Ecosyste.ms: Papers

10.1099/mgen.0.000131

ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads
Cited by: 370
Author(s): Martin Hunt, Alison E. Mather, Leonor Sánchez-Busó, Andrew J. Page, Julian Parkhill, Jacqueline A. Keane, Simon R. Harris
Software Mentions: 12
Published: about 7 years ago

10.1038/srep26136

SOX7 co-regulates Wnt/β-catenin signaling with Axin-2: both expressed at low levels in breast cancer
Cited by: 25
Author(s): Huidi Liu, Emilio Mastriani, Zi-Qiao Yan, Shuai Yin, Zheng Zeng, Hong Wang, Qinghai Li, Hongyu Liu, Xiaoyu Wang, Hongchu Bao, Yujie Zhou, Junjie Kou, Dongsheng Li, Ting Li, Jianrui Liu, Yongfang Liu, Lin Yin, Li Qiu, Liling Gong, Shulin Liu
Software Mentions: 6
Published: over 8 years ago

10.1128/mSphere.00738-20

Genomic Epidemiology and Evolution of <i>Escherichia coli</i> in Wild Animals in Mexico
Cited by: 14
Author(s): Robert S. Murphy, Martin Palm, Ville Mustonen, Jonas Warringer, Anne Farewell, Leopold Parts, Danesh Moradigaravand
Software Mentions: 5
Published: over 3 years ago

10.3389/fpls.2016.00847

De novo Transcriptome Sequencing to Dissect Candidate Genes Associated with Pearl Millet-Downy Mildew (Sclerospora graminicola Sacc.) Interaction
Cited by: 36
Author(s): Kalyani S. Kulkarni, Harshvardhan N. Zala, Tejas C. Bosamia, Yogesh Shukla, Sushil Kumar, R. S. Fougat, Mruduka S. Patel, Narayanan Subhash, Chaitanya G. Joshi
Software Mentions: 4
Published: over 8 years ago

10.7554/eLife.44454

Correlated evolution between repertoire size and song plasticity predicts that sexual selection on song promotes open-ended learning
Cited by: 26
Author(s): Cristina M. Robinson, Kate T. Snyder, Nicole Creanza
Software Mentions: 4
Published: about 5 years ago

10.1038/s41421-019-0103-0

Molecular basis for hierarchical histone de-β-hydroxybutyrylation by SIRT3
Cited by: 64
Author(s): Xingrun Zhang, Ruili Cao, Jinrong Niu, Sen Yang, Huida Ma, Shuai Zhao, Haitao Li
Software Mentions: 3
Published: over 5 years ago

10.1038/s41422-019-0224-x

Sustained Type I interferon signaling as a mechanism of resistance to PD-1 blockade
Cited by: 148
Author(s): Nicolas Jacquelot, Takahiro Yamazaki, María Paula Roberti, Connie P.M. Duong, Miles C. Andrews, Loïc Verlingue, Gladys Ferrere, Sonia Becharef, Marie Vétizou, Romain Daillère, Meriem Messaoudene, David Enot, Gautier Stoll, Stefano Ugel, Ilaria Marigo, Shin Foong Ngiow, Aurélien Marabelle, Armelle Prévost-Blondel, Pierre Olivier Gaudreau, Vancheswaran Gopalakrishnan, Alexander M.M. Eggermont, Paule Opolon, Christophe Klein, Gabriele Madonna, Paolo A. Ascierto, Antje Sucker, Dirk Schadendorf, Mark J. Smyth, Jean Charles Soria, Guido Kroemer, Vincenzo Bronte, Jennifer A. Wargo, Laurence Zitvogel
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pgen.1003323

Plant-Symbiotic Fungi as Chemical Engineers: Multi-Genome Analysis of the Clavicipitaceae Reveals Dynamics of Alkaloid Loci
Cited by: 343
Author(s): Christopher L. Schardl, Carolyn A. Young, Uljana Hesse, Stefan G. Amyotte, Kalina Andreeva, Patrick J. Calie, Damien J. Fleetwood, David Haws, Neil Moore, Birgitt Oeser, Daniel G. Panaccione, Kathryn Schweri, Christine R. Voisey, Mark L. Farman, Jerzy W. Jaromczyk, Bruce A. Roe, Donal M. O’Sullivan, Barry Scott, Paul Tudzynski, Zhiqiang An, Elissaveta G. Arnaoudova, Charles T. Bullock, Nikki D. Charlton, Li Chen, Murray P. Cox, Randy D. Dinkins, Simona Florea, Anthony E. Glenn, Anna Gordon, Ulrich Güldener, Daniel R. Harris, Walter Hollin, Jolanta Jaromczyk, Richard D. Johnson, Anar Khan, Eckhard Leistner, Adrian Leuchtmann, Chunjie Li, Jin Ge Liu, Jinze Liu, Miao Liu, Wade J. Mace, Caroline Machado, Padmaja Nagabhyru, Juan Pan, Jan Schmid, Kazuo Sugawara, Ulrike Steiner, Johanna E. Takach, Eiji Tanaka, James D. Webb, Ella V. Wilson, Jennifer L. Wiseman, Ruriko Yoshida, Zheng Zeng
Software Mentions: 3
Published: over 11 years ago

10.1038/s41598-019-52655-y

Direct, gabapentin-insensitive interaction of a soluble form of the calcium channel subunit α2δ-1 with thrombospondin-4
Cited by: 12
Author(s): Ehab El‐Awaad, Galyna Pryymachuk, Cora Fried, Jan Matthes, Jörg Isensee, Tim Hucho, Wolfram F. Neiss, Mats Paulsson, Stefan Herzig, Frank Zaucke, Markus Pietsch
Software Mentions: 2
Published: about 5 years ago

10.1186/s12887-016-0571-4

Childhood asthma and physical activity: a systematic review with meta-analysis and Graphic Appraisal Tool for Epidemiology assessment
Cited by: 61
Author(s): Lene Lochte, Kim G. Nielsen, Poul Erik Petersen, Thomas A.E. Platts-Mills
Software Mentions: 2
Published: over 8 years ago

10.1128/MCB.00398-17

Creation of Stable Heterothallic Strains of <i>Komagataella phaffii</i> Enables Dissection of Mating Gene Regulation
Cited by: 19
Author(s): Lina Heistinger, Brigitte Gasser, Diethard Mattanovich
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0229778

Human CD27+ memory B cells colonize a superficial follicular zone in the palatine tonsils with similarities to the spleen. A multicolor immunofluorescence study of lymphoid tissue
Cited by: 11
Author(s): Marie Lettau, Annika Wiedemann, Eva Schrezenmeier, Claudia Giesecke‐Thiel, Thomas Dörner
Software Mentions: 2
Published: over 4 years ago

10.3390/molecules25071655

A Tryptophan Metabolite, 8-Hydroxyquinaldic Acid, Exerts Antiproliferative and Anti-Migratory Effects on Colorectal Cancer Cells
Cited by: 17
Author(s): Katarzyna Walczak, Ewa Langner, Karolina Szalast, Anna Makuch-Kocka, Piotr Pożarowski, Tomasz Plech
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms21218083

Retbindin: A riboflavin Binding Protein, Is Critical for Photoreceptor Homeostasis and Survival in Models of Retinal Degeneration
Cited by: 4
Author(s): Ayse M Genc, Mustafa S. Makia, Tirthankar Sinha, Shannon M. Conley, Muayyad R. Al‐Ubaidi, Muna I. Naash
Software Mentions: 2
Published: about 4 years ago

10.1186/s12974-019-1447-y

Systemic administration of orexin A ameliorates established experimental autoimmune encephalomyelitis by diminishing neuroinflammation
Cited by: 29
Author(s): Laurine Becquet, Catalina Abad, M. Leclercq, Camille Miel, Jean Lesné, Gaétan Riou, Alain Couvineau, Olivier Boyer, Yossan‐Var Tan
Software Mentions: 2
Published: over 5 years ago

10.3390/cancers11091250

Immune Heterogeneity Between Primary Tumors and Corresponding Metastatic Lesions and Response to Platinum Therapy in Primary Ovarian Cancer
Cited by: 15
Author(s): Katharina Dötzer, Friederike Schlüter, Markus Bo Schoenberg, Alexandr V. Bazhin, Franz Edler von Koch, Andreas Schnelzer, S. Anthuber, Dieter Grab, Bastian Czogalla, Alexander Burges, Jens Werner, Sven Mahner, Barbara Mayer
Software Mentions: 2
Published: about 5 years ago

10.1186/s13578-021-00571-y

Cooperative treatment effectiveness of ATR and HSP90 inhibition in Ewing’s sarcoma cells
Cited by: 8
Author(s): Christian Marx, Marc U. Schaarschmidt, Joanna Kirkpatrick, Lisa Marx-Blümel, Melisa Halilovic, Martin Westermann, Doerte Hoelzer, Felix Meyer, Yibo Geng, Katrin Buder, Hauke M. Schadwinkel, Kanstantsin Siniuk, Sabine Becker, René Thierbach, James F. Beck, Jürgen Sonnemann, Zhaoqi Wang
Software Mentions: 2
Published: over 3 years ago

10.3389/fcimb.2020.00461

Mycobacterium tuberculosis Calcium Pump CtpF Modulates the Autophagosome in an mTOR-Dependent Manner
Cited by: 13
Author(s): Rajni Garg, Salik Miskat Borbora, Harsh Bansia, Sandhya Rao, Prakruti R Singh, Rinkee Verma, Kithiganahalli Narayanaswamy Balaji, Valakunja Nagaraja
Software Mentions: 2
Published: about 4 years ago

10.3390/cells9081858

Tissue-Specific Impact of Autophagy Genes on the Ubiquitin–Proteasome System in C. elegans
Cited by: 6
Author(s): Sweta Jha, Carina I. Holmberg
Software Mentions: 2
Published: over 4 years ago

10.3389/fcimb.2019.00180

Bioactivity of Farnesyltransferase Inhibitors Against Entamoeba histolytica and Schistosoma mansoni
Cited by: 9
Author(s): Alexandra Probst, Trong Duc Nguyen, Nelly El-Sakkary, Danielle Skinner, Brian M. Suzuki, Frederick S. Buckner, Michael H. Gelb, Conor R. Caffrey, Anjan Debnath
Software Mentions: 2
Published: over 5 years ago

10.3389/fendo.2017.00253

Culture in Glucose-Depleted Medium Supplemented with Fatty Acid and 3,3′,5-Triiodo-l-Thyronine Facilitates Purification and Maturation of Human Pluripotent Stem Cell-Derived Cardiomyocytes
Cited by: 33
Author(s): Bin Lin, Xianming Lin, Maxine W. Stachel, Elisha Wang, Yan Luo, Joshua M. Lader, Xiaofang Sun, Mario Delmar, Lei Bu
Software Mentions: 2
Published: about 7 years ago

10.1186/s13071-018-2698-7

The Entamoeba histolytica TBP and TRF1 transcription factors are GAAC-box binding proteins, which display differential gene expression under different stress stimuli and during the interaction with mammalian cells
Cited by: 8
Author(s): Ravi Kumar Narayanasamy, Carlos Alberto Castañón-Sánchez, Juan Pedro Luna-Arias, Guillermina Garcı́a-Rivera, Bartolo Avendaño-Borromeo, María Luisa Labra-Barrios, Jesús Valdés, María Esther Herrera-Aguirre, Esther Orozco
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pcbi.1002784

The Ortholog Conjecture Is Untestable by the Current Gene Ontology but Is Supported by RNA Sequencing Data
Cited by: 65
Author(s): Xiaoshu Chen, Jianzhi Zhang
Software Mentions: 2
Published: almost 12 years ago

10.3389/fncir.2018.00035

Parvalbumin and GABA Microcircuits in the Mouse Superior Colliculus
Cited by: 49
Author(s): Claudio Villalobos, Qiong Wu, Psyche H Lee, Paul J. May, Michele A. Basso
Software Mentions: 2
Published: over 6 years ago

10.1074/jbc.RA120.015413

Repurposing p97 inhibitors for chemical modulation of the bacterial ClpB–DnaK bichaperone system
Cited by: 7
Author(s): Przemysław Glaza, C. B. Ranaweera, Sunitha Shiva, Anuradha Roy, Brian V. Geisbrecht, Frank J. Schoenen, Michal Žółkiewski
Software Mentions: 2
Published: almost 4 years ago

10.26508/lsa.202000840

Harnessing reaction-based probes to preferentially target pancreatic β-cells and β-like cells
Cited by: 9
Author(s): Sevim Kahraman, Debasish Manna, Ercument Dirice, Basudeb Maji, Jonnell Small, Beate Wagner, Amit Choudhary
Software Mentions: 2
Published: almost 4 years ago

10.3390/nu13051721

Mediterranean Diet and SARS-COV-2 Infection: Is There Any Association? A Proof-of-Concept Study
Cited by: 18
Author(s): Valentina Ponzo, Marianna Pellegrini, Chiara D’Eusebio, Fabio Bioletto, Ilaria Goitre, Silvio Buscemi, Simone Frea, Ezio Ghigo, Simona Bo
Software Mentions: 1
Published: over 3 years ago

10.1186/1745-6150-1-26

Refuting phylogenetic relationships
Cited by: 16
Author(s): James Bucknam, Yan Boucher, Éric Bapteste
Software Mentions: 1
Published: about 18 years ago

10.3390/biomedicines8090344

Inflammation in Dry Eye Syndrome: Identification and Targeting of Oxylipin-Mediated Mechanisms
Cited by: 6
Author(s): Dmitry V. Chistyakov, Olga Gancharova, Viktoriia E. Baksheeva, Veronika V. Tiulina, Sergei V. Goriainov, Nadezhda V. Azbukina, Marina S. Tsarkova, Andrey A. Zamyatnin, Pavel P. Philippov, Marina G. Sergeeva, Ivan I. Senin, Evgeni Yu Zernii
Software Mentions: 1
Published: about 4 years ago

10.3390/md19010039

Anti-Inflammatory and Analgesic Effects of TRPV1 Polypeptide Modulator APHC3 in Models of Osteo- and Rheumatoid Arthritis
Cited by: 12
Author(s): Yulia A. Logashina, Yu. A. Palikova, В. А. Паликов, В. А. Казаков, Sviatlana Smolskaya, Igor A. Dyachenko, Н.В. Тарасова, Yaroslav A. Andreev
Software Mentions: 1
Published: almost 4 years ago

10.1186/s40168-017-0273-7

Tomato root microbiota and Phytophthora parasitica-associated disease
Cited by: 46
Author(s): Marie Larousse, Corinne Rancurel, Camille Syska, Ferran Palero, Catherine Etienne, Benoît Industri, Xavier Nesme, Marc Bardin, Eric Galiana
Software Mentions: 1
Published: over 7 years ago

10.3390/mi9100524

Automatic Manipulation of Magnetically Actuated Helical Microswimmers in Static Environments
Cited by: 9
Author(s): Jia Liu, Tiantian Xu, Chenyang Huang, Xinyu Wang
Software Mentions: 1
Published: about 6 years ago

10.3897/zookeys.712.20505

The use of low cost compact cameras with focus stacking functionality in entomological digitization projects
Cited by: 12
Author(s): Jan E. J. Mertens, Martijn Van Roie, Jonas Merckx, Wouter Dekoninck
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0136134

Two New Species of Liuixalus (Rhacophoridae, Anura): Evidence from Morphological and Molecular Analyses
Cited by: 1
Author(s): Shaobo Qin, Yunming Mo, Ke Jiang, Bo Cai, Feng Xie, Jianping Jiang, Robert W. Murphy, Jia‐Tang Li, Yuezhao Wang
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0122014

Differential Regulation of Proton-Sensitive Ion Channels by Phospholipids: A Comparative Study between ASICs and TRPV1
Cited by: 13
Author(s): Hae Jin Kweon, Soo‐Young Yu, Dong Il Kim, Byung Chang Suh
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0187979

Functional characterisation of filamentous actin probe expression in neuronal cells
Cited by: 6
Author(s): Shrujna Patel, Sandra Fok, Holly Stefen, Tamara Tomanić, Esmeralda Parić, Rosanna Herold, Merryn Brettle, Aleksandra Buha Djordjević, Thomas Fath
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0202522

CD28 deficiency leads to accumulation of germinal-center independent IgM+ experienced B cells and to production of protective IgM during experimental malaria
Cited by: 4
Author(s): Henrique Borges da Silva, Érika Machado de Salles, Eliana L. Faquim-Mauro, Luiz Roberto Sardinha, José María Álvarez, Maria Regina D'Império Lima
Software Mentions: 1
Published: about 6 years ago

10.1038/cddis.2017.348

Humanin G (HNG) protects age-related macular degeneration (AMD) transmitochondrial ARPE-19 cybrids from mitochondrial and cellular damage
Cited by: 65
Author(s): Sonali Nashine, Pinchas Cohen, Marilyn Chwa, LU Song-nian, Anthony B. Nesburn, Baruch D. Kuppermann, M. Cristina Kenney
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2018.01885

Cxxc Finger Protein 1 Positively Regulates GM-CSF-Derived Macrophage Phagocytosis Through Csf2rα-Mediated Signaling
Cited by: 12
Author(s): Zhaoyuan Hui, Lina Zhou, Zhonghui Xue, Lei Zhou, Yikai Luo, Feng Yen Lin, Xia Liu, Shenghui Hong, Wei Li, Di Wang, Linrong Lu, Jianli Wang, Lie Wang
Software Mentions: 1
Published: about 6 years ago

10.3389/fmicb.2019.01819

Time-Dependent Changes in Morphostructural Properties and Relative Abundances of Contributors in Pleurotus ostreatus/Pseudomonas alcaliphila Mixed Biofilms
Cited by: 6
Author(s): Silvia Crognale, Silvia Rita Stazi, Andrea Firrincieli, Lorena Pesciaroli, Stefano Fedi, Maurizio Petruccioli, Alessandro D’Annibale
Software Mentions: 1
Published: over 5 years ago

10.3389/fpsyt.2014.00085

Interpreting Null Findings from Trials of Alcohol Brief Interventions
Cited by: 27
Author(s): Nick Heather
Software Mentions: 1
Published: over 10 years ago

10.1038/srep18046

Mitotic Spindle Disruption by Alternating Electric Fields Leads to Improper Chromosome Segregation and Mitotic Catastrophe in Cancer Cells
Cited by: 204
Author(s): Moshe Giladi, Rosa S. Schneiderman, Tali Voloshin, Yaara Porat, Mijal Munster, Roni Blat, Shay Sherbo, Zéev Bomzon, Noa Urman, Aviran Itzhaki, Shay Cahal, Anna Shteingauz, Aafia Chaudhry, Eilon D. Kirson, Uri Weinberg, Yoram Palti
Software Mentions: 1
Published: almost 9 years ago

10.1038/s41598-020-64008-1

Caspase dependent apoptosis is required for anterior regeneration in Aeolosoma viride and its related gene expressions are regulated by the Wnt signaling pathway
Cited by: 5
Author(s): Sheridan Ke-Wing Fok, Chiao‐Ping Chen, Tzu-Lun Tseng, Yi-Hua Chiang, Jiun‐Hong Chen
Software Mentions: 1
Published: over 4 years ago

10.3390/s21051662

Consistency of Suspended Particulate Matter Concentration in Turbid Water Retrieved from Sentinel-2 MSI and Landsat-8 OLI Sensors
Cited by: 9
Author(s): Hanghang Wang, Jie Wang, Yuhuan Cui, Shuai Yan
Software Mentions: 1
Published: over 3 years ago

10.1155/2021/6880036

Nicotine Exacerbates TAAD Formation Induced by Smooth Muscle-Specific Deletion of the TGF-β Receptor 2
Cited by: 3
Author(s): Changzoon Chun, Xiaoyan Qi, Fen Wang, Kyle B. Madrid, Lennon Saldarriaga, Max R. Fisch, Mark Brantly, Gilbert R. Upchurch, Zhihua Jiang
Software Mentions: 1
Published: about 3 years ago

10.3390/ijms21041463

WNT3A Promotes Neuronal Regeneration upon Traumatic Brain Injury
Cited by: 14
Author(s): Chu Yuan Chang, Min Zong Liang, Ching Chih Wu, Pei Yuan Huang, Hong I. Chen, Shaw Fang Yet, Jin Wu Tsai, Cheng Fu Kao, Linyi Chen
Software Mentions: 1
Published: over 4 years ago

10.18632/aging.102179

PU-91 drug rescues human age-related macular degeneration RPE cells; implications for AMD therapeutics
Cited by: 10
Author(s): Sonali Nashine, Sudhakar Subramaniam, Marilyn Chwa, Anthony B. Nesburn, Baruch D. Kuppermann, Howard J. Federoff, M. Cristina Kenney
Software Mentions: 1
Published: about 5 years ago