive Cis-Spliced Fusion RNAs between Adjacent Genes in Human Prostate Cells
Cited by: 71
Author(s): Fujun Qin, Zhenguo Song, Mihaela Babiceanu, Yansu Song, Loryn Facemire, Ritambhara Singh, Mazhar Adli, Hui Li
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pgen.1004951

Modeling of the Human Alveolar Rhabdomyosarcoma Pax3-Foxo1 Chromosome Translocation in Mouse Myoblasts Using CRISPR-Cas9 Nuclease
Cited by: 51
Author(s): Irina Lagutina, Virginia Valentine, Fabrizio Picchione, Frank Harwood, Marcus B. Valentine, Bárbara Villarejo-Balcells, Jaime J. Carvajal, Gerard Grosveld
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pgen.1007272

Long-lived rodents reveal signatures of positive selection in genes associated with lifespan
Cited by: 41
Author(s): Arne Sahm, Martin Bens, Karol Szafranski, Susanne Holtze, Marco Groth, Matthias Görlach, Cornelis F. Calkhoven, Christine Müller, Matthias Schwab, Johann M. Kraus, Hans A. Kestler, Alessandro Cellerino, Hynek Burda, Thomas B. Hildebrandt, Philip Dammann, Matthias Platzer
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pgen.1009817

A unique cell wall synthetic response evoked by glucosamine determines pathogenicity-associated fungal cellular differentiation
Cited by: 11
Author(s): Pengjie Hu, Hao Ding, Ling Shen, Guang‐Jun He, Huimin Liu, Xiuyun Tian, Changyu Tao, Xiangzheng Bai, Jingnan Liang, Cheng Jin, Xinping Xu, Ence Yang, Linqi Wang
Software Mentions: 2
Published: about 3 years ago

10.1371/journal.pgen.1009589

Transcriptomic characterization of cancer-testis antigens identifies MAGEA3 as a driver of tumor progression in hepatocellular carcinoma
Cited by: 9
Author(s): Amanda Craig, Teresa García‐Lezana, Marina Ruiz de Galarreta, Carlos Villacorta‐Martin, Edgar Kozlova, Sebastião N. Martins-Filho, Johann von Felden, Mehmet Eren Ahsen, Erin Bresnahan, Gabriela Hernandez-Meza, Ismaïl Labgaa, Delia D’Avola, Myron Schwartz, Josep M. Llovet, Daniela Sia, Swan N. Thung, Bojan Losic, Amaia Lujambio, Augusto Villanueva
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pgen.1008295

Age- and stress-associated C. elegans granulins impair lysosomal function and induce a compensatory HLH-30/TFEB transcriptional response
Cited by: 17
Author(s): Victoria Butler, Fuying Gao, Christian I. Corrales, Wilian A. Cortopassi, Benjamı́n Caballero, Mihir Vohra, Kaveh Ashrafi, Ana María Cuervo, Matthew P. Jacobson, Giovanni Coppola, Aimee W. Kao
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pgen.1004716

Genome-Wide Distribution of RNA-DNA Hybrids Identifies RNase H Targets in tRNA Genes, Retrotransposons and Mitochondria
Cited by: 179
Author(s): Aziz El Hage, Shaun Webb, Alastair Kerr, David Tollervey
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pgen.1004593

The Olfactory Transcriptomes of Mice
Cited by: 121
Author(s): Ximena Ibarra-Soria, Maria O. Levitin, Luís R. Saraiva, Darren W. Logan
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pgen.1007449

An intronic enhancer of Bmp6 underlies evolved tooth gain in sticklebacks
Cited by: 26
Author(s): Phillip A. Cleves, James C. Hart, Rachel M. Agoglia, Monica T. Jimenez, Priscilla A. Erickson, Linda Gai, Craig T. Miller
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pgen.1009396

RNA-binding protein syncrip regulates starvation-induced hyperactivity in adult Drosophila
Cited by: 3
Author(s): Wanhao Chi, Wei Liu, Wenqin Fu, Shengqian Xia, Ellie S. Heckscher, Xiaoxi Zhuang
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pntd.0007013

The in vivo transcriptome of Schistosoma mansoni in the prominent vector species Biomphalaria pfeifferi with supporting observations from Biomphalaria glabrata
Cited by: 12
Author(s): Sarah K Buddenborg, Bishoy Kamel, Ben Hanelt, Lijing Bu, Si-Ming Zhang, Gerald M. Mkoji, Eric S. Loker
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pntd.0005789

Double impact: natural molluscicide for schistosomiasis vector control also impedes development of Schistosoma mansoni cercariae into adult parasites
Cited by: 18
Author(s): Ronaldo de Carvalho Augusto, Guillaume Tetreau, Philippe Chan, Marie‐Laure Walet‐Balieu, Clélia Christina Mello-Silva, Cláudia Portes Santos, Christoph Grunau
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0246173

Clinical and whole genome characterization of SARS-CoV-2 in India
Cited by: 12
Author(s): Radhakrishna Muttineni, K. Nagamani, Thrilok Chander Bingi, Raja Rao M, Kalyani Putty, Pankaj Singh Dholaniya, Ravi Kumar Puli, Sunitha Pakalapati, Saritha Sekhar S, Kiran Shekar, Mallikarjuna Reddy Doodipala, Amit A. Upadhyay, Steven E. Bosinger, Rama Rao Amara, Anand K. Kondapi
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0254123

Developing a core outcome set for periodontal trials
Cited by: 13
Author(s): Thomas Lamont, Jan E Clarkson, David Ricketts, P. A. Heasman, Craig R Ramsay, Katie Gillies
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0204322

A phylogenomic study quantifies competing mechanisms for pseudogenization in prokaryotes—The Mycobacterium leprae case
Cited by: 3
Author(s): Eliran Avni, Dennis Montoya, David Lopez, Robert L. Modlin, Matteo Pellegrini, Sagi Snir
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0194887

Versatile approach for functional analysis of human proteins and efficient stable cell line generation using FLP-mediated recombination system
Cited by: 28
Author(s): Roman J. Szczęsny, Katarzyna Kowalska, Kamila Kłosowska-Kosicka, Aleksander Chlebowski, Ewelina P. Owczarek, Zbigniew Warkocki, Tomasz M. Kuliński, Dorota Adamska, Kamila Affek, Agata Jędroszkowiak, Anna V. Kotrys, Rafał Tomecki, Paweł S. Krawczyk, Lukasz S. Borowski, Andrzej Dziembowski
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0196743

Dietary challenges differentially affect activity and sleep/wake behavior in mus musculus: Isolating independent associations with diet/energy balance and body weight
Cited by: 1
Author(s): Isaac J. Perron, Brendan T. Keenan, Karthikeyani Chellappa, Nicholas F. Lahens, Nicole L. Yohn, Keith R. Shockley, Allan I. Pack, Sigrid C. Veasey
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0205340

The small molecule rhodomyrtone suppresses TNF-α and IL-17A-induced keratinocyte inflammatory responses: A potential new therapeutic for psoriasis
Cited by: 17
Author(s): Julalak Chorachoo, Sylviane Lambert, Teal Furnholm, Liza Roberts, Laura J. Reingold, Sauvarat Auepemkiate, Supayang Piyawan Voravuthikunchai, Andrew Johnston
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0183606

Analysis of the whole transcriptome from gingivo-buccal squamous cell carcinoma reveals deregulated immune landscape and suggests targets for immunotherapy
Cited by: 8
Author(s): Richa Singh, Navonil De Sarkar, Susobhan Sarkar, Roshni Roy, Esita Chattopadhyay, Anindita Ray, Nidhan K. Biswas, Arindam Maitra, Bidyut Roy
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0207036

Integrated transcriptome and hormone profiling highlight the role of multiple phytohormone pathways in wheat resistance against fusarium head blight
Cited by: 55
Author(s): Lipu Wang, Qiang Li, Ziying Liu, Anu Surendra, Youlian Pan, Yifeng Li, L. Irina Zaharia, Thérèse Ouellet, Pierre R. Fobert
Software Mentions: 2
Published: about 6 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

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

10.1371/journal.pone.0156132

Prediction and Quantification of Splice Events from RNA-Seq Data
Cited by: 93
Author(s): Leonard D. Goldstein, Yi Cao, Grégoire Pau, Michael Lawrence, Thomas D. Wu, Somasekar Seshagiri, Robert Gentleman
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0126416

Combining GWAS and RNA-Seq Approaches for Detection of the Causal Mutation for Hereditary Junctional Epidermolysis Bullosa in Sheep
Cited by: 15
Author(s): Aroa Suárez-Vega, Julio Benavides, Valentín Pérez Pérez, Gwenola Tosser‐Klopp, Christophe Klopp, Stephen J. Keennel, Juan José Arranz
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0234913

Perm1 regulates cardiac energetics as a downstream target of the histone methyltransferase Smyd1
Cited by: 11
Author(s): Shinichi Oka, Amira D. Sabry, A Horiuchi, Keiko M. Cawley, Sean O’Very, Maria A. Zaitsev, Thirupura S. Shankar, Jaemin Byun, Risa Mukai, Xiaoyong Xu, Natalia S. Torres, Anil Kumar, Masayuki Yazawa, Ling Jing, Iosif Taleb, Yukio Saijoh, Stavros G. Drakos, Junichi Sadoshima, Jason G. Warren
Software Mentions: 2
Published: over 4 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: over 12 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: over 4 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: over 6 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: almost 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: over 5 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: about 4 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: almost 9 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: almost 6 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: over 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: about 5 years ago

10.1371/journal.pone.0217765

Comparison of quantitative trait loci methods: Total expression and allelic imbalance method in brain RNA-seq
Cited by: 1
Author(s): Jesper R. Gådin, Alfonso Buil, Carlo Colantuoni, Andrew E. Jaffe, Jacob Nielsen, Jooheon Shin, Thomas M. Hyde, Joel E. Kleinman, Niels Plath, Per Eriksson, Søren Brunak, Michael Didriksen, Daniel R. Weinberger, Lasse Folkersen
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0174798

NMD Classifier: A reliable and systematic classification tool for nonsense-mediated decay events
Cited by: 33
Author(s): Min-Kung Hsu, Hung‐Yu Lin, Feng‐Chi Chen
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0198575

Inferring the presence of aflatoxin-producing Aspergillus flavus strains using RNA sequencing and electronic probes as a transcriptomic screening tool
Cited by: 13
Author(s): Andrés S. Espíndola, William L. Schneider, Kitty F. Cardwell, Yisel Carrillo, Peter R. Hoyt, Stephen M. Marek, H. A. Melouk, Carla D. Garzón
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0153718

PBRM1 Regulates the Expression of Genes Involved in Metabolism and Cell Adhesion in Renal Clear Cell Carcinoma
Cited by: 66
Author(s): Basudev Chowdhury, Elizabeth Porter, Janet Stewart, Christina R. Ferreira, Matthew J. Schipma, Emily C. Dykhuizen
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0209648

Single-nucleus and single-cell transcriptomes compared in matched cortical cell types
Cited by: 367
Author(s): Trygve E. Bakken, Rebecca D. Hodge, Jeremy A. Miller, Zizhen Yao, Thuc Nghi Nguyen, Brian D. Aevermann, Eliza Barkan, Darren Bertagnolli, Tamara Casper, Nick Dee, Emma Garren, Jeff Goldy, Lucas T. Graybuck, Matthew Kroll, Roger S. Lasken, Kanan Lathia, Sheana Parry, Christine Rimorin, Richard H. Scheuermann, Nicholas J. Schork, Soraya I. Shehata, Michael Tieu, John W. Phillips, Amy Bernard, Kimberly A. Smith, Hongkui Zeng, Ed Lein, Bosiljka Tasic
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0227496

RNA profiling identifies novel, photoperiod-history dependent markers associated with enhanced saltwater performance in juvenile Atlantic salmon
Cited by: 9
Author(s): Marianne Iversen, Teshome Dagne Mulugeta, Børge Gellein Blikeng, Alexander C. West, Even H. Jørgensen, Simen Rød Sandve, David G. Hazlerigg
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0252674

De novo activated transcription of inserted foreign coding sequences is inheritable in the plant genome
Cited by: 0
Author(s): Takayuki Hata, Naoto Takada, Chihiro Hayakawa, Mei Kazama, Tomohiro Uchikoba, Makoto Tachikawa, Mitsuhiro Matsuo, Shunji Satoh, Junichi Obokata
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0060019

Coalescent-Based Genome Analyses Resolve the Early Branches of the Euarchontoglires
Cited by: 41
Author(s): Vikas Kumar, Björn M. Hallström, Axel Janke
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0128916

An Efficient Method for Identifying Gene Fusions by Targeted RNA Sequencing from Fresh Frozen and FFPE Samples
Cited by: 41
Author(s): Jonathan Scolnick, Michelle Dimon, I‐Ching Wang, Stephanie C. Huelga, Douglas A. Amorese
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0250669

Distinct expression of select and transcriptome-wide isolated 3’UTRs suggests critical roles in development and transition states
Cited by: 1
Author(s): Shaoyi Ji, Zihui Yang, Leonardi Gozali, Thomas Kenney, Arif Kocabas, Carolyn Jinsook Park, Mary Hynes
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0154947

Transcriptome Characterization and Functional Marker Development in Sorghum Sudanense
Cited by: 7
Author(s): Jieqin Li, Lihua Wang, Qiuwen Zhan, Yanlong Liu, Xiaocui Yang
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0153311

Identification of Differentially Expressed Genes Associated with Litter Size in Berkshire Pig Placenta
Cited by: 31
Author(s): Seul Gi Kwon, Jung Hye Hwang, Da Hye Park, Tae Wan Kim, Dong Jin Kang, Kyung Hee Kang, Il-Suk Kim, Hwa Chun Park, Chong-Sam Na, Ji Hee Ha, Chul Wook Kim
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0175943

Transcriptome and proteome responses in RNAlater preserved tissue of Arabidopsis thaliana
Cited by: 34
Author(s): Colin Kruse, Proma Basu, Darron R. Luesse, Sarah E. Wyatt
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0065923

A Phylogenomic Perspective on the Radiation of Ray-Finned Fishes Based upon Targeted Sequencing of Ultraconserved Elements (UCEs)
Cited by: 248
Author(s): Brant C. Faircloth, Laurie Sorenson, Francesco Santini, Michael E. Alfaro
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0127985

Altered Interactions between the Gut Microbiome and Colonic Mucosa Precede Polyposis in APCMin/+ Mice
Cited by: 45
Author(s): Joshua S. Son, Shanawaj Khair, Donald W. Pettet, Nengtai Ouyang, Xinyu Tian, Yuanhao Zhang, Wei Zhu, Gerardo G. Mackenzie, Charles E. Robertson, Diana Ir, Daniel N. Frank, Basil Rigas, Ellen Li
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0064312

Assessing Phylogenetic Relationships among Galliformes: A Multigene Phylogeny with Expanded Taxon Sampling in Phasianidae
Cited by: 74
Author(s): Ning Wang, Rebecca T. Kimball, Edward L. Braun, Bin Liang, Zhengwang Zhang
Software Mentions: 2
Published: over 11 years ago

10.3390/cancers12123597

Abemaciclib, A Selective CDK4/6 Inhibitor, Restricts the Growth of Pediatric Ependymomas
Cited by: 8
Author(s): Muh Lii Liang, Chun‐Han Chen, Yun Ru Liu, Man Hsu Huang, Yu Chen Lin, Tai-Tong Wong, Sey‐En Lin, Shing Shiung Chu, Yi Ding, Tsung Han Hsieh
Software Mentions: 2
Published: almost 4 years ago

10.3390/cancers12123518

MiR-215-5p Reduces Liver Metastasis in an Experimental Model of Colorectal Cancer through Regulation of ECM-Receptor Interactions and Focal Adhesion
Cited by: 29
Author(s): Táňa Macháčková, Petra Vychytilova-Faltejskova, Kamila Součková, Karolína Trachtová, Dominika Brchnelová, Marek Svoboda, Igor Kiss, Vladimír Procházka, Zdeněk Kala, Ondřej Slabý
Software Mentions: 2
Published: about 4 years ago

10.3390/cancers12010141

Mutant IDH1 Depletion Downregulates Integrins and Impairs Chondrosarcoma Growth
Cited by: 16
Author(s): Luyuan Li, Xiaoyu Hu, Josiane E. Eid, Andrew E. Rosenberg, Breelyn A. Wilky, Yuguang Ban, Xiaodian Sun, Karina Galoian, Joanna DeSalvo, Jinbo Yue, Xi Steven Chen, Marzenna Blonska, Jonathan C. Trent
Software Mentions: 2
Published: almost 5 years ago

10.3390/cancers13051151

Transitioning the Molecular Tumor Board from Proof of Concept to Clinical Routine: A German Single-Center Analysis
Cited by: 16
Author(s): Rouven Hoefflin, Adriana Lazarou, Maria Hess, Meike Reiser, Julius Wehrle, Patrick Bastos Metzger, Axel W. Frey, Heiko Becker, Konrad Aumann, Kai Berner, Martin Boeker, Nico Buettner, Christine Dierks, Jesús Duque‐Afonso, Michel Eisenblaetter, Thalia Erbes, Ralph Fritsch, Isabell Ge, Anna-Lena Geißler, Markus Grabbert, Steffen Heeg, Dieter Henrik Heiland, Simone Hettmer, Gian Kayser, Alexander Keller, Anita Kleiber, Alexandra Kutilina, Leman Mehmed, Frank Meiß, Philipp Poxleitner, Justyna Rawluk, Juri Ruf, Henning Schäfer, Florian Scherer, Khalid Shoumariyeh, Andreas Tzschach, Christoph Peters, Tilman Brummer, Martin Werner, Justus Duyster, Silke Laßmann, Cornelius Miething, Melanie Boerries, Anna Lena Illert, Nikolas von Bubnoff
Software Mentions: 2
Published: over 3 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

10.3390/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/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

10.3390/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/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

10.1038/s41418-018-0248-7

The proneural gene ASCL1 governs the transcriptional subgroup affiliation in glioblastoma stem cells by directly repressing the mesenchymal gene NDRG1
Cited by: 40
Author(s): Ashwin Narayanan, Filippo Gagliardi, Alberto L. Gallotti, Stefania Mazzoleni, Manuela Cominelli, Luca Fagnocchi, Mauro Pala, Ignazio S. Piras, Paola Zordan, Nicole Moretta, Elisa Tratta, Gianluca Brugnara, Luisa Altabella, Giuseppina Bozzuto, Petra Gorombei, Agnese Molinari, Rose Ann Padua, Alessandro Bulfone, Letterio S. Politi, Andrea Falini, Antonella Castellano, Pietro Mortini, Alessio Zippo, Pietro Luigi Poliani, Rossella Galli
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41418-021-00765-4

The AP-1 transcription factors c-Jun and JunB are essential for CD8α conventional dendritic cell identity
Cited by: 15
Author(s): Philipp Novoszel, Barbara Drobits, Martin Holcmann, Cristiano De Sa Fernandes, Roland Tschismarov, Sophia Derdak, Thomas Decker, Erwin F. Wagner, Maria Sibilia
Software Mentions: 2
Published: over 3 years ago

10.1038/s41418-020-00653-3

HDAC inhibition ameliorates cone survival in retinitis pigmentosa mice
Cited by: 21
Author(s): Marijana Samardzija, Andrea Corna, Raquel Gómez‐Sintes, Mohamed Ali Jarboui, Angela Armento, Jérôme E. Roger, Eleni Petridou, Wadood Haq, François Paquet-Durand, Eberhart Zrenner, Pedro de la Villa, Günther Zeck, Christian Grimm, Patricia Boya, Marius Ueffing, Dragana Trifunović
Software Mentions: 2
Published: about 4 years ago

10.1038/s41419-021-04005-y

ETV7 regulates breast cancer stem-like cell features by repressing IFN-response genes
Cited by: 11
Author(s): Laura Pezzè, Erna Marija Meškytė, Mattia Forcato, Stefano Pontalti, Kalina Aleksandra Badowska, Dario Rizzotto, Ira Skvortsova, Silvio Bicciato, Yari Ciribilli
Software Mentions: 2
Published: over 3 years ago

10.1038/s41419-019-1938-x

TNFR2 induced priming of the inflammasome leads to a RIPK1-dependent cell death in the absence of XIAP
Cited by: 22
Author(s): Janin Knop, Lisanne M. Spilgies, Stefanie Rufli, Ramona Reinhart, Lazaros Vasilikos, Monica Yabal, Erika Owsley, Philipp J. Jost, Rebecca Marsh, Harald Wajant, Mark D. Robinson, Thomas Kaufmann, Wendy Wei-Lynn Wong
Software Mentions: 2
Published: about 5 years ago

10.1038/s41419-019-1752-5

mTOR hyperactivation in Down Syndrome underlies deficits in autophagy induction, autophagosome formation, and mitophagy
Cited by: 68
Author(s): Matteo Bordi, Sandipkumar Darji, Yutaka Satō, Marian Mellén, Martin J. Berg, Asok Kumar, Ying Jiang, Ralph A. Nixon
Software Mentions: 2
Published: over 5 years ago

10.1038/s41419-021-03425-0

The DNA-helicase HELLS drives ALK− ALCL proliferation by the transcriptional control of a cytokinesis-related program
Cited by: 9
Author(s): Annalisa Tameni, Elisabetta Sauta, Valentina Mularoni, Federica Torricelli, Gloria Manzotti, Giorgio Inghirami, Riccardo Bellazzi, Valentina Fragliasso, Alessia Ciarrocchi
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41419-019-1774-z

The Kindlin2-p53-SerpinB2 signaling axis is required for cellular senescence in breast cancer
Cited by: 21
Author(s): Khalid Sossey‐Alaoui, Elżbieta Pluskota, Dorota Szpak, Edward F. Plow
Software Mentions: 2
Published: over 5 years ago

10.1038/s41419-021-03860-z

FKBP39 controls nutrient dependent Nprl3 expression and TORC1 activity in Drosophila
Cited by: 5
Author(s): Ying Zhou, Jiamei Guo, Xinyu Wang, Yang Cheng, Jianwen Guan, Priyam Barman, Ming-an Sun, Yuanyuan Fu, Wanhong Wei, Chao Feng, Mary A. Lilly, Youheng Wei
Software Mentions: 2
Published: over 3 years ago

10.1038/s41419-018-0288-4

Interleukin 4 modulates microglia homeostasis and attenuates the early slowly progressive phase of amyotrophic lateral sclerosis
Cited by: 52
Author(s): Chiara Rossi, Melania Cusimano, Martina Zambito, Annamaria Finardi, Alessia Capotondo, José Manuel García-Manteiga, Giancarlo Comi, Roberto Furlan, Gianvito Martino, Luca Muzio
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41419-019-1877-6

Lactate and pyruvate promote oxidative stress resistance through hormetic ROS signaling
Cited by: 148
Author(s): Arnaud Tauffenberger, Hubert Fiumelli, Salam Almustafa, Pierre J. Magistretti
Software Mentions: 2
Published: about 5 years ago

10.1038/s41419-021-03675-y

FCN3 functions as a tumor suppressor of lung adenocarcinoma through induction of endoplasmic reticulum stress
Cited by: 17
Author(s): Hee Kyung Jang, Yukyung Jun, Su Yeon Kim, Eun-Jeong Kim, Yeonjoo Jung, Byung Jo Park, Jinseon Lee, Young Tae Kim, Sanghyuk Lee, Jaesang Kim
Software Mentions: 2
Published: over 3 years ago

10.1038/s41419-019-2036-9

Mitochondrial 3243A > G mutation confers pro-atherogenic and pro-inflammatory properties in MELAS iPS derived endothelial cells
Cited by: 22
Author(s): Nicole Min Qian Pek, Qian Hua Phua, Beatrice Xuan Ho, Junxiong Pang, Jin-Hui Hor, Ömer An, Henry Yang, Yang Yu, Yong Fan, Shi‐Yan Ng, Boon Seng Soh
Software Mentions: 2
Published: about 5 years ago

10.1038/s41419-021-03790-w

MYCN mediates TFRC-dependent ferroptosis and reveals vulnerabilities in neuroblastoma
Cited by: 53
Author(s): Yuxiong Lu, Qing Yang, Yubin Su, Yin Ji, Guo‐Bang Li, Xianzhi Yang, Liyan Xu, Zhikun Lu, Jiajun Dong, Yi Wu, Jin‐Xin Bei, Chaoyun Pan, Xiaoqiong Gu, Bo Li
Software Mentions: 2
Published: over 3 years ago

10.1038/s41419-020-02988-8

Wnt/β-catenin signaling pathway induces autophagy-mediated temozolomide-resistance in human glioblastoma
Cited by: 52
Author(s): Eun Joo Yun, Sangwoo Kim, Jer Tsong Hsieh, Seung Tae Baek
Software Mentions: 2
Published: about 4 years ago

10.1038/s41419-021-04017-8

Tissue-specific expression of p73 and p63 isoforms in human tissues
Cited by: 10
Author(s): Clayton B. Marshall, J. Scott Beeler, Brian D. Lehmann, Paula I. González-Ericsson, Violeta Sánchez, Melinda E. Sanders, Kelli L. Boyd, Jennifer A. Pietenpol
Software Mentions: 2
Published: over 3 years ago

10.1038/s41419-018-1296-0

Transcriptome profiling of caspase-2 deficient EμMyc and Th-MYCN mouse tumors identifies distinct putative roles for caspase-2 in neuronal differentiation and immune signaling
Cited by: 4
Author(s): Loretta Dorstyn, Emily Hackett-Jones, Andrej Nikolic, Murray D. Norris, Yoon Pin Lim, John Toubia, Michelle Haber, Sharad Kumar
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41419-020-03231-0

ASH2L drives proliferation and sensitivity to bleomycin and other genotoxins in Hodgkin’s lymphoma and testicular cancer cells
Cited by: 7
Author(s): Daniel Constantin, Christian Widmann
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41419-021-03558-2

N6-methyladenosine modification of circCUX1 confers radioresistance of hypopharyngeal squamous cell carcinoma through caspase1 pathway
Cited by: 61
Author(s): Ping Wu, Xing Fang, Yalan Liu, Yurong Tang, Wei Wang, Xin Li, Yuhua Fan
Software Mentions: 2
Published: over 3 years ago

10.1038/s41419-020-2371-x

PRDM3 attenuates pancreatitis and pancreatic tumorigenesis by regulating inflammatory response
Cited by: 10
Author(s): Jie Ye, Anpei Huang, Haitao Wang, Anni Zhang, Xiaojun Huang, Qingping Lan, Tomohiko Sato, Susumu Goyama, Mineo Kurokawa, Chu‐Xia Deng, Maike Sander, David F. Schaeffer, Wen Li, Janel L. Kopp, Ruiyu Xie
Software Mentions: 2
Published: over 4 years ago

10.1038/s41419-018-0869-2

LncRNA MIR100HG promotes cell proliferation in triple-negative breast cancer through triplex formation with p27 loci
Cited by: 105
Author(s): Shaowei Wang, Ke Hao, Honglei Zhang, Yujie Ma, Lei Ao, Li Zou, Qin Yang, Huiping Zhu, Jianyun Nie, Chen Wu, Baowei Jiao
Software Mentions: 2
Published: over 6 years ago

10.1038/s41419-018-0699-2

Profiling and functional analysis of circular RNAs in acute promyelocytic leukemia and their dynamic regulation during all-trans retinoic acid treatment
Cited by: 47
Author(s): Shufen Li, Yunlin Ma, Yun Tan, Xuefei Ma, Ming Zhao, Bing Chen, Rongsheng Zhang, Chen Zhu, Kankan Wang
Software Mentions: 2
Published: over 6 years ago

10.1038/s41420-020-00392-x

Translation machinery reprogramming in programmed cell death in Saccharomyces cerevisiae
Cited by: 5
Author(s): Francesco Monticolo, Emanuela Palomba, Maria Luisa Chiusano
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41421-019-0104-z

STK11 is required for the normal program of ciliated cell differentiation in airways
Cited by: 14
Author(s): Qiqi Chu, Changfu Yao, Xiangbing Qi, Barry R. Stripp, Nan Tang
Software Mentions: 2
Published: over 5 years ago

10.1038/s41421-021-00280-3

Single-cell transcriptome and TCR profiling reveal activated and expanded T cell populations in Parkinson’s disease
Cited by: 36
Author(s): Pingping Wang, Lifen Yao, Meng Luo, Wenyang Zhou, Xiyun Jin, Zhaochun Xu, Yan Shi, Yiqun Li, Chang Xu, Rui Cheng, Yan Huang, Xiaoyu Lin, Kexin Ma, Huimin Cao, Hongxin Liu, Guangfu Xue, Fangfang Han, Huan Nie, Qinghua Jiang
Software Mentions: 2
Published: over 3 years ago

10.1016/j.cmet.2018.05.003

Cardiolipin Synthesis in Brown and Beige Fat Mitochondria Is Essential for Systemic Energy Homeostasis
Cited by: 102
Author(s): Elahu G. Sustarsic, Tao Ma, Matthew D. Lynes, Michael Larsen, Iuliia Karavaeva, Jesper Foged Havelund, Carsten H. Nielsen, Mark P. Jedrychowski, Marta Moreno-Torres, Morten Lundh, Kaja Plucińska, Naja Zenius Jespersen, Trisha J. Grevengoed, Barbara Kramar, Julia Peics, Jakob Bondo Hansen, Farnaz Shamsi, Isabel Forss, Ditte Neess, Susanne Keipert, Jianing Wang, Katharina Stohlmann, Ivan Brandslund, Cramer Christensen, Marit E. Jørgensen, Allan Linneberg, Oluf Pedersen, Michael A. Kiebish, Klaus Qvortrup, Xianlin Han, Bente Klarlund Pedersen, Martin Jastroch, Susanne Mandrup, Andreas Kjær, Steven P. Gygi, Torben Hansen, Matthew P. Gillum, Niels Grarup, Brice Emanuelli, Søren Nielsen, Camilla Schéele, Yu–Hua Tseng, Nils J. Færgeman, Zachary Gerhart-Hines
Software Mentions: 2
Published: over 6 years ago

10.1111/cmi.13191

Germ‐free and microbiota‐associated mice yield small intestinal epithelial organoids with equivalent and robust transcriptome/proteome expression phenotypes
Cited by: 21
Author(s): Annika Hausmann, Giancarlo Russo, Jonas Grossmann, Mirjam Zünd, Gerald Schwank, Ruedi Aebersold, Yansheng Liu, Mikael E. Sellin, Wolf‐Dietrich Hardt
Software Mentions: 2
Published: over 4 years ago

10.1186/s11658-021-00255-y

Triazoloacridone C-1305 impairs XBP1 splicing by acting as a potential IRE1α endoribonuclease inhibitor
Cited by: 8
Author(s): Sylwia Bartoszewska, Jarosław Króliczewski, David K. Crossman, Aneta Pogorzelska, Maciej Bagiński, James F. Collawn, Rafał Bartoszewski
Software Mentions: 2
Published: over 3 years ago

10.1016/j.jcmgh.2021.06.002

Acute Experimental Barrier Injury Triggers Ulcerative Colitis–Specific Innate Hyperresponsiveness and Ulcerative Colitis–Type Microbiome Changes in Humans
Cited by: 7
Author(s): Jakob Benedict Seidelin, Martin Iain Bahl, Tine Rask Licht, Benjamin E. Mead, Jeffrey M. Karp, Jens Vilstrup Johansen, Lene Riis, Marina Ramírez Galera, Anders Woetmann, Jacob Tveiten Bjerrum
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41423-020-0486-8

ADAM12 is a costimulatory molecule that determines Th1 cell fate and mediates tissue inflammation
Cited by: 15
Author(s): Yawei Liu, Robert Bockermann, Mahdieh Hadi, Iman Safari, Belinda Carrión, Marie Kveiborg, Shohreh Issazadeh‐Navikas
Software Mentions: 2
Published: over 4 years ago

10.1007/s10571-020-00830-5

Diverse Signaling by TGFβ Isoforms in Response to Focal Injury is Associated with Either Retinal Regeneration or Reactive Gliosis
Cited by: 21
Author(s): Federica Maria Conedera, Ana Maria Quintela Pousa, David M. Presby, Nadia Mercader, Volker Enzmann, Markus Tschopp
Software Mentions: 2
Published: over 4 years ago

10.1111/cpr.12831

AFF1 inhibits adipogenic differentiation via targeting TGM2 transcription
Cited by: 7
Author(s): Yaqian Chen, Yuan Wang, Weimin Lin, Rui Sheng, Yaxu Wu, Ruoshi Xu, Chenchen Zhou, Quan Yuan
Software Mentions: 2
Published: over 4 years ago

10.1111/cpr.13059

Genome stabilization by RAD51‐stimulatory compound 1 enhances efficiency of somatic cell nuclear transfer‐mediated reprogramming and full‐term development of cloned mouse embryos
Cited by: 6
Author(s): Ah Reum Lee, Jihoon Park, Sung Han Shim, Kwonho Hong, Hyeonwoo La, Kyung-Soon Park, Dong Ryul Lee
Software Mentions: 2
Published: over 3 years ago

10.1111/cpr.12914

KLF3 promotes the 8‐cell‐like transcriptional state in pluripotent stem cells
Cited by: 3
Author(s): Jun Hao, Xi Yang, Chao Zhang, Xue-Tao Zhang, Ming Shi, Shaohua Wang, Mi Li, Yuting Zhao, Cao H, Yangming Wang
Software Mentions: 2
Published: about 4 years ago

10.1016/j.celrep.2020.01.032

B Cell Diversification Is Uncoupled from SAP-Mediated Selection Forces in Chronic Germinal Centers within Peyer’s Patches
Cited by: 15
Author(s): Adi Biram, Eitan Winter, Alice E. Denton, Irina Zaretsky, Bareket Dassa, Mats Bemark, Michelle A. Linterman, Gur Yaari, Ziv Shulman
Software Mentions: 2
Published: almost 5 years ago

10.1016/j.celrep.2014.12.008

Insights into the Evolution of Longevity from the Bowhead Whale Genome
Cited by: 261
Author(s): Michael P. Keane, Jeremy R. Semeiks, Andrew E. Webb, Yang Li, Vı́ctor Quesada, Thomas Craig, Lone Bruhn Madsen, Sipko van Dam, David Brawand, Patrícia Marques, Pawel Michalak, Lin Kang, Jong Bhak, Hyung-Soon Yim, Nick V. Grishin, Nynne H. Nielsen, Mads Peter Heide‐Jørgensen, Elias M. Oziolor, Cole W. Matson, George M. Church, Gary W. Stuart, James R. Patton, J. C. George, Robert Suydam, Knud Larsen, Carlos López-Otı́n, Mary J. O’Connell, John W. Bickham, Bo Thomsen, João Pedro de Magalhães
Software Mentions: 2
Published: almost 10 years ago

10.1016/j.celrep.2021.108810

Phenotypic characterization of Adig null mice suggests roles for adipogenin in the regulation of fat mass accrual and leptin secretion
Cited by: 8
Author(s): Anna Álvarez-Guaita, Satish Patel, Koini Lim, Afreen Haider, Dong Liu, Olivia J. Conway, Marcella K.L., Davide Chiarugi, Vladimı́r Saudek, Stephen O’Rahilly, David B. Savage
Software Mentions: 2
Published: over 3 years ago

10.1016/j.celrep.2018.07.009

Functional Annotation of ESR1 Gene Fusions in Estrogen Receptor-Positive Breast Cancer
Cited by: 68
Author(s): Jonathan T. Lei, Jieya Shao, Jin Zhang, Michael D. Iglesia, Doug W. Chan, Jin Cao, Meenakshi Anurag, Purba Singh, Xiaping He, Yoshimasa Kosaka, Ryoichi Matsunuma, Robert J. Crowder, Jeremy Hoog, Chanpheng Phommaly, Rodrigo Gonçalves, Susana Ramalho, Raquel Mary Rodrigues Peres, Nindo Punturi, Cecilia Schmidt, Alex Bartram, Eric Jou, Vaishnavi Devarakonda, Kimberly Holloway, Weiyi Lai, Oliver A. Hampton, Anna Rogers, Ethan Tobias, Poojan A. Parikh, Sherri R. Davies, Shunqiang Li, X. Cynthia, Vera J. Suman, Kelly K. Hunt, Mark A. Watson, Katherine A. Hoadley, E. Aubrey Thompson, Xi Chen, Shyam M. Kavuri, Chad J. Creighton, Christopher A. Maher, Charles M. Perou, Svasti Haricharan, Matthew J. Ellis
Software Mentions: 2
Published: over 6 years ago

Projects: cran: STAR

Papers Mentioning STAR 5,759