bioconductor: DESeq2 | Projects | Ecosyste.ms: Papers

10.3389/fimmu.2020.609400

CCR8 Signaling via CCL1 Regulates Responses of Intestinal IFN-γ Producing Innate Lymphoid CelIs and Protects From Experimental Colitis
Cited by: 5
Author(s): Le Kang, Angelika Schmalzl, Tamara Leupold, Miguel Gonzalez-Acera, Raja Atreya, Markus F. Neurath, Christoph Becker, Stefan Wirtz
Software Mentions: 1
Published: almost 6 years ago

10.1002/mbo3.1111

Microbial interaction between the succinate‐utilizing bacteriumPhascolarctobacterium faeciumand the gut commensalBacteroides thetaiotaomicron
Cited by: 37
Author(s): Nao Ikeyama, Takumi Murakami, Atsushi Toyoda, Hiroshi Mori, Takao Iino, Moriya Ohkuma, Mitsuo Sakamoto
Software Mentions: 1
Published: about 6 years ago

10.3389/fimmu.2019.01186

Cecal CircRNAs Are Associated With the Response to Salmonella Enterica Serovar Enteritidis Inoculation in the Chicken
Cited by: 10
Author(s): Lanhong Zheng, Liying Liu, Lili Lin, Hui Tang, Xinzhong Fan, Hai Lin, Xianyao Li
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2020.587931

Characterization of miRNAs in Extracellular Vesicles Released From Atlantic Salmon Monocyte-Like and Macrophage-Like Cells
Cited by: 15
Author(s): Nicole C. Smith, Gabriel Wajnberg, Simi Chacko, Nardos Tesfaye Woldemariam, Jacynthe Lacroix, Nicolas Crapoulet, D. Craig Ayre, Stephen M. Lewis, Matthew L. Rise, Rune Andreassen, Sherri L. Christian
Software Mentions: 1
Published: about 6 years ago

10.3389/fimmu.2018.02972

The Change of Teleost Skin Commensal Microbiota Is Associated With Skin Mucosal Transcriptomic Responses During Parasitic Infection by Ichthyophthirius multifillis
Cited by: 58
Author(s): Xiaoting Zhang, Li-Guo Ding, Yongyao Yu, Weijing Kong, Yaxing Yin, Zhenyu Huang, Xuezhen Zhang, Zhen Xu
Software Mentions: 1
Published: almost 8 years ago

10.3389/fimmu.2020.00914

Identification of Altered miRNAs in Cerumen of Dogs Affected by Otitis Externa
Cited by: 5
Author(s): Cristina Lecchi, Valentina Zamarian, Giorgia Borriello, Giorgio Galiero, G. Grilli, M. Caniatti, Elisa Silvia D'Urso, P. Roccabianca, Roberta Perego, Michela Minero, Sara Legnani, Raffaele Calogero, Maddalena Arigoni, Fabrizio Ceciliani
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2020.571880

Construction of a High-Density Genetic Map and Identification of Quantitative Trait Loci for Nitrite Tolerance in the Pacific White Shrimp (Litopenaeus vannamei)
Cited by: 6
Author(s): Min Peng, Dingyuan Zeng, Weilin Zhu, Xiuli Chen, Chunling Yang, Qingyun Liu, Qiangyong Li, Huanling Wang, Hong Liu, Liang JingZhen, Yong Lin, Yang Zhao
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-019-43419-9

Dissecting R gene and host genetic background effect on the Brassica napus defense response to Leptosphaeria maculans
Cited by: 19
Author(s): Parham Haddadi, Nicholas J. Larkan, M. Hossein Borhan
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2021.678673

Organ-Specific Transcriptome Analysis Identifies Candidate Genes Involved in the Stem Specialization of Bermudagrass (Cynodon dactylon L.)
Cited by: 4
Author(s): Si Chen, Xin Xu, Ziyan Ma, Jianxiu Liu, Bing Zhang
Software Mentions: 1
Published: over 5 years ago

10.1523/ENEURO.0232-21.2021

Heterogeneous Expression of Nuclear Encoded Mitochondrial Genes Distinguishes Inhibitory and Excitatory Neurons
Cited by: 10
Author(s): Meghan E. Wynne, Alicia R. Lane, Kaela S. Singleton, Stephanie A. Zlatic, Avanti Gokhale, Erica Werner, Duc M. Duong, Jennifer Q. Kwong, Amanda Crocker, Víctor Faúndez
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-019-43468-0

Emulating the early phases of human tooth development in vitro
Cited by: 15
Author(s): Jennifer Rosowski, Julia Bräunig, Anna-Klara Amler, Frank Peter Strietzel, Roland Lauster, Mark Rosowski
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2021.706341

Integrated Analysis of Hepatic miRNA and mRNA Expression Profiles in the Spontaneous Reversal Process of Liver Fibrosis
Cited by: 2
Author(s): Yang Tai, Chong Zhao, Tian Lan, Linhao Zhang, Yang Xiao, Huan Tong, Rui Li, Chengwei Tang, Jinhang Gao
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2019.00108

Integrative Analysis Reveals Key Circular RNA in Atrial Fibrillation
Cited by: 15
Author(s): Xiaofeng Hu, Linhui Chen, Shaohui Wu, Kai Xu, Weifeng Jiang, Mu Qin, Yu Zhang, Xu Liu
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2017.00213

The Dynamics of microRNA Transcriptome in Bovine Corpus Luteum during Its Formation, Function, and Regression
Cited by: 27
Author(s): Rreze M. Gecaj, Corina I. Schanzenbach, Benedikt Kirchner, Michael W. Pfaffl, Irmgard Riedmaier, Ry Y. Tweedie-Cullen, Bajram Berisha
Software Mentions: 1
Published: almost 9 years ago

10.3389/fgene.2018.00032

Heavy Chronic Intermittent Ethanol Exposure Alters Small Noncoding RNAs in Mouse Sperm and Epididymosomes
Cited by: 76
Author(s): Gregory Rompala, Anaïs Mounier, Cody M. Wolfe, Qishan Lin, Iliya Lefterov, Gregg E. Homanics
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-019-44568-7

Induced androgenetic development in rainbow trout and transcriptome analysis of irradiated eggs
Cited by: 6
Author(s): Konrad Ocalewicz, Artur Gurgul, Klaudia Pawlina-Tyszko, Tomasz Szmatoła, Igor Jasielczuk, Monika Bugno‐Poniewierska, Stefan Dobosz
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-43985-y

Ampk regulates IgD expression but not energy stress with B cell activation
Cited by: 13
Author(s): Lynnea R. Waters, Fasih M. Ahsan, Johanna ten Hoeve, Jason Hong, Diane N. H. Kim, Aspram Minasyan, Daniel Braas, Thomas G. Graeber, Thomas A. Zangle, Michael A. Teitell
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2019.01339

Using SNP Weights Derived From Gene Expression Modules to Improve GWAS Power for Feed Efficiency in Pigs
Cited by: 9
Author(s): Brittney N Keel, W. M. Snelling, A. K. Lindholm‐Perry, W. T. Oliver, L. A. Kuehn, G. A. Rohrer
Software Mentions: 1
Published: almost 7 years ago

10.1099/mgen.0.000125

Transcriptomic analysis of aerobic respiratory and anaerobic photosynthetic states in Rhodobacter capsulatus and their modulation by global redox regulators RegA, FnrL and CrtJ
Cited by: 12
Author(s): Joseph E. Kumka, Heidi S. Schindel, Mingxu Fang, Sébastien Zappa, Carl E. Bauer
Software Mentions: 1
Published: about 9 years ago

10.1523/ENEURO.0208-17.2017

Genetic Pathways of Neuroregeneration in a Novel Mild Traumatic Brain Injury Model in Adult Zebrafish
Cited by: 25
Author(s): Amanda L. Maheras, Brian Dix, Olivia M. S. Carmo, Aleena Young, Vanessa N. Gill, Julia Sun, Aleah R. Booker, Helen A. Thomason, Anastasia E. Ibrahim, Lauren Stanislaw, Jennifer C. Dallego, Cat N. Ngo, Audrey Chen, Barbara K. Fortini, Rory Spence
Software Mentions: 1
Published: almost 9 years ago

10.1099/mgen.0.000462

Transcriptomics reveal core activities of the plant growth-promoting bacterium Delftia acidovorans RAY209 during interaction with canola and soybean roots
Cited by: 4
Author(s): Danae M. Suchan, Jordyn Bergsveinson, Lori A. Manzon, Alexa J. Pierce, Yuriy Kryachko, Darren R. Korber, Yifang Tan, Dinah D. Tambalo, Nurul H. Khan, Michael L. Whiting, Christopher K. Yost
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2020.00310

A Primer for Microbiome Time-Series Analysis
Cited by: 39
Author(s): Ashley R. Coenen, Sarah K. Hu, Elaine Luo, Daniel Muratore, Joshua S. Weitz
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2020.587559

Identification of Candidate Circular RNAs Underlying Intramuscular Fat Content in the Donkey
Cited by: 16
Author(s): Bojiang Li, Chunyu Feng, Shiyu Zhu, Junpeng Zhang, David M. Irwin, Xiaoying Zhang, Zhe Wang, Shuyi Zhang
Software Mentions: 1
Published: almost 6 years ago

10.3389/fgene.2019.00160

Identification and Functional Prediction of Long Intergenic Non-coding RNAs Related to Subcutaneous Adipose Development in Pigs
Cited by: 6
Author(s): Gaoli Shi, Lin Chen, Guoting Chen, Cheng Zou, Jingxuan Li, Mengxun Li, Fang Cui, Changchun Li
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-45451-1

In-depth analysis of swim bladder-associated microbiota in rainbow trout (Oncorhynchus mykiss)
Cited by: 14
Author(s): Alejandro Villasante, C. Ramı́rez, Héctor Rodríguez, Natalia Catalán, Osmán Díaz, Rodrigo Rojas, Rafael Opazo, Jaime Romero
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2020.00185

Integrated Analysis of the Functions and Prognostic Values of RNA Binding Proteins in Lung Squamous Cell Carcinoma
Cited by: 38
Author(s): Wei Li, Li Xue, Lina Gao, Chongge You
Software Mentions: 1
Published: over 6 years ago

10.15252/emmm.201505088

Retracted: Haemophilus influenzae responds to glucocorticoids used in asthma therapy by modulation of biofilm formation and antibiotic resistance
Cited by: 19
Author(s): Chris Earl, Teh Wooi Keong, Shi-Qi An, Sarah Murdoch, Yvonne McCarthy, Junkal Garmendia, Joseph Ward, J. Maxwell Dow, Liang Yang, George A. O’Toole, Robert P. Ryan
Software Mentions: 1
Published: over 11 years ago

10.1038/s41598-019-45047-9

Transcriptomic analysis of 3D Cardiac Differentiation of Human Induced Pluripotent Stem Cells Reveals Faster Cardiomyocyte Maturation Compared to 2D Culture
Cited by: 71
Author(s): Mariana A. Branco, João P. Cotovio, Carlos Alberto Chirano Rodrigues, Sandra H. Vaz, Tiago G. Fernandes, Leonilde M. Moreira, Joaquim M. S. Cabral, Maria Margarida Diogo
Software Mentions: 1
Published: over 7 years ago

10.15252/emmm.201809976

<scp>ADAM</scp> 17 selectively activates the <scp>IL</scp> ‐6 trans‐signaling/ <scp>ERK MAPK</scp> axis in <scp>KRAS</scp> ‐addicted lung cancer
Cited by: 58
Author(s): Mohamed I. Saad, Sultan Alhayyani, Louise McLeod, Liang Yu, Mohammad Alanazi, Virginie Deswaerte, Ke Tang, Thierry Jardé, Julian A. Smith, Zdenka Prodanovic, Michelle D. Tate, Jesse J. Balic, D. Neil Watkins, Jason E. Cain, Steven Bozinovski, Elizabeth Algar, Tomohiro Kohmoto, Hiromichi Ebi, Walter Ferlin, Christoph Garbers, Saleela Ruwanpura, Irit Sagi, Stefan Rose‐John, Brendan J. Jenkins
Software Mentions: 1
Published: over 7 years ago

10.3390/nu11102310

Loss of Diurnal Oscillatory Rhythms in Gut Microbiota Correlates with Changes in Circulating Metabolites in Type 2 Diabetic db/db Mice
Cited by: 35
Author(s): Eleni Beli, Samantha Prabakaran, Preethi Krishnan, Carmella Evans‐Molina, Maria B. Grant
Software Mentions: 1
Published: about 7 years ago

10.15252/embj.2019101552

Hyperoxidation of mitochondrial peroxiredoxin limits H 2 O 2 ‐induced cell death in yeast
Cited by: 42
Author(s): Gaetano Calabrese, Esra Peker, Prince Saforo Amponsah, Martin Hoehne, Trine Riemer, Marie Mai, Gerd Patrick Bienert, Marcel Deponte, Bruce Morgan, Jan Riemer
Software Mentions: 1
Published: over 7 years ago

10.15252/embj.2019101533

Distinct IL‐1α‐responsive enhancers promote acute and coordinated changes in chromatin topology in a hierarchical manner
Cited by: 19
Author(s): Sinah-Sophia Weiterer, Johanna Meier-Soelch, Theodore Georgomanolis, Athanasia Mizi, Anna Beyerlein, H. Weiser, Lilija Brant, Christin Mayr-Buro, Liane Jurida, Knut Beuerlein, H.‐Arno J. Müller, Axel Weber, Ulas Tenekeci, Oliver Dittrich–Breiholz, Marek Bartkuhn, Andrea Nist, Thorsten Stiewe, Wilfred F. J. van IJcken, Tabea Riedlinger, M. Lienhard Schmitz, Argyris Papantonis, Michael Kracht
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-019-46143-6

Clostridioides difficile LuxS mediates inter-bacterial interactions within biofilms
Cited by: 31
Author(s): Ross T. Slater, Lucy R. Frost, Sian Jossi, Andrew Millard, Meera Unnikrishnan
Software Mentions: 1
Published: over 7 years ago

10.1186/s13550-019-0519-4

PET imaging of hepatocellular carcinoma with anti-1-amino-3-[18F]fluorocyclobutanecarboxylic acid in comparison with l-[S-methyl-11C]methionine
Cited by: 2
Author(s): О. Н. Сергеева, Yifan Zhang, Jonathan Kenyon, Galen Miller‐Atkins, Chunying Wu, Renuka Iyer, Sandra Sexton, Patrick Wojtylak, Amad Awadallah, Xin Wei, E. Ricky Chan, James K. O’Donnel, Zhenghong Lee
Software Mentions: 1
Published: over 7 years ago

10.1080/10717544.2021.1986604

Alginate nanogels-based thermosensitive hydrogel to improve antidepressant-like effects of albiflorin via intranasal delivery
Cited by: 12
Author(s): Dong Xu, Tao Qiao, Yue Wang, Qiang-Song Wang, Yuan‐Lu Cui
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-019-46841-1

Changes in nuclear and cytoplasmic microRNA distribution in response to hypoxic stress
Cited by: 53
Author(s): Tiia A. Turunen, Thomas C. Roberts, Pia Laitinen, Mari-Anna Väänänen, Paula Korhonen, Tarja Malm, Seppo Ylä‐Herttuala, Mikko P. Turunen
Software Mentions: 1
Published: over 7 years ago

10.1242/dmm.022848

Spontaneous shaker rat mutant – a new model for X-linked tremor-ataxia
Cited by: 13
Author(s): Karla P. Figueroa, Sharan Paul, Tito Calì, Raffaele Lopreiato, Sukanya Karan, Martina Frizzarin, Darren Ames, Ginevra Zanni, Marisa Brini, Warunee Dansithong, Brett Milash, Daniel R. Scoles, Ernesto Carafoli, Stefan M. Pulst
Software Mentions: 1
Published: almost 11 years ago

10.1038/s41598-019-46966-3

Transcriptome analysis identifies a robust gene expression program in the mouse intestinal epithelium on aging
Cited by: 9
Author(s): Juri Kazakevych, Elena Stoyanova, Anke Liebert, Patrick Varga‐Weisz
Software Mentions: 1
Published: over 7 years ago

10.1242/dmm.047779

RET inhibition in novel patient-derived models of RET fusion- positive lung adenocarcinoma reveals a role for MYC upregulation
Cited by: 10
Author(s): Takuo Hayashi, Igor Odintsov, Roger S. Smith, Kota Ishizawa, Allan J.W. Liu, Lukas Delasos, Christopher Kurzatkowski, Hui-Chun Tai, Eric Gladstone, Morana Vojnic, Shinji Kohsaka, Ken Suzawa, Zebing Liu, Siddharth Kunte, Marissa S. Mattar, Inna Khodos, Monika A. Davare, Alexander Drilon, Emily H. Cheng, Elisa de Stanchina, Marc Ladanyi, Romel Somwar
Software Mentions: 1
Published: almost 6 years ago

10.1242/dmm.021790

Phenotypic chemical screening using zebrafish neural crest reporters identifies retinoid acid as an inhibitor of epithelial morphogenesis
Cited by: 23
Author(s): Laura Jiménez, Jindong Wang, Monique Morrison, Clifford J. Whatcott, Katherine K. Soh, Steven L. Warner, David J. Bearss, Cicely Jette, Rodney A. Stewart
Software Mentions: 1
Published: almost 11 years ago

10.1242/dmm.020719

Interplay among transcription factors Ets21c, Fos and Ftz-F1 drives JNK-mediated tumor malignancy
Cited by: 66
Author(s): Eva Külshammer, Juliane Mundorf, Merve Kilinc, Peter Frommolt, Prerana Wagle, Mirka Uhlířová
Software Mentions: 1
Published: almost 12 years ago

10.1038/s41598-019-47444-6

Functionalization of Brain Region-specific Spheroids with Isogenic Microglia-like Cells
Cited by: 112
Author(s): Liqing Song, Xuegang Yuan, Zachary Jones, Cynthia Vied, Miao Yu, Mark Marzano, Thien Hua, Qing‐Xiang Amy Sang, Jingjiao Guan, Teng Ma, Yi Zhou, Yan Li
Software Mentions: 1
Published: over 7 years ago

10.1242/dmm.049103

Activation of innate immunity during development induces unresolved dysbiotic inflammatory gut and shortens lifespan
Cited by: 8
Author(s): Kyoko Yamashita, Ayano Oi, Hina Kosakamoto, Teruaki Yamauchi, Hibiki Kadoguchi, Takayuki Kuraishi, Masayuki Miura, Fumiaki Obata
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-019-47737-w

The TM6SF2 E167K genetic variant induces lipid biosynthesis and reduces apolipoprotein B secretion in human hepatic 3D spheroids
Cited by: 73
Author(s): Sebastian Prill, Andrea Caddeo, Guido Baselli, Oveis Jamialahmadi, Paola Dongiovanni, Raffaela Rametta, Kajsa P. Kanebratt, Arturo Pujia, Piero Pingitore, Rosellina Margherita Mancina, Daniel Lindén, Carl Whatling, Annika Janefeldt, Mikael Kozyra, Magnus Ingelman‐Sundberg, Luca Valenti, Tommy Andersson, Stefano Romeo
Software Mentions: 1
Published: over 7 years ago

10.1099/mgen.0.000200

Transcriptome analysis of Azospirillum brasilense vegetative and cyst states reveals large-scale alterations in metabolic and replicative gene expression
Cited by: 8
Author(s): Elizabeth A. Malinich, Carl E. Bauer
Software Mentions: 1
Published: over 8 years ago

10.1242/dmm.044990

Disturbed NO signalling gives rise to congenital bicuspid aortic valve and aortopathy
Cited by: 8
Author(s): Joshua C. Peterson, Lambertus J. Wisse, Valerie Wirokromo, Tessa van Herwaarden, Anke M. Smits, Adriana C. Gittenberger‐de Groot, Marie‐José Goumans, J. Conny VanMunsteren, Monique R.M. Jongbloed, Marco C. DeRuiter
Software Mentions: 1
Published: almost 7 years ago

10.1155/2020/7291586

Identification of PDL1-Related Biomarkers to Select Lung Adenocarcinoma Patients for PD1/PDL1 Inhibitors
Cited by: 7
Author(s): Yanping Wu, Lin Li, Xinmin Liu
Software Mentions: 1
Published: over 6 years ago

10.3390/diagnostics10030163

Microbiome Profile of Deep Endometriosis Patients: Comparison of Vaginal Fluid, Endometrium and Lesion
Cited by: 40
Author(s): Camila Hernandes, Paola Paz Silveira, Aline Fernanda Rodrigues Sereia, Ana Paula Christoff, Helen Mendes, Luiz Felipe Valter de Oliveira, Sérgio Podgaec
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-019-48991-8

Blocked O-GlcNAc cycling disrupts mouse hematopoeitic stem cell maintenance and early T cell development
Cited by: 26
Author(s): Lara K. Abramowitz, Christelle Harly, Arundhoti Das, Avinash Bhandoola, John A. Hanover
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-019-48768-z

Microbiomic differences at cancer-prone oral mucosa sites with marijuana usage
Cited by: 10
Author(s): Taylor Newman, Laya P. Krishnan, Jessica Lee, Guy R. Adami
Software Mentions: 1
Published: about 7 years ago

10.3390/diagnostics11040729

miRNAs and Their Gene Targets—A Clue to Differentiate Pregnancies with Small for Gestational Age Newborns, Intrauterine Growth Restriction, and Preeclampsia
Cited by: 3
Author(s): Timofeeva A.V. Timofeeva, Ivan S. Fedorov, Alexander G. Brzhozovskiy, А. Е. Бугрова, Vitaliy Chagovets, М. В. Волочаева, Natalia Starodubtseva, Vladimir Frankevich, Evgeny N. Nikolaev, Roman Shmakov, Г. Т. Сухих
Software Mentions: 1
Published: over 5 years ago

10.1186/s13098-017-0261-x

Worse inflammatory profile in omnivores than in vegetarians associates with the gut microbiota composition
Cited by: 68
Author(s): Ana Carolina Franco de Moraes, Bianca de Almeida-Pititto, Gabriel da Rocha Fernandes, Eduardo Nardini Gomes, Alexandre da Costa Pereira, Sandra Roberta Gouvêa Ferreira
Software Mentions: 1
Published: over 9 years ago

10.1242/dev.184036

Smad4-dependent morphogenic signals control the maturation and axonal targeting of basal vomeronasal sensory neurons to the accessory olfactory bulb
Cited by: 9
Author(s): Ankana S. Naik, Jennifer M. Lin, Ed Zandro M. Taroc, Raghu Ram Katreddi, Jesús Frías, Alex A Lemus, Morgan A. Sammons, Paolo E. Forni
Software Mentions: 1
Published: over 6 years ago

10.3390/ijms22031390

Novel Identified Circular Transcript of RCAN2, circ-RCAN2, Shows Deviated Expression Pattern in Pig Reperfused Infarcted Myocardium and Hypoxic Porcine Cardiac Progenitor Cells In Vitro
Cited by: 4
Author(s): Julia Mester-Tonczar, Patrick Einzinger, Johannes Winkler, Nina Kastner, Andreas Spannbauer, Katrin Zlabinger, Denise Traxler, Dominika Lukovic, Ena Hašimbegović, Georg Goliasch, Noémi Pávó, Mariann Gyöngyösi
Software Mentions: 1
Published: almost 6 years ago

10.1242/dev.189373

Functional evidence that Activin/Nodal signaling is required for establishing the dorsal-ventral axis in the annelid Capitella teleta
Cited by: 14
Author(s): Alexis R. Lanza, Elaine C. Seaver
Software Mentions: 1
Published: about 6 years ago

10.1242/dev.194670

PRDM16 regulates a temporal transcriptional program to promote progression of cortical neural progenitors
Cited by: 4
Author(s): Li He, Jennifer Jones, Weiguo He, Bryan C. Bjork, Jiayu Wen, Qigen Dai
Software Mentions: 1
Published: over 5 years ago

10.1128/mSystems.00289-19

Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples
Cited by: 54
Author(s): Sonia Tarallo, Giulio Ferrero, Gaetano Gallo, A. Francavilla, Giuseppe Clerico, A. Realis Luc, Paolo Manghi, Andrew Maltez Thomas, Paolo Víneis, Nicola Segata, Barbara Pardini, Alessio Naccarati, Francesca Cordero
Software Mentions: 1
Published: about 7 years ago

10.1242/dev.163014

Niche-mediated BMP/SMAD signaling regulates lung alveolar stem cell proliferation and differentiation
Cited by: 174
Author(s): Mei-I Chung, Melissa Bujnis, Christina E. Barkauskas, Yoshihiko Kobayashi, Brigid L.M. Hogan
Software Mentions: 1
Published: over 8 years ago

10.1264/jsme2.ME16158

Bacterial Microbiota Associated with the Glacier Ice Worm Is Dominated by Both Worm-Specific and Glacier-Derived Facultative Lineages
Cited by: 11
Author(s): Takumi Murakami, Tomio Segawa, Roman Dial, Nozomu Takeuchi, Shiro Kohshima, Yuichi Hongoh
Software Mentions: 1
Published: almost 10 years ago

10.1128/mSystems.00584-19

Regulatory Noncoding Small RNAs Are Diverse and Abundant in an Extremophilic Microbial Community
Cited by: 10
Author(s): Diego Rivera Gelsinger, Gherman Uritskiy, Rahul Reddy, Adam Munn, Katie Farney, Jocelyne DiRuggiero
Software Mentions: 1
Published: almost 7 years ago

10.1002/dvdy.253

Hypoxia inducible factor‐2α importance for migration, proliferation, and self‐renewal of trunk neural crest cells
Cited by: 16
Author(s): Camilla U. Niklasson, Elina Fredlund, Emanuela Monni, Jessica M. Lindvall, Zaal Kokaia, Emma U. Hammarlund, Marianne E. Bronner, Sofie Mohlin
Software Mentions: 1
Published: about 6 years ago

10.1016/j.devcel.2021.07.011

Extremely rapid and reversible optogenetic perturbation of nuclear proteins in living embryos
Cited by: 15
Author(s): Anna C Kögler, Yacine Kherdjemil, Katharina Bender, Adam Rabinowitz, Raquel Marco-Ferreres, Eileen E. M. Furlong
Software Mentions: 1
Published: over 5 years ago

10.1016/j.devcel.2019.04.033

Stem Cell Proliferation Is Kept in Check by the Chromatin Regulators Kismet/CHD7/CHD8 and Trr/MLL3/4
Cited by: 21
Author(s): Louis Gervais, Marius van den Beek, Manon Josserand, Jeremy Sallé, Marine Stefanutti, Carolina N. Perdigoto, Patricia Skorski, Khalil Mazouni, Owen J. Marshall, Andrea H. Brand, François Schweisguth, Allison J. Bardin
Software Mentions: 1
Published: over 7 years ago

10.1016/j.devcel.2018.09.023

Cell Cycle Heterogeneity Can Generate Robust Cell Type Proportioning
Cited by: 26
Author(s): Nicole Gruenheit, Katie Parkinson, Christopher A. Brimson, Satoshi Kuwana, Edward J. Johnson, Koki Nagayama, Jack Llewellyn, William Salvidge, Balint Stewart, Thomas Keller, Wouter van Zon, Simon L. Cotter, Christopher Thompson
Software Mentions: 1
Published: about 8 years ago

10.1128/mSystems.00070-20

Transcriptomic Study of Substrate-Specific Transport Mechanisms for Iron and Carbon in the Marine Copiotroph Alteromonas macleodii
Cited by: 19
Author(s): Lauren E. Manck, Josh L. Espinoza, Christopher L. Dupont, Katherine A. Barbeau
Software Mentions: 1
Published: over 6 years ago

10.3390/dj6040058

Substantial Differences in the Subgingival Microbiome Measured by 16S Metagenomics According to Periodontitis Status in Older Women
Cited by: 11
Author(s): Michael J. LaMonte, Robert J. Genco, Wei Zheng, Daniel McSkimming, Chris Andrews, Kathleen M. Hovey, Lü Li, Yijun Sun, Michael Buck, Amy E. Millen, Karen L. Falkner, Jean Wactawski‐Wende
Software Mentions: 1
Published: about 8 years ago

10.1093/database/baw030

Genic insights from integrated human proteomics in GeneCards
Cited by: 114
Author(s): Simon Fishilevich, Shahar Zimmerman, Asher Kohn, Tsippi Iny Stein, Tsviya Olender, Eugene Kolker, Marilyn Safran, Doron Lancet
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12934-021-01624-0

Expression of antibody fragments in Saccharomyces cerevisiae strains evolved for enhanced protein secretion
Cited by: 17
Author(s): Yanyan Wang, Xiaowei Li, Xin Chen, Jens Nielsen, Dina Petranović, Verena Siewers
Software Mentions: 1
Published: over 5 years ago

10.1016/j.dib.2019.104050

mRNA expression data in breast cancers before and after consumption of walnut by women
Cited by: 10
Author(s): W. Elaine Hardman, Donald A. Primerano, Mary Legenza, James D. Morgan, Jun Fan, James Denvir
Software Mentions: 1
Published: over 7 years ago

10.1016/j.dib.2016.05.051

Dataset for transcriptional response of barley (Hordeum vulgare) exposed to drought and subsequent re-watering
Cited by: 5
Author(s): Filip Kokáš, Petr Vojta, Petr Galuszka
Software Mentions: 1
Published: about 10 years ago

10.1016/j.dib.2019.104372

RNA sequencing data of human prostate cancer cells treated with androgens
Cited by: 16
Author(s): Raghavendra Tejo Karthik Poluri, Charles Joly Beauparlant, Arnaud Droit, Étienne Audet-Walsh
Software Mentions: 1
Published: over 7 years ago

10.1016/j.dib.2020.105415

RNA sequencing data describing transcriptional changes in aorta of ApoE-/- mice after alpha 7 nicotinic acetylcholine receptor (α7nAChR) stimulation
Cited by: 0
Author(s): Marcus A. Ulleryd, Filip Mjörnstedt, Dimitra Panagaki, Li Jin Yang, Kajsa Engevall, Saray Gutiérrez, Yixin Wang, Li‐Ming Gan, Holger Nilsson, Erik Michaëlsson, Maria Johansson
Software Mentions: 1
Published: over 6 years ago

10.3390/cells9040987

FTO Intronic SNP Strongly Influences Human Neck Adipocyte Browning Determined by Tissue and PPARγ Specific Regulation: A Transcriptome Analysis
Cited by: 23
Author(s): Beáta Tóth, Rini Arianti, Abhirup Shaw, Attila Vámos, Zoltán Veréb, Szilárd Póliska, Ferenc Győry, Zsolt Bacsó, László Fésüs, Endre Kristóf
Software Mentions: 1
Published: over 6 years ago

10.3390/cells10030522

Role of Heme-Oxygenase-1 in Biology of Cardiomyocytes Derived from Human Induced Pluripotent Stem Cells
Cited by: 4
Author(s): Mateusz Jeż, Alicja Martyniak, Kalina Andrysiak, Olga Mucha, Krzysztof Szade, Alan Kania, Łukasz Chrobok, Katarzyna Palus-Chramiec, Anna Magdalena Sanetra, M.H. Lewandowski, Ewelina Pośpiech, Jacek Stępniewski, Józef Dulak
Software Mentions: 1
Published: over 5 years ago

10.3390/cells10082011

The Role of Galanin during Bacterial Infection in Larval Zebrafish
Cited by: 1
Author(s): Natalia Nowik, Tomasz K. Prajsnar, A. Przyborowska, Krzysztof Rakus, Waldemar Sienkiewicz, Herman P. Spaink, Piotr Podlasz
Software Mentions: 1
Published: over 5 years ago

10.1186/s12934-019-1072-6

Heterologous phosphoketolase expression redirects flux towards acetate, perturbs sugar phosphate pools and increases respiratory demand in Saccharomyces cerevisiae
Cited by: 22
Author(s): Alexandra Linda Bergman, John Hellgren, Thomas Moritz, Verena Siewers, Jens Nielsen, Yun Chen
Software Mentions: 1
Published: almost 8 years ago

10.3390/biom11050677

Unravelling the Molecular Mechanisms Underlying the Protective Effect of Lactate on the High-Pressure Resistance of Listeria monocytogenes
Cited by: 5
Author(s): Cristina Serra-Castelló, Ilario Ferrocino, Anna Jofré, Luca Simone Cocolin, Sara Bover‐Cid, Kalliopi Rantsiou
Software Mentions: 1
Published: over 5 years ago

10.1016/j.stem.2018.07.002

Phospho-regulation of ATOH1 Is Required for Plasticity of Secretory Progenitors and Tissue Regeneration
Cited by: 68
Author(s): Goran Tomić, Edward Morrissey, Sarah Kozar, Shani Ben‐Moshe, Alice Hoyle, Roberta Azzarelli, Richard Kemp, Chandra Sekhar Reddy Chilamakuri, Shalev Itzkovitz, Anna Philpott, Douglas J. Winton
Software Mentions: 1
Published: about 8 years ago

10.1016/j.stem.2018.05.001

Exit from Naive Pluripotency Induces a Transient X Chromosome Inactivation-like State in Males
Cited by: 31
Author(s): Elsa Joana Sousa, Hannah Stuart, Lawrence E. Bates, Mohammadmersad Ghorbani, Jennifer Nichols, Sabine Dietmann, José C.R. Silva
Software Mentions: 1
Published: over 8 years ago

10.1038/s41422-020-0338-1

Three-dimensional bioprinted glioblastoma microenvironments model cellular dependencies and immune interactions
Cited by: 135
Author(s): Min Tang, Qi Xie, Ryan C. Gimple, Zheng Zhong, Trevor Tam, Jing Tian, Reilly L. Kidwell, Qiulian Wu, Briana C. Prager, Zhixin Qiu, Aaron Yu, Zhe Zhu, Pinar Mesci, Hui Jing, Jacob Schimelman, Pengrui Wang, Derrick Lee, Michael H. Lorenzini, Deobrat Dixit, Linjie Zhao, Shruti Bhargava, Tyler E. Miller, Xueyi Wan, Jing Tang, Bingjie Sun, Benjamin F. Cravatt, Alysson R. Muotri, Shaochen Chen, Jeremy Rich
Software Mentions: 1
Published: over 6 years ago

10.1016/j.xcrm.2021.100206

Effects of Lactobacillus reuteri supplementation on the gut microbiota in extremely preterm infants in a randomized placebo-controlled trial
Cited by: 28
Author(s): Magalí Martí, Johanne E. Spreckels, Purnika Damindi Ranasinghe, Erik Wejryd, Giovanna Marchini, Eva Sverremark-Ekström, Maria C. Jenmalm, Thomas Abrahamsson
Software Mentions: 1
Published: over 5 years ago

10.1016/j.xcrm.2021.100239

Transcriptional firing represses bactericidal activity in cystic fibrosis airway neutrophils
Cited by: 21
Author(s): Camilla Margaroli, Diego Moncada Giraldo, Dalia Gulick, Brian Dobosh, Vincent D. Giacalone, Osric Forrest, Fangxu Sun, C.D. Gu, Amit Gaggar, Haydn Kissick, Ronghu Wu, Greg Gibson, Rabindra Tirouvanziam
Software Mentions: 1
Published: over 5 years ago

10.1186/s12934-018-0993-9

Mutational Mtc6p attenuates autophagy and improves secretory expression of heterologous proteins in Kluyveromyces marxianus
Cited by: 12
Author(s): Yang Liu, Wenjuan Mo, Tianfang Shi, Mengzhu Wang, Jungang Zhou, Yao Yu, Wen-Shan Yew, Hong Lü
Software Mentions: 1
Published: about 8 years ago

10.1016/j.celrep.2017.06.091

Dual RNA Processing Roles of Pat1b via Cytoplasmic Lsm1-7 and Nuclear Lsm2-8 Complexes
Cited by: 32
Author(s): Caroline Vindry, Aline Marnef, Helen Broomhead, Laure Twyffels, Sevim Ozgur, Georg Stoecklin, Miriam Llorian, Christopher C.W. Smith, Juan Mata, Dominique Weil, Nancy Standart
Software Mentions: 1
Published: over 9 years ago

10.3390/ijms22041670

C1q/TNF-Related Protein 3 (CTRP-3) Deficiency of Adipocytes Affects White Adipose Tissue Mass but Not Systemic CTRP-3 Concentrations
Cited by: 5
Author(s): Andreas Schmid, M Roderfeld, Jonas Gehl, Elke Roeb, Andrea Nist, Ho‐Ryun Chung, Thorsten Stiewe, Thomas Karrasch, Andréas Schäffler
Software Mentions: 1
Published: almost 6 years ago

10.1128/mSystems.00855-20

Role of VapBC12 Toxin-Antitoxin Locus in Cholesterol-Induced Mycobacterial Persistence
Cited by: 15
Author(s): Sakshi Talwar, Manitosh Pandey, Chandresh Sharma, Rintu Kutum, Josephine Lum, Daniel Carbajo, Renu Goel, Michael Poidinger, Debasis Dash, Amit Singhal, Amit Pandey
Software Mentions: 1
Published: almost 6 years ago

10.1128/mSystems.00842-20

Discovery of Euryhaline Phycoerythrobilin-Containing Synechococcus and Its Mechanisms for Adaptation to Estuarine Environments
Cited by: 5
Author(s): Xiaomin Xia, Puiyin Lee, Shunyan Cheung, Yanhong Lu, Hongbin Liu
Software Mentions: 1
Published: almost 6 years ago

10.1111/1751-7915.13343

Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation
Cited by: 11
Author(s): Zongjin Li, Qing Pan, Yunzhu Xiao, Xingxing Fang, Ruoping Shi, Chunxiang Fu, Antoine Danchin, Chenjiang You
Software Mentions: 1
Published: almost 8 years ago

10.1128/mSystems.00230-20

Twists and Turns in the Salicylate Catabolism of Aspergillus terreus , Revealing New Roles of the 3-Hydroxyanthranilate Pathway
Cited by: 6
Author(s): Tiago M. Martins, Celso Martins, Paula Guedes, Cristina Silva Pereira
Software Mentions: 1
Published: over 5 years ago

10.1016/j.celrep.2020.108460

Master Regulators and Cofactors of Human Neuronal Cell Fate Specification Identified by CRISPR Gene Activation Screens
Cited by: 32
Author(s): Joshua B. Black, Sean R. McCutcheon, Shataakshi Dube, Alejandro Barrera, Tyler S. Klann, Grayson A. Rice, Shaunak S. Adkar, Scott H. Soderling, Timothy E. Reddy, Charles A. Gersbach
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.celrep.2020.108278

PPARα Inhibition Overcomes Tumor-Derived Exosomal Lipid-Induced Dendritic Cell Dysfunction
Cited by: 72
Author(s): Xiaozhe Yin, Wenfeng Zeng, Bowen Wu, Luoyang Wang, Zihao Wang, Hongjian Tian, Luyao Wang, Yunhan Jiang, Ricky P. Clay, Xiuli Wei, Qin Yan, Fayun Zhang, Chunyu Zhang, Lingtao Jin, Wei Liang
Software Mentions: 1
Published: about 6 years ago

10.1016/j.celrep.2021.109233

Probing the signaling requirements for naive human pluripotency by high-throughput chemical screening
Cited by: 24
Author(s): Shafqat Ali Khan, Kyoung Mi Park, Laura A. Fischer, Chen Dong, Tenzin Lungjangwa, Marta Jiménez, Dominick Casalena, Brian Chew, Sabine Dietmann, Douglas S. Auld, Rudolf Jaenisch, Thorold W. Theunissen
Software Mentions: 1
Published: over 5 years ago

10.1016/j.celrep.2015.11.026

Regulation of mRNA Levels by Decay-Promoting Introns that Recruit the Exosome Specificity Factor Mmi1
Cited by: 65
Author(s): Cornelia Kilchert, Sina Wittmann, Monica Passoni, Sneha Shah, Sander Granneman, Lidia Vasiljeva
Software Mentions: 1
Published: almost 11 years ago

10.1111/1751-7915.13738

Transcriptional profiling of the stringent response mutant strain E. coli SR reveals enhanced robustness to large‐scale conditions
Cited by: 2
Author(s): Martin Ziegler, Julia Zieringer, Ralf Takors
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms22042181

Altered Expression of OsAAP3 Influences Rice Lesion Mimic and Leaf Senescence by Regulating Arginine Transport and Nitric Oxide Pathway
Cited by: 12
Author(s): Qilang Wei, Zhenwei Yan, Yifan Xiong, Zhongming Fang
Software Mentions: 1
Published: over 5 years ago

10.1016/j.celrep.2017.07.009

Single-Cell Landscape of Transcriptional Heterogeneity and Cell Fate Decisions during Mouse Early Gastrulation
Cited by: 261
Author(s): Hisham Mohammed, Irene Hernando-Herraez, Aurora Savino, Antonio Scialdone, Iain C. Macaulay, Carla Mulas, Tamir Chandra, Thierry Voet, Wendy Dean, Jennifer Nichols, John C. Marioni, Wolf Reik
Software Mentions: 1
Published: over 9 years ago

10.3390/metabo11090601

A Role for Inositol Pyrophosphates in the Metabolic Adaptations to Low Phosphate in Arabidopsis
Cited by: 10
Author(s): Eric Land, Caitlin Cridland, Branch Craige, Anna Dye, Sherry B. Hildreth, Rich F. Helm, Glenda E. Gillaspy, Imara Y. Perera
Software Mentions: 1
Published: about 5 years ago

10.1016/j.celrep.2018.01.054

Chloroplast Signaling Gates Thermotolerance in Arabidopsis
Cited by: 71
Author(s): Patrick Dickinson, Manoj Kumar, Cláudia Martinho, Seong Jeon Yoo, Hui Y. Lan, George Artavanis, Varodom Charoensawan, Mark Aurel Schöttler, Ralph Bock, Katja E. Jaeger, Philip A. Wigge
Software Mentions: 1
Published: almost 9 years ago

10.1111/cpr.12836

ITGBL1 promotes cell migration and invasion through stimulating the TGF‐β signalling pathway in hepatocellular carcinoma
Cited by: 26
Author(s): Wei Huang, Demin Yu, Mingjie Wang, Yue Han, Junyu Lin, Dong Wei, Jialin Cai, Bin Li, Peizhan Chen, Xinxin Zhang
Software Mentions: 1
Published: over 6 years ago

10.1111/cpr.12872

Dibenzazepine promotes cochlear supporting cell proliferation and hair cell regeneration in neonatal mice
Cited by: 4
Author(s): Jing Wu, Xinran Dong, Wen Li, Liping Zhao, Li Zhou, Shan Sun, Huawei Li
Software Mentions: 1
Published: over 6 years ago

Projects: bioconductor: DESeq2

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Papers Mentioning DESeq2 9,583