cran: ggplot2 | Projects | Ecosyste.ms: Papers

10.1186/s12915-021-01147-5

Single-cell DNA and RNA sequencing reveals the dynamics of intra-tumor heterogeneity in a colorectal cancer model
Cited by: 13
Author(s): Hisayo Ono, Yasuhito Arai, Eisaku Furukawa, Daichi Narushima, Tetsuya Matsuura, Hiromi Nakamura, Daisuke Shiokawa, Masaya Nagai, Toshio Imai, Koshi Mimori, Koji Okamoto, Yoshitaka Hippo, Tatsuhiro Shibata, Mamoru Kato
Software Mentions: 6
Published: almost 5 years ago

10.1038/s41598-020-80782-4

Individual fate and gut microbiome composition in the European wild rabbit (Oryctolagus cuniculus)
Cited by: 12
Author(s): Gerard Funosas, Xavier Triadó‐Margarit, Francisca Castro, Rafael Villafuerte, Miguel Delibes‐Mateos, Carlos Rouco, Emilio O. Casamayor
Software Mentions: 6
Published: over 5 years ago

10.3390/plants10061039

Comparative Analysis of Re-Annotated Genes Provides Insight into Evolutionary Divergence and Expressions of Aquaporin Family in Pepper
Cited by: 2
Author(s): Yeon Mi Lee, Geun Young Chae, Min Kyung Kim, Seungill Kim
Software Mentions: 6
Published: about 5 years ago

10.18632/oncotarget.15749

Gene regulatory pattern analysis reveals essential role of core transcriptional factors’ activation in triple-negative breast cancer
Cited by: 15
Author(s): Li Min, Cheng Zhang, Like Qu, Jialiang Huang, Lan Jiang, Jiafei Liu, Luca Pinello, Guo‐Cheng Yuan, Chengchao Shou
Software Mentions: 6
Published: over 9 years ago

10.3390/plants10071324

Heterogeneous Impact of Water Warming on Exotic and Native Submerged and Emergent Plants in Outdoor Mesocosms
Cited by: 0
Author(s): Morgane Gillard, Jean-Pierre Caudal, Carole Deleu, Gabrielle Thiébaut
Software Mentions: 6
Published: almost 5 years ago

10.3390/plants9111446

The Genetic Diversity of Cranberry Crop Wild Relatives, Vaccinium macrocarpon Aiton and V. oxycoccos L., in the US, with Special Emphasis on National Forests
Cited by: 12
Author(s): Lorraine Rodríguez-Bonilla, Karen A. Williams, Fabian Rodríguez Bonilla, Daniel Matusinec, Andrew J. Maule, Kevin Coe, Eric Wiesman, Luis Díaz-Garcia, Juan Zalapa
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-020-80618-1

Field evaluation of two mosquito traps in Zhejiang Province, China
Cited by: 3
Author(s): Juan Hou, Yinping Wu, Zhiyuan Mao, Zhu Xinhong, Yuheng Wu, Qinmei Liu, Jinna Wang, Tianqi Li, Zhenyu Gong, Xuanjun Dong, Wang Zhen
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-020-79736-7

BIRC5 is a prognostic biomarker associated with tumor immune cell infiltration
Cited by: 37
Author(s): Lijun Xu, Wenpeng Yu, Han Xiao, Lin Kang
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pbio.3000559

Human sperm displays rapid responses to diet
Cited by: 102
Author(s): Daniel Nätt, Unn Kugelberg, Eduard Casas, Elizabeth Nedstrand, Stefan Zalavary, Pontus Henriksson, Carola Nijm, Julia Jäderquist, Johanna Sandborg, Eva Flinke, Rashmi Ramesh, Lovisa Örkenby, Filip Appelkvist, Thomas Lingg, Nicola Guzzi, Cristian Bellodi, Marie Löf, Tanya Vavouri, Anita Öst
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pbio.2003703

Population genomics of Mesolithic Scandinavia: Investigating early postglacial migration routes and high-latitude adaptation
Cited by: 164
Author(s): Torsten Günther, Helena Malmström, Emma Svensson, Ayça Omrak, Federico Sánchez-Quinto, Gülşah Merve Kılınç, Maja Krzewińska, Gunilla Eriksson, Magdalena Fraser, Hanna Edlund, Arielle R. Munters, Alexandra Coutinho, Luciana G. Simões, Mário Vicente, Anders Sjölander, Berit J. Sellevold, Roger Jørgensen, Peter Claes, Mark D. Shriver, Cristina Valdiosera, Mihai G. Netea, Jan Apel, Kerstin Lidén, Birgitte Skår, Jan Storå, Anders Götherström, Mattias Jakobsson
Software Mentions: 6
Published: over 8 years ago

10.1038/s41598-020-79732-x

Assessing coral sperm motility
Cited by: 7
Author(s): Nikolas Zuchowicz, Jonathan Daly, Jessica Bouwmeester, Claire Lager, E. Michael Henley, C. Isabel Nuñez Lendo, Mary Hagedorn
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-020-79130-3

Skin microbiome correlates with bioclimate and Batrachochytrium dendrobatidis infection intensity in Brazil’s Atlantic Forest treefrogs
Cited by: 14
Author(s): Katharina Ruthsatz, Mariana L. Lyra, Carolina Lambertini, Anat M. Belasen, Thomas S. Jenkinson, Domingos da Silva Leite, C. Guilherme Becker, Célio F. B. Haddad, Timothy Y. James, Kelly R. Zamudio, Luı́s Felipe Toledo, Miguel Vences
Software Mentions: 6
Published: over 5 years ago

10.3390/ijms22168482

Multicellular Human Cardiac Organoids Transcriptomically Model Distinct Tissue-Level Features of Adult Myocardium
Cited by: 17
Author(s): Charles M. Kerr, Dylan Richards, Donald R. Menick, Kristine Y. DeLeon‐Pennell, Ying Mei
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pbio.2005710

Drosophila melanogaster establishes a species-specific mutualistic interaction with stable gut-colonizing bacteria
Cited by: 152
Author(s): Inês S. Pais, Rita S Valente, Marta Sporniak, Luı́s Teixeira
Software Mentions: 6
Published: almost 8 years ago

10.1186/s12870-019-2222-z

Transcriptomic and metabolomic analyses provide insight into the volatile compounds of citrus leaves and flowers
Cited by: 15
Author(s): Haipeng Zhang, Mengjun Chen, Wen Huang, Zhenhua Wang, Jiajing Chen, Fang Liu, Hongyan Zhang, Zongzhou Xie, Dong Jiang, Yunjiang Cheng, Juan Xu
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-020-77940-z

Linking human male vocal parameters to perceptions, body morphology, strength and hormonal profiles in contexts of sexual selection
Cited by: 17
Author(s): Christoph Schild, Toe Aung, Tobias L. Kordsmeyer, Rodrigo A. Cárdenas, David A. Puts, Lars Penke
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-020-77878-2

Recent land use and management changes decouple the adaptation of livestock diversity to the environment
Cited by: 9
Author(s): Elena Velado‐Alonso, Ignacio Morales‐Castilla, Antonio Gómez‐Sal
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pcbi.1006701

New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx
Cited by: 271
Author(s): Mohamed Mounir, Marta Lucchetta, Tiago Henrique Da T.C. Silva, Catharina Olsen, Gianluca Bontempi, Xi Chen, Houtan Noushmehr, Antonio Colaprico, Elena Papaleo
Software Mentions: 6
Published: over 7 years ago

10.1038/s41598-020-77055-5

Identification of transcription factor co-regulators that drive prostate cancer progression
Cited by: 11
Author(s): Manjunath Siddappa, Sajad A. Wani, Mark D. Long, Damien A. Leach, Ewy A. Mathé, Charlotte Bevan, Moray J. Campbell
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pcbi.1007305

Long-term dynamics of measles in London: Titrating the impact of wars, the 1918 pandemic, and vaccination
Cited by: 13
Author(s): Alexander D. Becker, Amy Wesolowski, Ottar N. Bjørnstad, Bryan T. Grenfell
Software Mentions: 6
Published: almost 7 years ago

10.3390/ijms22158123

HERON: A Novel Tool Enables Identification of Long, Weakly Enriched Genomic Domains in ChIP-seq Data
Cited by: 0
Author(s): Anna Macioszek, Bartek Wilczyński
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pcbi.1008372

Reduction in social learning and increased policy uncertainty about harmful intent is associated with pre-existing paranoid beliefs: Evidence from modelling a modified serial dictator game
Cited by: 13
Author(s): Joseph M Barnby, Vaughan Bell, Mitul A. Mehta, Michael Moutoussis
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pgen.1006750

TCF21 and the environmental sensor aryl-hydrocarbon receptor cooperate to activate a pro-inflammatory gene expression program in coronary artery smooth muscle cells
Cited by: 50
Author(s): Juyong Brian Kim, Milos Pjanic, Trieu Nguyen, Clint L. Miller, Dharini Iyer, Boxiang Liu, Ting Wang, Olga V. Sazonova, Iván Cárcamo-Orive, Ljubica Matic, Lars Maegdefessel, Ulf Hedin, Thomas Quertermous
Software Mentions: 6
Published: about 9 years ago

10.1371/journal.pgen.1009162

HOX paralogs selectively convert binding of ubiquitous transcription factors into tissue-specific patterns of enhancer activation
Cited by: 18
Author(s): Laure Bridoux, Peyman Zarrineh, Joshua Mallen, Mike Phuycharoen, Víctor Latorre, Frank Ladam, Marta Losa, Syed Murtuza Baker, Charles G. Sagerström, Kimberly A. Mace, Magnus Rattray, Nicoletta Bobola
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pgen.1009574

Runx1 shapes the chromatin landscape via a cascade of direct and indirect targets
Cited by: 13
Author(s): Matthew R. Hass, Daniel Brissette, Sreeja Parameswaran, Mario Pujato, Omer Donmez, Leah C. Kottyan, Matthew T. Weirauch, Raphael Kopan
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0248030

Evaluating domestication and ploidy effects on the assembly of the wheat bacterial microbiome
Cited by: 22
Author(s): Heidi M.-L. Wipf, Devin Coleman‐Derr
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0197074

Multi-site evaluation of the LN34 pan-lyssavirus real-time RT-PCR assay for post-mortem rabies diagnostics
Cited by: 43
Author(s): Crystal M. Gigante, Lisa Dettinger, James Powell, Melanie Seiders, Rene Edgar Condori, Richard Griesser, Kenneth Okogi, Maria P. Carlos, Kendra N. Pesko, Mike Breckenridge, Edson Michael M. Simon, Maria Yna Joyce Chu, April Davis, Scott Brunt, Lillian A. Orciari, Pamela A. Yager, William C. Carson, Claire Hartloge, Jeremiah T. Saliki, Susan Sánchez, Mojgan Deldari, Kristina Hsieh, Ashutosh Wadhwa, Kimberly Wilkins, Veronica Yung Peredo, Patricia Rabideau, Nina Gruhn, Rolain Cadet, Shrikrishna Isloor, Sujith S Nath, Tomy Joseph, Jinxin Gao, Ryan M. Wallace, Mary G. Reynolds, Victoria A. Olson, Li Yu
Software Mentions: 6
Published: about 8 years ago

10.1038/s41598-020-75505-8

Proteomic signatures of acute oxidative stress response to paraquat in the mouse heart
Cited by: 12
Author(s): Vishantie Dostal, Silas D. Wood, Cody T Thomas, Yu Han, Edward Lau, Maggie P. Y. Lam
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0255140

Comparative Y-chromosome analysis among Cypriots in the context of historical events and migrations
Cited by: 1
Author(s): Irene Moutsouri, Anna Keravnou, Panayiotis Manoli, Stefania Bertoncini, Kyriaki Michailidou, Vasilis Christofi, Stavroulla Xenophontos, Marios A. Cariolou, Evy Bashiardes
Software Mentions: 6
Published: almost 5 years ago

10.1186/s12870-018-1379-1

Investigation of mitochondrial-derived plastome sequences in the Paspalum lineage (Panicoideae; Poaceae)
Cited by: 12
Author(s): Sean V. Burke, Mark C. Ungerer, Melvin R. Duvall
Software Mentions: 6
Published: almost 8 years ago

10.1371/journal.pone.0220953

COI metabarcoding primer choice affects richness and recovery of indicator taxa in freshwater systems
Cited by: 67
Author(s): Mehrdad Hajibabaei, Teresita M. Porter, Michael Wright, Josip Rudar
Software Mentions: 6
Published: almost 7 years ago

10.1038/s41598-019-54098-x

Obesity during pregnancy results in maternal intestinal inflammation, placental hypoxia, and alters fetal glucose metabolism at mid-gestation
Cited by: 48
Author(s): Jessica G. Wallace, Christian J. Bellissimo, Erica Yeo, Yu Xia, Jim Petrik, Michael G. Surette, Dawn M. E. Bowdish, Deborah M. Sloboda
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-019-52899-8

Multiplex analysis of 40 cytokines do not allow separation between endometriosis patients and controls
Cited by: 11
Author(s): Tamara Knific, Dmytro Fishman, Andrej Vogler, Manuela Gstöttner, René Wenzl, Hedi Peterson, Tea Lanišnik Rižner
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0210467

Literature optimized integration of gene expression for organ-specific evaluation of toxicogenomics datasets
Cited by: 0
Author(s): Katerina Taškova, Jean-Fred Fontaine, Ralf Mrowka, Miguel A. Andrade‐Navarro
Software Mentions: 6
Published: over 7 years ago

10.1038/s41598-019-52549-z

Rectal swabs are a reliable proxy for faecal samples in infant gut microbiota research based on 16S-rRNA sequencing
Cited by: 29
Author(s): Marta Reyman, Marlies A. van Houten, Kayleigh Arp, Elisabeth A. M. Sanders, Debby Bogaert
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-019-51452-x

NADH dehydrogenases Nuo and Nqr1 contribute to extracellular electron transfer by Shewanella oneidensis MR-1 in bioelectrochemical systems
Cited by: 15
Author(s): Cody S. Madsen, Michaela A. TerAvest
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-019-50864-z

Circular RNA differential expression in blood cell populations and exploration of circRNA deregulation in pediatric acute lymphoblastic leukemia
Cited by: 62
Author(s): Enrico Gaffo, Elena Boldrin, Anna Dal Molin, Silvia Bresolin, Annagiulia Bonizzato, Luca Trentin, Chiara Frasson, Klaus‐Michael Debatin, Lueder Hinrich Meyer, Geertruy te Kronnie, Stefania Bortoluzzi
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-019-50839-0

Understanding the phyllosphere microbiome assemblage in grape species (Vitaceae) with amplicon sequence data structures
Cited by: 36
Author(s): Prashant Singh, Sylvain Santoni, Audrey Weber, Patrice This, Jean‐Pierre Péros
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-019-50811-y

Pollinators enhance crop yield and shorten the growing season by modulating plant functional characteristics: A comparison of 23 canola varieties
Cited by: 21
Author(s): George C. Adamidis, Ralph V. Cartar, Andony Melathopoulos, Stephen F. Pernal, Shelley E Hoover
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-019-50248-3

Integrated network analysis identifies hsa-miR-4756-3p as a regulator of FOXM1 in Triple Negative Breast Cancer
Cited by: 6
Author(s): Yuanliang Gu, Wenjuan Wang, Xuyao Wang, Hong-Yi Xie, Xiaojuan Ye, Peng Shu
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0075136

Synergistic Re-Activation of Epigenetically Silenced Genes by Combinatorial Inhibition of DNMTs and LSD1 in Cancer Cells
Cited by: 31
Author(s): Han Han, Xiaojing Yang, Kurinji Pandiyan, Gangning Liang
Software Mentions: 6
Published: almost 13 years ago

10.1371/journal.pone.0167747

Transcriptomic Changes in Liver of Young Bulls Caused by Diets Low in Mineral and Protein Contents and Supplemented with n-3 Fatty Acids and Conjugated Linoleic Acid
Cited by: 8
Author(s): Sara Pegolo, Alessio Cecchinato, Núria Mach, Massimiliano Babbucci, Marianna Pauletto, Luca Bargelloni, Stefano Schiavon, Giovanni Bittante
Software Mentions: 6
Published: over 9 years ago

10.1038/s41598-019-49027-x

Association of Aggresomes with Survival Outcomes in Pediatric Medulloblastoma
Cited by: 4
Author(s): Maha Yehia, Hala Taha, Asmaa Salama, Nada Amer, Amal Mosaab, Omneya Hassanain, Amal Refaat, Dina Yassin, Ahmed Elhemaly, Soha Ahmed, Mohamed El-Beltagy, Osama Shaalan, Shahenda El‐Naggar
Software Mentions: 6
Published: almost 7 years ago

10.3390/ijms22116052

Satellitome Analysis of Rhodnius prolixus, One of the Main Chagas Disease Vector Species
Cited by: 18
Author(s): Eugenia E. Montiel, Francisco Panzera, Teresa Palomeque, Pedro Lorite, Sebastián Pita
Software Mentions: 6
Published: about 5 years ago

10.3390/ijms22115981

Longitudinal Changes in Diet Cause Repeatable and Largely Reversible Shifts in Gut Microbial Communities of Laboratory Mice and Are Observed across Segments of the Entire Intestinal Tract
Cited by: 8
Author(s): Adrian Low, Melissa Soh, Sou Miyake, Vanessa Zhi Jie Aw, Jian Feng, Adeline Wong, Henning Seedorf
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0237881

Identification of key odorants in honeysuckle by headspace-solid phase microextraction and solvent-assisted flavour evaporation with gas chromatography-mass spectrometry and gas chromatograph-olfactometry in combination with chemometrics
Cited by: 6
Author(s): Keran Su, Xin Zhang, Shao-Quan Liu, LiHui Jia, Benjamin Lassabliere, Kim Huey Ee, Aileen Pua, Rui Min Vivian Goh, Jingcan Sun, Bin Yu, XiaoXue Hu
Software Mentions: 6
Published: almost 6 years ago

10.3390/ijms22115814

Genomic Characterization of Cisplatin Response Uncovers Priming of Cisplatin-Induced Genes in a Resistant Cell Line
Cited by: 7
Author(s): Hadar Golan Berman, Pooja Chauhan, Shira Shalev, Hiba Hassanain, Avital Parnas, Sheera Adar
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0188972

Adiposity QTL Adip20 decomposes into at least four loci when dissected using congenic strains
Cited by: 4
Author(s): Cailu Lin, Brad D. Fesi, Michael Marquis, Natalia P. Bosak, Anna Lysenko, Mohammed Amin Koshnevisan, Fujiko Duke, Maria L. Theodorides, Theodore M. Nelson, Amanda H. McDaniel, Mauricio Avigdor, Charles J. Arayata, Lauren Shaw, Alexander A. Bachmanov, Danielle R. Reed
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0192023

Spatiotemporal patterns of the macrofaunal community structure in the East China Sea, off the coast of Zhejiang, China, and the impact of the Kuroshio Branch Current
Cited by: 5
Author(s): Yong Xu, Fei Yu, Xinzheng Li, Lin Ma, Dong Dong, Qi Kou, Jixing Sui, Zhibin Gan, Lin Gong, Mei Yang, Yue-Yun Wang, Yue Sun, Jinbao Wang, Hongfa Wang
Software Mentions: 6
Published: over 8 years ago

10.3390/ijms22094531

Knockdown of the Ribosomal Protein eL38 in HEK293 Cells Changes the Translational Efficiency of Specific Genes
Cited by: 4
Author(s): Alexander V. Gopanenko, Alena V. Kolobova, Alexey E. Tupikin, Мarsel R. Kabilov, Alexey A. Malygin, Г. Г. Карпова
Software Mentions: 6
Published: about 5 years ago

10.1038/s41598-019-45844-2

Intracellular Zn2+ transients modulate global gene expression in dissociated rat hippocampal neurons
Cited by: 35
Author(s): Lynn Sanford, Margaret C. Carpenter, Amy E. Palmer
Software Mentions: 6
Published: almost 7 years ago

10.1038/s41598-019-45365-y

Xylella fastidiosa: climate suitability of European continent
Cited by: 56
Author(s): Gottfried Martin, Astrid Cruaud, Jean‐Claude Streito, Jean‐Yves Rasplus, Jean‐Pierre Rossi
Software Mentions: 6
Published: about 7 years ago

10.1371/journal.pone.0192834

Thermal physiology of Amazonian lizards (Reptilia: Squamata)
Cited by: 27
Author(s): Luisa Maria Diele‐Viegas, Laurie J. Vitt, Barry Sinervo, Guarino Rinaldi Colli, Fernanda P. Werneck, Donald B. Miles, William E. Magnusson, Juan Carlos Santos, Carla M. Sette, Gabriel Henrique de Oliveira Caetano, Emerson Guedes Pontes, Teresa Cristina Sauer Ávila-Pires
Software Mentions: 6
Published: over 8 years ago

10.1038/s41598-019-45388-5

Identifying niche and fitness dissimilarities in invaded marine macroalgal canopies within the context of contemporary coexistence theory
Cited by: 9
Author(s): Graham Epstein, Stephen J. Hawkins, Dan A. Smale
Software Mentions: 6
Published: about 7 years ago

10.1038/s41598-018-29511-6

Metabolomic analysis of mouse prefrontal cortex reveals upregulated analytes during wakefulness compared to sleep
Cited by: 30
Author(s): Allen K. Bourdon, Giovanna Maria Spano, William Marshall, Michele Bellesi, Giulio Tononi, Pier Andrea Serra, Helen A. Baghdoyan, Ralph Lydic, Shawn R. Campagna, Chiara Cirelli
Software Mentions: 6
Published: almost 8 years ago

10.1371/journal.pone.0204376

Sensitivity analyses for improving sulfur management strategies in winter oilseed rape
Cited by: 4
Author(s): Emilie Poisson, Sophie Brunel‐Muguet, F. Kauffmann, Jacques Trouverie, Jean‐Christophe Avice, Alain Mollier
Software Mentions: 6
Published: almost 8 years ago

10.1371/journal.pone.0219986

Year-round distribution, activity patterns and habitat use of a poorly studied pelagic seabird, the fluttering shearwater Puffinus gavia
Cited by: 5
Author(s): Martin Berg, Jannie Fries Linnebjerg, Graeme A. Taylor, Stefanie M. H. Ismar-Rebitz, Mike Bell, Chris P. Gaskin, Susanne Åkesson, Matt J. Rayner
Software Mentions: 6
Published: almost 7 years ago

10.1371/journal.pone.0204317

Association of metformin administration with gut microbiome dysbiosis in healthy volunteers
Cited by: 85
Author(s): Ilze Elbere, Ineta Kalniņa, Ivars Silamiķelis, Ilze Konrāde, Linda Zaharenko, Kristine Sekace, Ilze Radoviča-Spalviņa, Dāvids Fridmanis, Dita Gudrā, Valdis Pīrāgs, Jānis Kloviņš
Software Mentions: 6
Published: over 7 years ago

10.1038/s41598-018-29277-x

Associations Between Nutrition, Gut Microbiome, and Health in A Novel Nonhuman Primate Model
Cited by: 50
Author(s): Jonathan B. Clayton, Gabriel A. Al‐Ghalith, Ha Thang Long, Bui Van Tuan, Francis Cabana, Hu Huang, Pajau Vangay, Tonya Ward, Vo Van Minh, Nguyen Ai Tam, Nguyen Tat Dat, Dominic A. Travis, Michael P. Murtaugh, Herbert H. Covert, Kenneth E. Glander, Tilo Nadler, Barbara Toddes, John Chih Mun Sha, Randy Singer, Dan Knights, Timothy J. Johnson
Software Mentions: 6
Published: almost 8 years ago

10.1038/s41598-018-28233-z

Moth oviposition shapes the species-specific transcriptional and phytohormonal response of Nicotiana attenuata to larval feeding
Cited by: 11
Author(s): Sylvia Drok, Michele Bandoly, Sandra Stelzer, Tobias Lortzing, Anke Steppuhn
Software Mentions: 6
Published: almost 8 years ago

10.1038/s41598-018-25927-2

Helicobacter pylori-infected C57BL/6 mice with different gastrointestinal microbiota have contrasting gastric pathology, microbial and host immune responses
Cited by: 24
Author(s): Zhongming Ge, Alexander Sheh, Yan Feng, Sureshkumar Muthupalani, Lili Ge, Chuanwu Wang, Susanna Kurnick, Anthony Mannion, Mark T. Whary, James G. Fox
Software Mentions: 6
Published: about 8 years ago

10.1038/s41598-018-25588-1

Alterations in Cell Motility, Proliferation, and Metabolism in Novel Models of Acquired Temozolomide Resistant Glioblastoma
Cited by: 29
Author(s): Deanna Tiek, Janice D. Rone, Garrett T. Graham, Evan L. Pannkuk, Bassem R. Haddad, Rebecca B. Riggins
Software Mentions: 6
Published: about 8 years ago

10.1038/s41598-018-23913-2

Analysis of HIV-1 envelope evolution suggests antibody-mediated selection of common epitopes among Chinese former plasma donors from a narrow-source outbreak
Cited by: 3
Author(s): Sophie Andrews, Yonghong Zhang, Tao Dong, Sarah Rowland‐Jones, Sunetra Gupta, Joakim Esbjörnsson
Software Mentions: 6
Published: about 8 years ago

10.1038/s41598-018-23989-w

A large-scale survey of the postmortem human microbiome, and its potential to provide insight into the living health condition
Cited by: 90
Author(s): Jennifer L. Pechal, Carl J. Schmidt, Heather R. Jordan, M. Eric Benbow
Software Mentions: 6
Published: about 8 years ago

10.1371/journal.pone.0169339

Comparison of bacterial communities from lava cave microbial mats to overlying surface soils from Lava Beds National Monument, USA
Cited by: 51
Author(s): Kathleen H. Lavoie, Ara S. Winter, Kaitlyn J. H. Read, Evan M. Hughes, M. Spilde, Diana E. Northup
Software Mentions: 6
Published: over 9 years ago

10.1371/journal.pone.0246663

An open-sourced, web-based application to analyze weekly excess mortality based on the Short-term Mortality Fluctuations data series
Cited by: 38
Author(s): László Németh, Dmitri A. Jdanov, Vladimir M. Shkolnikov
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0174910

Evaluation of a gaze-controlled vision enhancement system for reading in visually impaired people
Cited by: 16
Author(s): Carlos Aguilar, Éric Castet
Software Mentions: 6
Published: about 9 years ago

10.1371/journal.pone.0230274

Dengue importation into Europe: A network connectivity-based approach
Cited by: 12
Author(s): Donald Salami, César Capinha, Maria do Rosário Oliveira Martins, Carla A. Sousa
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0235726

Diversity of mosquitoes (Diptera: Culicidae) collected in different types of larvitraps in an Amazon rural settlement
Cited by: 8
Author(s): João Aprígio Guerra de Almeida, Heliana Christy Matos Belchior, Claudia María Ríos-Velásquez, Felipe Arley Costa Pessoa
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0237272

Passenger-surface microbiome interactions in the subway of Mexico City
Cited by: 10
Author(s): Daniela Vargas-Robles, Carolina Gonzalez-Cedillo, Apolinar M. Hernández, Luis David Alcaraz, Mariana Peimbert
Software Mentions: 6
Published: almost 6 years ago

10.1038/s41598-017-17664-9

No Evidence that Knops Blood Group Polymorphisms Affect Complement Receptor 1 Clustering on Erythrocytes
Cited by: 1
Author(s): Olivia Swann, Ewen M Harrison, D. Herbert Opi, Emily Nyatichi, Alex Macharia, Sophie Uyoga, Thomas N. Williams, J. Alexandra Rowe
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0237713

Isn’t high school bad enough already? Rates of gender harassment and institutional betrayal in high school and their association with trauma-related symptoms
Cited by: 9
Author(s): Monika N Lind, Alexis A. Adams-Clark, Jennifer J. Freyd
Software Mentions: 6
Published: almost 6 years ago

10.1038/s41598-017-15554-8

Microbial Diversity of Genital Ulcers of HSV-2 Seropositive Women
Cited by: 7
Author(s): Supriya D. Mehta, Ashish Pradhan, Stefan J. Green, Ankur Naqib, Elijah Odoyo-June, Charlotte A. Gaydos, Sheila M. Barry, Alan Landay, Robert C. Bailey
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0215192

Circulating Th17.1 cells as candidate for the prediction of therapeutic response to abatacept in patients with rheumatoid arthritis: An exploratory research
Cited by: 17
Author(s): Shinji Maeda, Satoshi Osaga, Tomoyo Maeda, Norihisa Takeda, Shinya Tamechika, Taio Naniwa, Akio Niimi
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-017-12621-y

Reconstructing human population history from dental phenotypes
Cited by: 44
Author(s): Hannes Rathmann, Hugo Reyes-Centeno, Silvia Ghirotto, Nicole Creanza, Tsunehiko Hanihara, Katerina Harvati
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0109760

Copy Number Loss of the Interferon Gene Cluster in Melanomas Is Linked to Reduced T Cell Infiltrate and Poor Patient Prognosis
Cited by: 164
Author(s): Peter S. Linsley, Cate Speake, Elizabeth Whalen, Damien Chaussabel
Software Mentions: 6
Published: over 11 years ago

10.1038/s41598-017-10930-w

Human hepatic gene expression signature of non-alcoholic fatty liver disease progression, a meta-analysis
Cited by: 69
Author(s): Maria Ryaboshapkina, Mårten Hammar
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0256678

Hospital-level factors associated with death during pneumonia-associated hospitalization among adults—New York City, 2010–2014
Cited by: 0
Author(s): Kate Whittemore, Kristian M. Garcia, Chaorui Huang, Sungwoo Lim, Demetre Daskalakis, Neil M. Vora, David E. Lucero
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0226501

pyKNEEr: An image analysis workflow for open and reproducible research on femoral knee cartilage
Cited by: 11
Author(s): Serena Bonaretti, Garry E. Gold, Gary S. Beaupré
Software Mentions: 6
Published: over 6 years ago

10.1038/s41597-019-0172-9

Bacterial succession along a sediment porewater gradient at Lake Neusiedl in Austria
Cited by: 20
Author(s): Avril Jean Elisabeth von Hoyningen-Huene, Dominik Schneider, Dario Fussmann, Andreas Reimer, Gernot Arp, Rolf Daniel
Software Mentions: 6
Published: almost 7 years ago

10.1371/journal.pone.0236200

Shelter use interactions of invasive lionfish with commercially and ecologically important native invertebrates on Caribbean coral reefs
Cited by: 6
Author(s): Christina L. Hunt, Dominic A. Andradi‐Brown, Callum J. Hudson, Joshua Bennett-Williams, Frankie Noades, Jocelyn Curtis-Quick, Owen T. Lewis, Dan A. Exton
Software Mentions: 6
Published: almost 6 years ago

10.1186/s12915-018-0608-2

Migration through a small pore disrupts inactive chromatin organization in neutrophil-like cells
Cited by: 35
Author(s): Elsie C. Jacobson, Jo K. Perry, David S. Long, Ada L. Olins, Bryon E. Wright, Mark H. Vickers, Justin M. O’Sullivan
Software Mentions: 6
Published: over 7 years ago

10.1371/journal.pone.0245445

Three-dimensional geometric morphometric studies of modern human occipital variation
Cited by: 7
Author(s): Yameng Zhang, Lynne A. Schepartz
Software Mentions: 6
Published: over 5 years ago

10.1126/sciadv.abg5016

High-salt diet mediates interplay between NK cells and gut microbiota to induce potent tumor immunity
Cited by: 48
Author(s): Zaigham Abbas Rizvi, Rajdeep Dalal, Srikanth Sadhu, Yashwant Kumar, Sunil Kumar, Sonu Kumar Gupta, Manas Ranjan Tripathy, Deepak Kumar Rathore, Amit Awasthi
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0199758

Antipsychotic prescribing patterns on admission to and at discharge from a tertiary care program for treatment-resistant psychosis
Cited by: 7
Author(s): Lik Hang N. Lee, Ric M. Procyshyn, Ralph de Vere White, Todd S. Woodward, William G. Honer, Alasdair M. Barr
Software Mentions: 6
Published: almost 8 years ago

10.1371/journal.pone.0185166

Sinking towards destiny: High throughput measurement of phytoplankton sinking rates through time-resolved fluorescence plate spectroscopy
Cited by: 10
Author(s): Catherine Bannon, Douglas A. Campbell
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0239518

Peer review and preprint policies are unclear at most major journals
Cited by: 26
Author(s): Thomas Klebel, Stefan Reichmann, Jessica Polka, Gary S. McDowell, Naomi Penfold, Samantha Hindle, Tony Ross-Hellauer
Software Mentions: 6
Published: over 5 years ago

10.1002/jrsm.1428

The Kilim plot: A tool for visualizing network meta‐analysis results for multiple outcomes
Cited by: 15
Author(s): Michael Seo, Toshi A Furukawa, Areti Angeliki Veroniki, Toby Pillinger, Anneka Tomlinson, Georgia Salanti, Andrea Cipriani, Orestis Efthimiou
Software Mentions: 6
Published: almost 6 years ago

10.1038/s41423-021-00647-2

The microbiota is dispensable for the early stages of peripheral regulatory T cell induction within mesenteric lymph nodes
Cited by: 16
Author(s): Carolin Wiechers, Mangge Zou, Eric Galvez, Michael Beckstette, Maria F. Ebel, Till Strowig, Jochen Huehn, Joern Pezoldt
Software Mentions: 6
Published: over 5 years ago

10.21203/rs.3.rs-509143/v1

Impact of BNT162b First Vaccination on the Immune Transcriptome of Elderly Patients Infected with the B.1.351 SARS-CoV-2 Variant
Cited by: 3
Author(s): Ludwig Knabl, Hye Kyung Lee, Manuel Wieser, Anna Mur, August Zabernigg, Simon Rauch, Matthias Böck, Jana Schumacher, Norbert Kaiser, Priscilla A. Furth, Lothar Hennighausen
Software Mentions: 6
Published: about 5 years ago

10.21203/rs.3.rs-80404/v1

Acute SARS-CoV-2 Infection is Highly Cytopathic, Elicits a Robust Innate Immune Response and is Efficiently Prevented by EIDD-2801
Cited by: 10
Author(s): Angela Wahl, Lisa E. Gralinski, Claire Johnson, Wenbo Yao, Martina Kovářová, Kenneth H. Dinnon, Hongwei Liu, Victoria J. Madden, Halina M. Krzystek, Chandrav De, Kristen White, Alexandra Schäfer, Tanzila Zaman, Sarah R. Leist, P. Grant, Kendra L. Gully, Frederic B. Askin, Edward P. Browne, Corbin D. Jones, Raymond J. Pickles, Ralph S. Baric, Javier García
Software Mentions: 6
Published: over 5 years ago

10.21203/rs.3.rs-69657/v1

Immune transcriptomes of highly exposed SARS-CoV-2 asymptomatic seropositive versus seronegative individuals from the Ischgl community
Cited by: 0
Author(s): Hye Kyung Lee, Ludwig Knabl, Lisa Pipperger, André Volland, Priscilla A. Furth, Keunsoo Kang, Harold E. Smith, Romuald Bellmann, Christina Bernhard, Norbert Kaiser, Hannes Gänzer, Mathias Ströhle, Andreas Walser, Dorothee von Laer, Lothar Hennighausen
Software Mentions: 6
Published: almost 6 years ago

10.1016/j.celrep.2019.06.039

Acute Iron Deprivation Reprograms Human Macrophage Metabolism and Reduces Inflammation In Vivo
Cited by: 67
Author(s): Marie Pereira, Tai‐Di Chen, Norzawani Buang, Antoni Olona, Jeong‐Hun Ko, Maria Prendecki, Ana S.H. Costa, Efterpi Nikitopoulou, Laura Tronci, Charles D. Pusey, H. Terence Cook, Stephen P. McAdoo, Christian Frezza, Jacques Behmoaras
Software Mentions: 6
Published: almost 7 years ago

10.1016/j.celrep.2019.06.046

Breast Cancer Classification Based on Proteotypes Obtained by SWATH Mass Spectrometry
Cited by: 68
Author(s): Pavel Bouchal, Olga T. Schubert, Jakub Faktor, Lenka Čápková, Hana Imrichová, Karolína Zoufalová, Vendula Páralová, Roman Hrstka, Yansheng Liu, H. Alexander Ebhardt, Eva Budínská, Rudolf Nenutil, Ruedi Aebersold
Software Mentions: 6
Published: almost 7 years ago

10.1186/s12894-021-00880-x

Cross-talk and clinical value of m[superscript 6]A regulatory gene in bladder cancer
Cited by: 0
Author(s): Benzheng Zhou, Qin Luo, Ye Zhang
Software Mentions: 6
Published: almost 5 years ago

10.1186/s12967-020-02616-1

Immune landscape of periodontitis unveils alterations of infiltrating immunocytes and molecular networks-aggregating into an interactive web-tool for periodontitis related immune analysis and visualization
Cited by: 7
Author(s): Xiaoqi Zhang, Qingxuan Wang, Xinyu Yan, Yue Shan, Xing Lü, Minqi Li, Hu Long, Wenli Lai
Software Mentions: 6
Published: over 5 years ago

10.1016/j.celrep.2019.12.019

Neuroinflammation-Associated Aspecific Manipulation of Mouse Predator Fear by Toxoplasma gondii
Cited by: 81
Author(s): Madlaina Boillat, Pierre‐Mehdi Hammoudi, Sunil Kumar Dogga, Stéphane Pagès, Maged Goubran, Iván Rodríguez, Dominique Soldati‐Favre
Software Mentions: 6
Published: over 6 years ago

10.1016/j.celrep.2021.109362

Nutritional regulation of oligodendrocyte differentiation regulates perineuronal net remodeling in the median eminence
Cited by: 29
Author(s): Sara Kohnke, Sophie Buller, Danaé Nuzzaci, Katherine Ridley, Brian Lam, Helena Pivoňková, Marie A. Bentsen, Kimberly M. Alonge, Chao Zhao, John Tadross, Staffan Holmqvist, Takahiro Shimizu, Hannah A. Hathaway, Hui‐Liang Li, Wendy B. Macklin, Michael W. Schwartz, William D. Richardson, Giles S.H. Yeo, R. J. M. Franklin, Ragnhildur Thóra Káradóttir, David H. Rowitch, Clémence Blouet
Software Mentions: 6
Published: almost 5 years ago

10.1016/j.xcrm.2021.100267

Cabozantinib and dasatinib synergize to induce tumor regression in non-clear cell renal cell carcinoma
Cited by: 2
Author(s): Hui Wen Lue, Daniel S. Derrick, Soumya Rao, Ahna Van Gaest, Larry C. Cheng, Jennifer Podolak, Samantha Lawson, Changhui Xue, Devin Garg, Ralph E. White, Christopher W. Ryan, Justin M. Drake, Anna Ritz, Laura M. Heiser, George V. Thomas
Software Mentions: 6
Published: about 5 years ago

10.3390/ijms21228769

Physiological Changes in Barley mlo-11 Powdery Mildew Resistance Conditioned by Tandem Repeat Copy Number
Cited by: 3
Author(s): Cynthia Ge, Paula Moolhuijzen, Lee T. Hickey, Elzette Wentzel, Wei‐Wei Deng, Eric Dinglasan, Simon R. Ellwood
Software Mentions: 6
Published: over 5 years ago

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