10.1093/database/baaa012

CancerLivER: a database of liver cancer gene expression resources and biomarkers
Cited by: 19
Author(s): Harpreet Kaur, Sherry Bhalla, Dilraj Kaur, Gajendra P. S. Raghava
Software Mentions: 5
Published: over 6 years ago

10.3389/fcell.2020.593653

PECAM1 Combines With CXCR4 to Trigger Inflammatory Cell Infiltration and Pulpitis Progression Through Activating the NF-κB Signaling Pathway
Cited by: 10
Author(s): Liu Yong-hong, Zhiyong Zhang, Wenjing Li, Shaomin Tian
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2021.721252

Antioxidant Gene Signature Impacts the Immune Infiltration and Predicts the Prognosis of Kidney Renal Clear Cell Carcinoma
Cited by: 11
Author(s): Xueting Ren, Li Ma, Nan Wang, Ruina Zhou, Jianhua Wu, Xin Xie, Hao Zhang, Di Liu, Xiuli Ma, Chengxue Dang, Huafeng Kang, Zhangjian Zhou
Software Mentions: 5
Published: almost 5 years ago

10.26508/lsa.202000709

Myeloid transformation by <i>MLL</i>-<i>ENL</i> depends strictly on C/EBP
Cited by: 4
Author(s): Radosław Wesołowski, Elisabeth Kowenz‐Leutz, Karin Zimmermann, Dorothea Dörr, Maria Hofstätter, Robert K. Slany, Alexander Mildner, Achim Leutz
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0158691

Single-Locus versus Multilocus Patterns of Local Adaptation to Climate in Eastern White Pine (Pinus strobus, Pinaceae)
Cited by: 28
Author(s): Om P. Rajora, Andrew J. Eckert, John W. R. Zinck
Software Mentions: 5
Published: about 10 years ago

10.3390/ijerph9072479

Using Bioinformatic Approaches to Identify Pathways Targeted by Human Leukemogens
Cited by: 6
Author(s): Reuben Thomas, Jimmy Phuong, Cliona M. McHale, Luoping Zhang
Software Mentions: 5
Published: about 14 years ago

10.1371/journal.pone.0244439

The peptide symporter SLC15a4 is essential for the development of systemic lupus erythematosus in murine models
Cited by: 14
Author(s): Arna Katewa, Eric Suto, Jessica Hui, Jose Heredia, Jie Liang, Jason A. Hackney, Keith R. Anderson, Tuija Alcantar, Natasha Bacarro, Debra Dunlap, Jeffrey Eastham, Andrés Paler-Martı́nez, Xin Y. Rairdan, Zora Modrušan, Wyne P. Lee, Cary D. Austin, Daniel Lafkas, Nico Ghilardi
Software Mentions: 5
Published: over 5 years ago

10.7150/jca.29958

TGFBI Promotes Tumor Growth and is Associated with Poor Prognosis in Oral Squamous Cell Carcinoma
Cited by: 16
Author(s): Bingjie Wang, Kun-Ping Chi, Ruling Shen, Saiwei Zheng, Yang Guo, Jianfeng Li, Jian Fei, Yuan He
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pgen.1007981

Disruption of the Caenorhabditis elegans Integrator complex triggers a non-conventional transcriptional mechanism beyond snRNA genes
Cited by: 29
Author(s): Eva Gómez-Orte, Beatriz Sáenz-Narciso, Angelina Zheleva, Begoña Ezcurra, María de Toro, Rosa López, Irene Gastaca, Hilde Nilsen, María P. Sacristán, Ralf Schnabel, Juan Cabello
Software Mentions: 5
Published: over 7 years ago

10.1038/s42003-021-02566-4

Pseudomonas aeruginosa adapts to octenidine via a combination of efflux and membrane remodelling
Cited by: 7
Author(s): Lucy J. Bock, Philip M. Ferguson, Maria Clarke, Vichayanee Pumpitakkul, Matthew E. Wand, Paul-Enguerrand Fady, Leanne Allison, Roland A. Fleck, Matthew J. Shepherd, A. James Mason, J. Mark Sutton
Software Mentions: 5
Published: almost 5 years ago

10.1002/ece3.1203

Life history variation in <scp>B</scp> arents <scp>S</scp> ea fish: implications for sensitivity to fishing in a changing environment
Cited by: 35
Author(s): Magnus Aune Wiedmann, Raul Primicerio, Andrey V. Dolgov, Camilla A. Meyer Ottesen, Michaela Aschan
Software Mentions: 5
Published: almost 12 years ago

10.1038/srep21234

Are we failing to protect threatened mangroves in the Sundarbans world heritage ecosystem?
Cited by: 73
Author(s): Swapan Kumar Sarker, Richard Reeve, Jill Thompson, Nirmal K. Paul, Jason Matthiopoulos
Software Mentions: 5
Published: over 10 years ago

10.1186/s40168-017-0304-4

Huanglongbing impairs the rhizosphere-to-rhizoplane enrichment process of the citrus root-associated microbiome
Cited by: 145
Author(s): Yunzeng Zhang, Jin Xu, Nadia Riera, Tao Jin, Jinyun Li, Nian Wang
Software Mentions: 5
Published: almost 9 years ago

10.1186/s40168-017-0237-y

Normalization and microbial differential abundance strategies depend upon data characteristics
Cited by: 1,253
Author(s): Sophie Weiss, Zhenjiang Zech Xu, Shyamal D. Peddada, Amir Almasi‐Hashiani, Kyle Bittinger, Antonio González, Catherine Lozupone, Jesse Zaneveld, Yoshiki Vázquez-Baeza, Amanda Birmingham, Embriette R. Hyde, Rob Knight
Software Mentions: 5
Published: over 9 years ago

10.1186/s40168-020-00925-7

Early-life gut dysbiosis linked to juvenile mortality in ostriches
Cited by: 28
Author(s): Elin Videvall, Se Jin Song, Hanna M. Bensch, Maria Strandh, Anel Engelbrecht, Naomi Serfontein, Olof Hellgren, Adriaan Olivier, S.W.P. Cloete, Rob Knight, Charlie K. Cornwallis
Software Mentions: 5
Published: almost 6 years ago

10.1186/s40168-019-0651-4

Gut microbiota in HIV–pneumonia patients is related to peripheral CD4 counts, lung microbiota, and in vitro macrophage dysfunction
Cited by: 23
Author(s): Meera K. Shenoy, Douglas Fadrosh, David L. Lin, William Worodria, Patrick Byanyima, Emmanuel Musisi, Sylvia Kaswabuli, Josephine Zawedde, Ingvar Sanyu, Emily Chang, Serena Fong, Kathryn McCauley, J. Lucian Davis, Laurence Huang, Susan V. Lynch
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0252508

Network pharmacology and molecular docking study on the mechanism of colorectal cancer treatment using Xiao-Chai-Hu-Tang
Cited by: 23
Author(s): Jingyun Jin, Bin Chen, Xiangyang Zhan, Zhiyi Zhou, Hui Liu, Yun Dong
Software Mentions: 5
Published: about 5 years ago

10.3390/s21051853

Comparing Kriging Estimators Using Weather Station Data and Local Greenhouse Sensors
Cited by: 9
Author(s): Pei Fen Kuo, Tzu En Huang, I. Gede Brawiswa Putra
Software Mentions: 5
Published: over 5 years ago

10.1186/1756-0500-6-358

Identifying technical aliases in SELDI mass spectra of complex mixtures of proteins
Cited by: 1
Author(s): John C. Whitin, Srinivasa Rangan, Harvey J. Cohen
Software Mentions: 5
Published: almost 13 years ago

10.1186/s40168-020-00980-0

The pleiotropic effects of prebiotic galacto-oligosaccharides on the aging gut
Cited by: 33
Author(s): Jason W. Arnold, Jeffery Roach, Salvador Fabela, Emily Moorfield, Shengli Ding, R. Eric Blue, Sue F. Dagher, Scott T. Magness, Rita Tamayo, José M. Bruno-Bárcena, M. Andrea Azcárate-Peril
Software Mentions: 5
Published: over 5 years ago

10.1002/ece3.5795

Climatic and vegetational drivers of insect beta diversity at the continental scale
Cited by: 10
Author(s): Douglas Chesters, Philip Beckschäfer, Michael C. Orr, Sarah J. Adamowicz, Kwok Pan Chun, Chao Zhu
Software Mentions: 5
Published: over 6 years ago

10.1186/s40168-020-00893-y

Antimicrobial drug use in the first decade of life influences saliva microbiota diversity and composition
Cited by: 16
Author(s): Sajan C. Raju, Heli Viljakainen, Rejane Augusta de Oliveira Figueiredo, Pertti J. Neuvonen, Johan G. Eriksson, Elisabete Weiderpass, Trine B. Rounge
Software Mentions: 5
Published: almost 6 years ago

10.1111/eva.12708

The genetic legacy of 50 years of desert bighorn sheep translocations
Cited by: 27
Author(s): Joshua P. Jahner, Marjorie D. Matocq, Jason L. Malaney, Mike Cox, Peregrine L. Wolff, Mitchell A. Gritts, Thomas L. Parchman
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pgen.1007016

Genomics of parallel adaptation at two timescales in Drosophila
Cited by: 20
Author(s): Li Zhao, David J. Begun
Software Mentions: 5
Published: almost 9 years ago

10.1007/s00401-020-02228-5

Mosaic trisomy of chromosome 1q in human brain tissue associates with unilateral polymicrogyria, very early-onset focal epilepsy, and severe developmental delay
Cited by: 27
Author(s): Katja Kobow, Samir Jabari, Tom Pieper, Manfred Kudernatsch, Tilman Polster, Friedrich G. Woermann, Thilo Kalbhenn, Hajo M. Hamer, Karl Rössler, Angelika Mühlebner, Wim G.M. Spliet, Martha Feucht, Yanghao Hou, Damian Stichel, Andrey Korshunov, Felix Sahm, Roland Coras, Ingmar Blümcke, Andreas von Deimling
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12864-018-4652-7

Impact on birth weight of maternal smoking throughout pregnancy mediated by DNA methylation
Cited by: 41
Author(s): Stephanie H. Witt, Josef Frank, Maria Gilles, Maren Lang, Jens Treutlein, Fabian Streit, Isabella Wolf, Verena Peus, Barbara Scharnholz, Tabea Send, Stefanie Heilmann‐Heimbach, Sugirthan Sivalingam, Helene Dukal, Jana Strohmaier, Marc Sütterlin, Janine Arloth, Manfred Laucht, Markus M. Nöthen, Michael Deuschle, Marcella Rietschel
Software Mentions: 5
Published: about 8 years ago

10.3389/fmicb.2020.01735

Great Tit (Parus major) Uropygial Gland Microbiomes and Their Potential Defensive Roles
Cited by: 13
Author(s): Kasun H. Bodawatta, Signe K. Schierbech, Nanna R. Petersen, Kateřina Sam, Nick Bos, Knud A. Jønsson, Michael Poulsen
Software Mentions: 5
Published: almost 6 years ago

10.1038/srep17084

Increased diversity of egg-associated bacteria on brown trout (Salmo trutta) at elevated temperatures
Cited by: 22
Author(s): Laetitia G. E. Wilkins, Aude Rogivue, Frédéric Schütz, Luca Fumagalli, Claus Wedekind
Software Mentions: 5
Published: over 10 years ago

10.1007/s12035-020-01983-6

Transcriptome Analysis of iPSC-Derived Neurons from Rubinstein-Taybi Patients Reveals Deficits in Neuronal Differentiation
Cited by: 15
Author(s): Luciano Calzari, Matteo Barcella, Valentina Alari, Daniele Braga, Rafael Muñoz‐Viana, Cristina Barlassina, Palma Finelli, Cristina Gervasini, Ángel Barco, Silvia Russo, Lidia Larizza
Software Mentions: 5
Published: about 6 years ago

10.1186/s13024-021-00481-0

Sex dependent glial-specific changes in the chromatin accessibility landscape in late-onset Alzheimer’s disease brains
Cited by: 9
Author(s): Julio Barrera, Lingyun Song, Julia Gamache, Melanie E. Garrett, Alexias Safi, Young Won Yun, Ivana Premasinghe, Daniel J. Sprague, Danielle Chipman, Jeffrey Li, Hélène Fradin, Karen Soldano, Raluca Gordân, Allison Ashley‐Koch, Gregory E. Crawford, Ornit Chiba‐Falek
Software Mentions: 5
Published: almost 5 years ago

10.1002/1878-0261.12616

High CD206 levels in Hodgkin lymphoma‐educated macrophages are linked to matrix‐remodeling and lymphoma dissemination
Cited by: 23
Author(s): Annekatrin Arlt, Frederike von Bonin, Thorsten Rehberg, Paula Pérez-Rubio, Julia C. Engelmann, Katharina Limm, Sarah Reinke, Christian Dullin, Xueni Sun, Rieke Specht, Markus Maulhardt, Franziska Linke, Gertrude Bunt, Wolfram Klapper, Martina Vockerodt, Jörg Wilting, Tobias Pukrop, Katja Dettmer, Wolfram Gronwald, Peter J. Oefner, Rainer Spang, Dieter Kube
Software Mentions: 5
Published: over 6 years ago

10.1186/s13578-020-00517-w

Identification of predictors based on drug targets highlights accurate treatment of goserelin in breast and prostate cancer
Cited by: 6
Author(s): Yue Zhao, Huimin Sun, Jianzhong Zheng, Chen Shao, Dongwei Zhang
Software Mentions: 5
Published: over 5 years ago

10.1186/s13059-021-02378-z

GRiNCH: simultaneous smoothing and detection of topological units of genome organization from sparse chromatin contact count matrices with matrix factorization
Cited by: 14
Author(s): Da-Inn Lee, Sushmita Roy
Software Mentions: 5
Published: about 5 years ago

10.3389/fmicb.2019.02628

Strong Seasonality in Arctic Estuarine Microbial Food Webs
Cited by: 22
Author(s): Colleen T. E. Kellogg, J. W. McClelland, Kenneth H. Dunton, Byron C. Crump
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2020.603692

Shift and Metabolic Potentials of Microbial Eukaryotic Communities Across the Full Depths of the Mariana Trench
Cited by: 3
Author(s): Xiaoyu Zhu, Jiwen Liu, Chun-Xu Xue, Jiwei Tian, Xiao‐Hua Zhang
Software Mentions: 5
Published: over 5 years ago

10.1038/srep43465

Parasitism perturbs the mucosal microbiome of Atlantic Salmon
Cited by: 86
Author(s): Martin S. Llewellyn, S. Leadbeater, Carlos García, François‐Étienne Sylvain, María Custodio, Keng Pee Ang, Frank C. Powell, Gary R. Carvalho, Simon Creer, J. M. Elliot, Nicolas Derôme
Software Mentions: 5
Published: over 9 years ago

10.1038/s41598-020-57968-x

Prognostic Nomogram For Locoregionally Advanced Nasopharyngeal Carcinoma
Cited by: 15
Author(s): Yanming Jiang, Song Qu, Xin-Bin Pan, Shan Huang, Xiaodong Zhu
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.11012

Changes in diversity and community assembly of jumping spiders (Araneae: Salticidae) after rainforest conversion to rubber and oil palm plantations
Cited by: 13
Author(s): André Junggebauer, Tamara R. Hartke, Daniel Ramos, Ina Schaefer, Damayanti Buchori, Purnama Hidayat, Stefan Scheu, Jochen Drescher
Software Mentions: 5
Published: over 5 years ago

10.15252/msb.20145654

Annotation of genomics data using bidirectional hidden Markov models unveils variations in Pol II transcription cycle
Cited by: 21
Author(s): Benedikt Zacher, Michael Lidschreiber, Patrick Cramer, Julien Gagneur, Achim Tresch
Software Mentions: 5
Published: over 11 years ago

10.1371/journal.pntd.0007361

Host species and site of collection shape the microbiota of Rift Valley fever vectors in Kenya
Cited by: 3
Author(s): David P. Tchouassi, Ephantus J. Muturi, Samwel O. Arum, Chang‐Hyun Kim, Christopher J. Fields, Baldwyn Torto
Software Mentions: 5
Published: about 7 years ago

10.3389/fonc.2021.685980

Role of NRP1 in Bladder Cancer Pathogenesis and Progression
Cited by: 15
Author(s): Yun Dong, Weiming Ma, Zengliang Shi, Zhiguo Zhang, Jing Zhou, Yang Li, Shaoqi Zhang, Kun Pang, Bibo Li, Wen-da Zhang, Tao Fan, Guanghao Zhu, Xue Li, Rui Li, Ying Liu, Lin Hao, Conghui Han
Software Mentions: 5
Published: about 5 years ago

10.1098/rsfs.2020.0007

Rapid, accurate, precise and reproducible ligand–protein binding free energy prediction
Cited by: 71
Author(s): Shunzhou Wan, Agastya P. Bhati, Stefan J. Zasada, Peter V. Coveney
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2017.00526

Mosquito Microbiome Dynamics, a Background for Prevalence and Seasonality of West Nile Virus
Cited by: 83
Author(s): Eva Nováková, Douglas C. Woodhams, Sonia M. Rodríguez‐Ruano, Robert M. Brucker, Jonathan W. Leff, Amin Maharaj, Amir Almasi‐Hashiani, Rob Knight, James A. Scott
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pbio.3000396

Inverted translational control of eukaryotic gene expression by ribosome collisions
Cited by: 39
Author(s): Heungwon Park, Arvind R. Subramaniam
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pbio.3000877

High-throughput mapping of the phage resistance landscape in E. coli
Cited by: 82
Author(s): Vivek K. Mutalik, Benjamin A. Adler, Harneet S. Rishi, Denish Piya, Crystal Zhong, Britt Koskella, Elizabeth Kutter, Richard Calendar, Pavel S. Novichkov, Morgan N. Price, Adam M. Deutschbauer, Adam P. Arkin
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0109715

Genome-Wide Identification and Tissue-Specific Expression Analysis of UDP-Glycosyltransferases Genes Confirm Their Abundance in Cicer arietinum (Chickpea) Genome
Cited by: 33
Author(s): Ranu Sharma, Vimal Rawat, C.G. Suresh
Software Mentions: 5
Published: almost 12 years ago

10.1371/journal.pcbi.1008473

A joint modeling approach for longitudinal microbiome data improves ability to detect microbiome associations with disease
Cited by: 7
Author(s): Pamela N. Luna, Jonathan M. Mansbach, Chad A. Shaw
Software Mentions: 5
Published: over 5 years ago

10.3390/genes11020227

Alternative Splicing Events as Indicators for the Prognosis of Uveal Melanoma
Cited by: 15
Author(s): Qi Wan, Xuan Sang, Lin Jin, Zhichong Wang
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2021.666010

Differential Impact of Plant Secondary Metabolites on the Soil Microbiota
Cited by: 23
Author(s): Vadim Schütz, Katharina Frindte, Jiaxin Cui, Pengfan Zhang, Stéphane Hacquard, Paul Schulze‐Lefert, Claudia Knief, Margot Schulz, Peter Dörmann
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pgen.1007114

ciRS-7 exonic sequence is embedded in a long non-coding RNA locus
Cited by: 62
Author(s): Steven P. Barrett, Kevin R. Parker, Caroline Horn, Miguel A. Mata, Julia Salzman
Software Mentions: 5
Published: over 8 years ago

10.3389/fmicb.2018.02212

A Class 1 Histone Deacetylase as Major Regulator of Secondary Metabolite Production in Aspergillus nidulans
Cited by: 29
Author(s): Angelo Pidroni, Birgit Faber, Gerald Brosch, Ingo Bauer, Stefan Graessle
Software Mentions: 5
Published: almost 8 years ago

10.1371/journal.pntd.0009504

Developmental changes and metabolic reprogramming during establishment of infection and progression of Trypanosoma brucei brucei through its insect host
Cited by: 16
Author(s): Arunasalam Naguleswaran, Paula Fernandes, Shubha Bevkal, Ruth Rehmann, Pamela Nicholson, Isabel Roditi
Software Mentions: 5
Published: almost 5 years ago

10.7554/eLife.58533

A new role for histone demethylases in the maintenance of plant genome integrity
Cited by: 28
Author(s): Javier Antunez-Sanchez, Matthew Naish, Juan S. Ramirez-Prado, Sho Ohno, Ying Huang, Alexander Dawson, Korawit Opassathian, Deborah Manza‐Mianza, Federico Ariel, Cécile Raynaud, Anjar Tri Wibowo, Josquin Daron, Minako Ueda, David Latrasse, R. Keith Slotkin, Detlef Weigel, Moussa Benhamed, José Gutierrez-Marcos
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0239652

Compound distributions for financial returns
Cited by: 4
Author(s): Emmanuel Afuecheta, Artur Semeyutin, Stephen Chan, Saralees Nadarajah, Diego Andrés Pérez Ruiz
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12874-021-01234-9

LASSO type penalized spline regression for binary data
Cited by: 17
Author(s): Muhammad Abu Shadeque Mullah, James A. Hanley, Andrea Benedetti
Software Mentions: 5
Published: about 5 years ago

10.1111/cpr.12968

Systemic transcriptome comparison between early‐ And late‐onset pre‐eclampsia shows distinct pathology and novel biomarkers
Cited by: 15
Author(s): Fang Guo, Zhenan Bao, Hao Yang, Yixi Fu, Yaning Wang, Jianming Huang, Min Cheng, Xiaobo Li, Zhuo Shen, Li Li, Ping He, Andy Peng Xiang, Shuaiyu Wang, Hongbo Zhang
Software Mentions: 5
Published: over 5 years ago

10.1001/jamanetworkopen.2021.27002

Racial and Ethnic Differences in Cannabis Use Following Legalization in US States With Medical Cannabis Laws
Cited by: 40
Author(s): Sílvia S. Martins, Luís Segura, Natalie S. Levy, Pia M. Mauro, Christine Mauro, Morgan M. Philbin, Deborah S. Hasin
Software Mentions: 5
Published: almost 5 years ago

10.2196/26053

Investigating the Mechanisms of Graded Sensorimotor Precision Training in Adults With Chronic Nonspecific Low Back Pain: Protocol for a Causal Mediation Analysis of the RESOLVE Trial
Cited by: 3
Author(s): Aidan G Cashin, Hopin Lee, Matthew K Bagg, Benedict M Wand, Edel O’Hagan, Rodrigo R N Rizzo, Tasha R. Stanton, G. Lorimer Moseley, James H. McAuley
Software Mentions: 5
Published: about 5 years ago

10.7717/peerj.3657

<tt>phydms</tt>: software for phylogenetic analyses informed by deep mutational scanning
Cited by: 21
Author(s): Sarah K Hilton, Michael B. Doud, Jesse D Bloom
Software Mentions: 5
Published: almost 9 years ago

10.1371/journal.pntd.0001218

Evidence for a Peak Shift in a Humoral Response to Helminths: Age Profiles of IgE in the Shuar of Ecuador, the Tsimane of Bolivia, and the U.S. NHANES
Cited by: 77
Author(s): Aaron D. Blackwell, Michael Gurven, Lawrence S. Sugiyama, Felicia C. Madimenos, Melissa A. Liebert, Mary C. Martin, Hillard Kaplan, J. Josh Snodgrass
Software Mentions: 5
Published: about 15 years ago

10.1371/journal.pntd.0005693

Evolution and spread of Venezuelan equine encephalitis complex alphavirus in the Americas
Cited by: 53
Author(s): Naomi L. Forrester, Joel O. Wertheim, Vivian G. Dugan, Albert J. Auguste, David L. Lin, Alexandra Adams, Rubing Chen, Rodion Gorchakov, Grace Leal, José G. Estrada-Franco, Jyotsna Pandya, Rebecca Halpin, Kumar Hari, Ravi Jain, Timothy B. Stockwell, Suman Das, David E. Wentworth, Martin D. Smith, Sergei L. Kosakovsky Pond, Scott C. Weaver
Software Mentions: 5
Published: almost 9 years ago

10.1186/s13059-016-0930-3

Beyond comparisons of means: understanding changes in gene expression at the single-cell level
Cited by: 89
Author(s): Catalina A. Vallejos, Sylvia Richardson, John C. Marioni
Software Mentions: 5
Published: over 10 years ago

10.1371/journal.pone.0033954

Housing Arrangement and Location Determine the Likelihood of Housing Loss Due to Wildfire
Cited by: 129
Author(s): Alexandra D. Syphard, Jon E. Keeley, Avi Bar Massada, Teresa J. Brennan, Volker C. Radeloff
Software Mentions: 5
Published: over 14 years ago

10.1371/journal.pone.0244341

Exposure to traffic-related air pollution and bacterial diversity in the lower respiratory tract of children
Cited by: 9
Author(s): Christine Niemeier‐Walsh, Patrick Ryan, Jarosław Meller, Nicholas J. Ollberding, Atin Adhikari, Tiina Reponen
Software Mentions: 5
Published: about 5 years ago

10.1038/s41598-020-62754-w

Associations of C-reactive Protein with 25-hydroxyvitamin D in 24 Specific Diseases: A Cross-sectional Study from NHANES
Cited by: 5
Author(s): Fang Yang, Mengzi Sun, Chong Sun, Jiagen Li, Xiuning Yang, Chunli Bi, Min Wang, Liyuan Pu, Jianmeng Wang, Chunxiao Wang, Meizhen Xie, Yan Yao, Lina Jin
Software Mentions: 5
Published: over 6 years ago

10.1126/sciimmunol.abc3582

TMPRSS2 and TMPRSS4 promote SARS-CoV-2 infection of human small intestinal enterocytes
Cited by: 754
Author(s): Ruochen Zang, María Florencia Gómez Castro, Broc T. McCune, Qiru Zeng, Paul W. Rothlauf, Naomi Sonnek, Zhuoming Liu, Kevin Brulois, Xin Wang, Harry B. Greenberg, Michael S. Diamond, Matthew A. Ciorba, Sean P. J. Whelan, Siyuan Ding
Software Mentions: 5
Published: about 6 years ago

10.1128/mSystems.00132-17

Direct PCR Offers a Fast and Reliable Alternative to Conventional DNA Isolation Methods for Gut Microbiomes
Cited by: 18
Author(s): Elin Videvall, Maria Strandh, Anel Engelbrecht, S.W.P. Cloete, Charlie K. Cornwallis
Software Mentions: 5
Published: over 8 years ago

10.7150/jca.50868

Data mining analysis of the prognostic impact of N⁶-methyladenosine regulators in patients with endometrial adenocarcinoma
Cited by: 7
Author(s): Junyu Zhai, Shang Li, Yu Liu, Yanzhi Du
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0066856

The PyRosetta Toolkit: A Graphical User Interface for the Rosetta Software Suite
Cited by: 23
Author(s): Jared Adolf-Bryfogle, Roland L. Dunbrack
Software Mentions: 5
Published: about 13 years ago

10.1007/s00248-020-01657-9

Identifying Potential Hosts of Short-Branch Microsporidia
Cited by: 3
Author(s): Annemie Doliwa, Micah Dunthorn, Erika Rassoshanska, Frédéric Mahe, David Bass, Camila Duarte Ritter
Software Mentions: 5
Published: over 5 years ago

10.3389/fpls.2017.00367

Gene Classification and Mining of Molecular Markers Useful in Red Clover (Trifolium pratense) Breeding
Cited by: 14
Author(s): Jan Ištvánek, Jana Dluhošová, Petr Dluhoš, Lenka Pátková, J. Nedĕlník, Jana Řepková
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pone.0120117

The Level of Residual Dispersion Variation and the Power of Differential Expression Tests for RNA-Seq Data
Cited by: 1
Author(s): Gu Mi, Yanming Di
Software Mentions: 5
Published: over 11 years ago

10.1371/journal.pone.0159182

LPEseq: Local-Pooled-Error Test for RNA Sequencing Experiments with a Small Number of Replicates
Cited by: 6
Author(s): Jungsoo Gim, Sungho Won, Taesung Park
Software Mentions: 5
Published: almost 10 years ago

10.1534/g3.113.007849

Opposing Activities of DRM and MES-4 Tune Gene Expression and X-Chromosome Repression in<i>Caenorhabditis elegans</i>Germ Cells
Cited by: 8
Author(s): Tomoko M. Tabuchi, Andreas Rechtsteiner, Susan Strome, Kirsten Hagstrom
Software Mentions: 5
Published: over 12 years ago

10.1186/s13073-016-0319-7

Extracting a low-dimensional description of multiple gene expression datasets reveals a potential driver for tumor-associated stroma in ovarian cancer
Cited by: 20
Author(s): Safiye Çelik, Benjamin A. Logsdon, Stephanie L. Battle, Charles W. Drescher, Mara H. Rendi, R. David Hawkins, Su-In Lee
Software Mentions: 5
Published: about 10 years ago

10.3389/fnbeh.2016.00152

Mouse Social Network Dynamics and Community Structure are Associated with Plasticity-Related Brain Gene Expression
Cited by: 38
Author(s): Cait M. Williamson, Becca Franks, James P. Curley
Software Mentions: 5
Published: almost 10 years ago

10.3389/fcimb.2017.00234

Functional Redundancy and Ecological Innovation Shape the Circulation of Tick-Transmitted Pathogens
Cited by: 10
Author(s): Agustı́n Estrada-Peña, José de la Fuente, Alejandro Cabezas-Cruz
Software Mentions: 5
Published: about 9 years ago

10.3389/fmicb.2019.03138

Rare Species Shift the Structure of Bacterial Communities Across Sphagnum Compartments in a Subalpine Peatland
Cited by: 13
Author(s): Wen Tian, Xiang Xiao, Liyuan Ma, Stephanie Evers, Ruicheng Wang, Xuan Qiu, Hongmei Wang
Software Mentions: 5
Published: over 6 years ago

10.3389/fonc.2021.642841

Women’s Participation in Pap Smear Screening in a Developing Country: Evidence for Improving Health Systems
Cited by: 3
Author(s): Carolina Santamaría‐Ulloa, Ileana Quirós-Rojas, Melina Montero-López, Hazel Quesada-Leitón
Software Mentions: 5
Published: about 5 years ago

10.1007/s11111-019-00329-2

Missing millions: undercounting urbanization in India
Cited by: 17
Author(s): Kyle Onda, Parmanand Sinha, Andrea E. Gaughan, Forrest R. Stevens, Nikhil Kaza
Software Mentions: 5
Published: over 6 years ago

10.1186/1471-2105-11-221

GATExplorer: Genomic and Transcriptomic Explorer; mapping expression probes to gene loci, transcripts, exons and ncRNAs
Cited by: 77
Author(s): Alberto Risueño, Celia Fontanillo, Marcel E. Dinger, Javier De Las Rivas
Software Mentions: 5
Published: about 16 years ago

10.3390/ani10020356

Protection of Animals during Transport: Analysis of the Infringements Reported from 2009 to 2013 during On-Road Inspections in Italy
Cited by: 6
Author(s): Barbara Padalino, Roberta Barrasso, Daniele Tullio, Martina Zappaterra, Leonardo Nanni Costa, Giancarlo Bozzo
Software Mentions: 5
Published: over 6 years ago

10.1186/s12859-019-3017-9

Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods
Cited by: 8
Author(s): Shintaro Katayama, Tiina Skoog, Cilla Söderhäll, Elisabet Einarsdottir, Kaarel Krjutškov, Juha Kere
Software Mentions: 5
Published: almost 7 years ago

10.1186/s12885-020-07473-1

A gene-based survival score for lung adenocarcinoma by multiple transcriptional datasets analysis
Cited by: 4
Author(s): Yanlu Xiong, Jie Lei, Jinbo Zhao, Qiang Lü, Yangbo Feng, Tianyun Qiao, Shaowei Xin, Han Ye, Tao Jiang
Software Mentions: 5
Published: over 5 years ago

10.1186/s12863-020-00852-4

Transcriptome analysis identifies genes and co-expression networks underlying heat tolerance in pigs
Cited by: 9
Author(s): Yuqing He, Christian Maltecca, Francesco Tiezzi, Emmanuel Lozada Soto, W. L. Flowers
Software Mentions: 5
Published: about 6 years ago

10.1186/s12864-019-6127-x

Acute systemic inflammatory response to lipopolysaccharide stimulation in pigs divergently selected for residual feed intake
Cited by: 9
Author(s): Haibo Li, Kristina M. Feye, Yet Nguyen, Anoosh Rakhshandeh, Crystal L. Loving, Jack C. M. Dekkers, Nicholas K. Gabler, Christopher K. Tuggle
Software Mentions: 5
Published: almost 7 years ago

10.1186/1471-2164-10-22

BioMart – biological queries made easy
Cited by: 718
Author(s): Damian Smedley, Syed Haider, Benoît Ballester, Richard Holland, Darin London, Guðmundur Á. Þórisson, Arek Kasprzyk
Software Mentions: 5
Published: over 17 years ago

10.3389/fpubh.2021.590038

Network Analysis to Identify Communities Among Multiple Exposure Biomarkers Measured at Birth in Three Flemish General Population Samples
Cited by: 13
Author(s): Ilse Ottenbros, Eva Govarts, Erik Lebret, Roel Vermeulen, Greet Schoeters, Jelle Vlaanderen
Software Mentions: 5
Published: over 5 years ago

10.1128/mBio.02333-17

Multisystem Analysis of <i>Mycobacterium tuberculosis</i> Reveals Kinase-Dependent Remodeling of the Pathogen-Environment Interface
Cited by: 49
Author(s): Xavier Carette, John Platig, David C. Young, Michaela Helmel, A. E. Young, Zhe Wang, Lakshmi-Prasad Potluri, Cameron Stuver Moody, Jumei Zeng, Sladjana Prisic, Joseph N. Paulson, Jan Muntel, Ashoka V. R. Madduri, Jorge J. Velarde, Jacob A. Mayfield, Christopher P. Locher, Tiansheng Wang, John Quackenbush, Kyu Y. Rhee, D. Branch Moody, Hanno Steen, Robert N. Husson
Software Mentions: 5
Published: about 8 years ago

10.1038/s41419-019-1821-9

C-Jun drives melanoma progression in PTEN wild type melanoma cells
Cited by: 21
Author(s): Melanie Kappelmann‐Fenzl, Claudia Gebhard, Alexander Matthies, Silke Kuphal, Michael Rehli, Anja Boßerhoff
Software Mentions: 5
Published: almost 7 years ago

10.1016/j.cmet.2020.03.003

Microbiota-Derived Metabolites Suppress Arthritis by Amplifying Aryl-Hydrocarbon Receptor Activation in Regulatory B Cells
Cited by: 247
Author(s): Elizabeth C. Rosser, Christopher Piper, Diana E. Matei, Paul A. Blair, André F. Rendeiro, Michael Orford, Dagmar Alber, Thomas Krausgruber, Diego Catalán, Nigel Klein, Jessica Manson, Ignat Drozdov, Christoph Bock, Lucy R. Wedderburn, Simon Eaton, Claudia Mauri
Software Mentions: 5
Published: over 6 years ago

10.1016/j.celrep.2021.109423

RHOX10 drives mouse spermatogonial stem cell establishment through a transcription factor signaling cascade
Cited by: 11
Author(s): Kun Tan, H. C. Song, Miles Wilkinson
Software Mentions: 5
Published: about 5 years ago

10.1038/s41422-020-0385-7

Stabilization of heterochromatin by CLOCK promotes stem cell rejuvenation and cartilage regeneration
Cited by: 51
Author(s): Chuqian Liang, Zunpeng Liu, Moshi Song, Wei Li, Zeming Wu, Zehua Wang, Qiaoran Wang, Si Wang, Yan Ke, Liang Sun, Tomoaki Hishida, Yanning Cai, Juan Carlos Izpisúa Belmonte, Pedro Guillén, Piu Chan, Qi Zhou, Weiqi Zhang, Jing Qu, Guanghui Liu
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12863-015-0179-y

ALDsuite: Dense marker MALD using principal components of ancestral linkage disequilibrium
Cited by: 3
Author(s): Randall C. Johnson, George W. Nelson, Jean‐François Zagury, Cheryl A. Winkler
Software Mentions: 5
Published: over 11 years ago

10.3390/ijerph16040524

Age-Related Differences in miRNA Expression in Mexican-American Newborns and Children
Cited by: 6
Author(s): Karen Huen, Daneida Lizárraga, Katherine Kogut, Brenda Eskenazi, Nina Holland
Software Mentions: 5
Published: over 7 years ago

10.1186/s13058-019-1158-4

Machine learning techniques for personalized breast cancer risk prediction: comparison with the BCRAT and BOADICEA models
Cited by: 68
Author(s): Chang Ming, Valeria Viassolo, Nicole Probst‐Hensch, Pierre O. Chappuis, Ivo D. Dinov, Maria C. Katapodi
Software Mentions: 5
Published: about 7 years ago

10.3390/cells9020323

Painting of Fourth and the X-Linked 1.688 Satellite in D. melanogaster Is Involved in Chromosome-Wide Gene Regulation
Cited by: 6
Author(s): Samaneh Ekhteraei-Tousi, Jacob Lewerentz, Jonas Larsson
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0172977

Implications of high species turnover on the south-western Australian sandplains
Cited by: 20
Author(s): Neil Gibson, Suzanne M. Prober, R. Meissner, Stephen van Leeuwen
Software Mentions: 5
Published: over 9 years ago

10.3390/cells9091937

Arabidopsis thaliana cbp80, c2h2, and flk Knockout Mutants Accumulate Increased Amounts of Circular RNAs
Cited by: 7
Author(s): Anna Philips, Katarzyna Nowis, Michał Stelmaszczuk, Jan Podkowiński, Luiza Handschuh, Paulina Jackowiak, Marek Figlerowicz
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0248654

A comparative analysis of biogas production from tomato bio-waste in mesophilic batch and continuous anaerobic digestion systems
Cited by: 17
Author(s): Árpád Szilágyi, Attila Bodor, Norbert Tolvai, Kornél L. Kovács, László Bodai, Roland Wirth, Zoltán Bagi, Ágnes Szepesi, Viktória Markó, Balázs Kakuk, Naila Bounedjoum, Gábor Rákhely
Software Mentions: 5
Published: over 5 years ago