10.1038/s41598-017-01765-6

Detecting the Molecular System Signatures of Idiopathic Pulmonary Fibrosis through Integrated Genomic Analysis
Cited by: 20
Author(s): Indu Gangwar, Nitesh Kumar Sharma, Ganesh Panzade, Supriya Awasthi, Anurag Agrawal, Ravi Shankar
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0209524

Italian norms and naming latencies for 357 high quality color images
Cited by: 10
Author(s): Eduardo Navarrete, Giorgio Arcara, Sara Mondini, Barbara Penolazzi
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pntd.0007766

Enduring extreme climate: Effects of severe drought on Triatoma brasiliensis populations in wild and man-made habitats of the Caatinga
Cited by: 6
Author(s): Antonia C. Ribeiro, Otília Sarquis, Marli Maria Lima, Fernando Abad‐Franch
Software Mentions: 4
Published: almost 7 years ago

10.1186/s40462-020-00221-x

Foraging movements of breeding Kelp Gulls in South Africa
Cited by: 4
Author(s): Katharina Reusch, Nicolás M. Suárez, Peter G. Ryan, Lorien Pichegru
Software Mentions: 4
Published: almost 6 years ago

10.1242/dmm.042713

Leptin and fractalkine: Novel subcutaneous cytokines in burn injury
Cited by: 4
Author(s): Dominic Friston, Sini Junttila, Júlia Borges Paes Lemes, Helen Laycock, Jose Vicente Torres-Pérez, Elizabeth J. Want, Attila Gyenesei, I. Nagy
Software Mentions: 4
Published: over 6 years ago

10.1016/j.cell.2018.11.041

The Implication of Early Chromatin Changes in X Chromosome Inactivation
Cited by: 188
Author(s): J. Ż̷ylicz, Aurélie Bousard, Kristina Žumer, François Dossin, Eusra Mohammad, Simão Teixeira da Rocha, Björn Schwalb, Laurène Syx, Florent Dingli, Damarys Loew, Patrick Cramer, Edith Heard
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-020-62308-0

Hippocampal mitochondrial dysfunction and psychiatric-relevant behavioral deficits in spinocerebellar ataxia 1 mouse model
Cited by: 18
Author(s): Filip Tichánek, Martina Šalomová, Jan Jedlička, Jitka Kuncová, Pavel Pitule, Tereza Macanova, Zuzana Petrankova, Zdeněk Tůma, Jan Cendelín
Software Mentions: 4
Published: over 6 years ago

10.3390/cancers13030559

Type 2 Innate Lymphoid Cells Protect against Colorectal Cancer Progression and Predict Improved Patient Survival
Cited by: 29
Author(s): Qiutong Huang, Nicolas Jacquelot, Adele Preaudet, Soroor Hediyeh-Zadeh, Fernando Souza-Fonseca-Guimarães, Andrew N. J. McKenzie, Philip M. Hansbro, Melissa J. Davis, Lisa A. Mielke, Tracy L. Putoczki, Gabrielle T. Belz
Software Mentions: 4
Published: over 5 years ago

10.1093/molbev/msab147

Analysis of Genomic DNA from Medieval Plague Victims Suggests Long-Term Effect of <i>Yersinia pestis</i> on Human Immunity Genes
Cited by: 23
Author(s): Alexander Immel, Felix M. Key, András Szolek, Rodrigo Barquera, Madeline K. Robinson, Genelle F Harrison, William H. Palmer, Maria A. Spyrou, Julian Susat, Ben Krause‐Kyora, Kirsten I. Bos, Stephen Forrest, Diana Iraíz Hernández-Zaragoza, Jürgen Sauter, Ute V. Solloch, Alexander H. Schmidt, Verena J. Schuenemann, Ella Reiter, Madita S. Kairies, R. Weiss, Susanne M. Arnold, Joachim Wahl, Jill A. Hollenbach, Oliver Kohlbacher, Alexander Herbig, Paul J. Norman, Johannes Krause
Software Mentions: 4
Published: about 5 years ago

10.1128/MRA.01195-19

GenePiper, a Graphical User Interface Tool for Microbiome Sequence Data Mining
Cited by: 7
Author(s): W. M. Tong, Yuen-Yan Chan
Software Mentions: 4
Published: over 6 years ago

10.3390/ani11071950

Investigating the Effects of a Phytobiotics-Based Product on the Fecal Bacterial Microbiome of Weaned Pigs
Cited by: 8
Author(s): Anlly Fresno Rueda, Ryan S Samuel, Benoit St‐Pierre
Software Mentions: 4
Published: about 5 years ago

10.1186/s13075-020-02343-4

Single-cell transcriptome conservation in a comparative analysis of fresh and cryopreserved human skin tissue: pilot in localized scleroderma
Cited by: 17
Author(s): Emily Mirizio, Tracy Tabib, Xinjun Wang, Wei Chen, Christopher Liu, Robert Lafyatis, Heidi Jacobe, Kathryn S. Torok
Software Mentions: 4
Published: almost 6 years ago

10.3390/genes11121444

Evaluation of Single-Molecule Sequencing Technologies for Structural Variant Detection in Two Swedish Human Genomes
Cited by: 6
Author(s): Nazeefa Fatima, Anna Petri, Ulf Gyllensten, Lars Feuk, Adam Ameur
Software Mentions: 4
Published: over 5 years ago

10.3390/genes11070736

Growth Trajectories in Genetic Subtypes of Prader–Willi Syndrome
Cited by: 4
Author(s): Daisy A. Shepherd, Niels Vos, Susan M Reid, David E. Godler, Angela Guzys, Margarita Moreno‐Betancur, David J. Amor
Software Mentions: 4
Published: about 6 years ago

10.3390/genes10090725

A Transcriptome Analysis Identifies Biological Pathways and Candidate Genes for Feed Efficiency in DLY Pigs
Cited by: 9
Author(s): Xingwang Wang, Shaoyun Li, Jie Wu, Rongrong Ding, Jianping Quan, Enqin Zheng, Jie Yang, Zhenfang Wu
Software Mentions: 4
Published: almost 7 years ago

10.3390/genes8110329

Flanking Variation Influences Rates of Stutter in Simple Repeats
Cited by: 19
Author(s): August E. Woerner, Jonathan L. King, Bruce Budowle
Software Mentions: 4
Published: over 8 years ago

10.1534/g3.120.401306

Genotypic Characterization of the U.S. Peanut Core Collection
Cited by: 10
Author(s): Paul I. Otyama, R.S. Kulkarni, Kelly D. Chamberlin, Peggy Ozias‐Akins, Ye Chu, Lori M. Lincoln, Gregory E. MacDonald, Noelle L. Anglin, Sudhansu Dash, David J. Bertioli, David Fernández-Baca, Michelle A. Graham, Steven B. Cannon, Ethalinda K. S. Cannon
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0144409

The Activation-Induced Assembly of an RNA/Protein Interactome Centered on the Splicing Factor U2AF2 Regulates Gene Expression in Human CD4 T Cells
Cited by: 14
Author(s): Thomas Whisenant, Eigen Peralta, Lauren Aarreberg, Nana Gao, Steven R. Head, Phillip Ordoukhanian, James R. Williamson, Daniel R. Salomon
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.pone.0216679

Seasonal adaptations of the hypothalamo-neurohypophyseal system of the dromedary camel
Cited by: 8
Author(s): Fatma Zohra Djazouli Alim, Elena V. Romanova, Yea Ling Tay, Ahmad Yamin bin Abdul Rahman, Kok‐Gan Chan, Kar‐Wai Hong, Mark F. Rogers, Bruce R. Southey, Michael Greenwood, André Souza Mecawi, Mohammad Rais Mustafa, Nicole Mahy, Colin Campbell, José Antunes‐Rodrigues, Jonathan V. Sweedler, David Murphy, Charles C.T. Hindmarch
Software Mentions: 4
Published: about 7 years ago

10.2217/fvl-2020-0256

Epidemiologic features and clinical course of COVID-19: a retrospective analysis of 19 patients in Germany
Cited by: 1
Author(s): Sara Elgamasy, Eman El-Sayed Sakr, Mohamed Gomaa Kamel, Sherief Ghozy, Ghadeer Gamal Elsayed, Mostafa Mahmoud Fahmy, Ahmed Ghazy, Mohamed M. Ibrahim, Mostafa Ebraheem Morra
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0246367

Multi-omic modelling of inflammatory bowel disease with regularized canonical correlation analysis
Cited by: 6
Author(s): Lluís Revilla, Aida Mayorgas, A M Corraliza, Maria Carme Masamunt, Amira Metwaly, Dirk Haller, Eva Tristán, Anna Carrasco, María Esteve, Julián Panés, Elena Ricart, Juan José Lozano, Azucena Salas
Software Mentions: 4
Published: over 5 years ago

10.29252/.22.6.374

Application of Sparse Linear Discriminant Analysis and Elastic Net for Diagnosis of IgA Nephropathy: Statistical and Biological Viewpoints
Cited by: 6
Author(s): Tahereh Mohammadi Majd, Shiva Kalantari, Hadi Raeisi Shahraki, Mohsen Nafar, Afshin Almasi, Shiva Samavat, Mahmoud Parvin, Amir Hossein Hashemian
Software Mentions: 4
Published: almost 8 years ago

10.3390/microorganisms9051038

Microbial Hotspots in Lithic Microhabitats Inferred from DNA Fractionation and Metagenomics in the Atacama Desert
Cited by: 15
Author(s): Dirk Schulze‐Makuch, Daniel Lipus, Felix L. Arens, Mickaël Baqué, Till L. V. Bornemann, Jean Pierre Paul de Vera, Markus Flury, Jan Frösler, Jacob Heinz, Yunha Hwang, Samuel P. Kounaves, Kai Mangelsdorf, Rainer U. Meckenstock, Mark Pannekens, Alexander J. Probst, Johan S. Sáenz, Janosch Schirmack, Michael Schloter, Philippe Schmitt‐Kopplin, Bernd Uwe Schneider, Jenny Uhl, Gisle Vestergaard, Bernardita Valenzuela, Pedro Zamorano, Dirk Wagner
Software Mentions: 4
Published: about 5 years ago

10.3389/fpls.2021.660658

Substrate Type Influences the Structure of Epiphyte Communities and the Growth of Posidonia oceanica Seedlings
Cited by: 1
Author(s): Davide De Battisti, Elena Balestri, G. Pardi, Virginia Menicagli, Claudio Lardicci
Software Mentions: 4
Published: over 5 years ago

10.3389/fpls.2016.01651

Modeling the Morphometric Evolution of the Maize Shoot Apical Meristem
Cited by: 10
Author(s): Samuel Leiboff, Christopher K. DeAllie, Michael J. Scanlon
Software Mentions: 4
Published: almost 10 years ago

10.3389/fpls.2018.00322

Genetic and Developmental Basis for Increased Leaf Thickness in the Arabidopsis Cvi Ecotype
Cited by: 21
Author(s): Viktoriya Coneva, Daniel H. Chitwood
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pgen.1009477

Drivers of linkage disequilibrium across a species’ geographic range
Cited by: 10
Author(s): Kay Lucek, Yvonne Willi
Software Mentions: 4
Published: over 5 years ago

10.3389/fgene.2019.00858

pathfindR: An R Package for Comprehensive Identification of Enriched Pathways in Omics Data Through Active Subnetworks
Cited by: 189
Author(s): Ege Ülgen, Özan Özışık, Uğur Sezerman
Software Mentions: 4
Published: almost 7 years ago

10.3389/fgene.2020.00629

Genomics of Heat Tolerance in Reproductive Performance Investigated in Four Independent Maternal Lines of Pigs
Cited by: 16
Author(s): Francesco Tiezzi, Luiz F. Brito, Jeremy Howard, Yongjun Huang, Kent Gray, Charles V. Schwab, Justin Fix, Christian Maltecca
Software Mentions: 4
Published: about 6 years ago

10.3389/fpls.2017.00963

Recent Genetic Gains in Nitrogen Use Efficiency in Oilseed Rape
Cited by: 33
Author(s): Andreas Stahl, Mara Pfeifer, Matthias Frisch, Benjamin Wittkop, Rod J. Snowdon
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pone.0204038

Shifts in ovine cardiopulmonary microRNA expression in late gestation and the perinatal period
Cited by: 3
Author(s): Ramona Krauss, Belinda Phipson, Alicia Oshlack, Nikita Prasad-Gupta, Michael Cheung, Joseph J. Smolich, Salvatore Pepe
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0101467

Transcriptome Analysis Reveals Signature of Adaptation to Landscape Fragmentation
Cited by: 22
Author(s): Panu Somervuo, Jouni Kvist, Suvi Ikonen, Petri Auvinen, Lars Paulín, Patrik Koskinen, Liisa Holm, Minna Taipale, Anne Duplouy, Annukka Ruokolainen, Suvi Saarnio, Jukka Sirén, Jukka Kohonen, Jukka Corander, Mikko J. Frilander, Virpi Ahola, Ilkka Hanski
Software Mentions: 4
Published: about 12 years ago

10.1371/journal.pone.0168573

Distinctive Feature of Microbial Communities and Bacterial Functional Profiles in Tricholoma matsutake Dominant Soil
Cited by: 33
Author(s): Seung‐Yoon Oh, Jonathan J. Fong, Myung Soo Park, Young Woon Lim
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0235224

A method to estimate population densities and electricity consumption from mobile phone data in developing countries
Cited by: 13
Author(s): Hadrien Salat, Zbigniew Smoreda, Markus Schläpfer
Software Mentions: 4
Published: about 6 years ago

10.1186/s12915-021-01153-7

Skin-penetrating nematodes exhibit life-stage-specific interactions with host-associated and environmental bacteria
Cited by: 4
Author(s): Ivan N Chavez, Taylor M Brown, Adrien Assié, Astra S. Bryant, Buck S. Samuel, Elissa A. Hallem
Software Mentions: 4
Published: almost 5 years ago

10.3389/fonc.2018.00095

CDKN2A Copy Number Loss Is an Independent Prognostic Factor in HPV-Negative Head and Neck Squamous Cell Carcinoma
Cited by: 35
Author(s): William S. Chen, Ranjit S. Bindra, Allen Mo, Thomas J. Hayman, Zain Husain, Joseph N. Contessa, Stephen G. Gaffney, Jeffrey P. Townsend, James B. Yu
Software Mentions: 4
Published: over 8 years ago

10.1186/s12967-021-03031-w

Integrative analysis and experiments to explore angiogenesis regulators correlated with poor prognosis, immune infiltration and cancer progression in lung adenocarcinoma
Cited by: 6
Author(s): Songhua Cai, Xiaotong Guo, Chujian Huang, Youjun Deng, Ling Du, Wenyi Liu, Chenglin Yang, Hang Zhao, Kai Ma, Lixu Wang, Jié He, Zhentao Yu
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pgen.1008181

Hepatitis C virus leaves an epigenetic signature post cure of infection by direct-acting antivirals
Cited by: 101
Author(s): Shira Perez, Antony Kaspi, Tom Domovitz, Ateret Davidovich, Anat Lavi-Itzkovitz, Tomer Meirson, Jacinta A Holmes, Chia Yen Dai, Chung Feng Huang, Raymond T. Chung, Nimer Assy, Assam El‐Osta, Gur Yaari, Salomon M. Stemmer, Ming‐Lung Yu, Izhak Haviv, Meital Gal-Tanamy
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pgen.1004953

Shade Avoidance Components and Pathways in Adult Plants Revealed by Phenotypic Profiling
Cited by: 73
Author(s): Kazunari Nozue, An V. Tat, Upendra Kumar Devisetty, Matthew C. Robinson, Maxwell R. Mumbach, Yasunori Ichihashi, Saradadevi Lekkala, Julin N. Maloof
Software Mentions: 4
Published: over 11 years ago

10.1371/journal.pgen.1008797

UVR8-mediated inhibition of shade avoidance involves HFR1 stabilization in Arabidopsis
Cited by: 23
Author(s): Eleni Tavridou, Emanuel Schmid‐Siegert, Christian Fankhauser, Roman Ulm
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1004824

Microevolution of Candida albicans in Macrophages Restores Filamentation in a Nonfilamentous Mutant
Cited by: 64
Author(s): Anja Wartenberg, Jörg Linde, Ronny Martin, Maria Schreiner, Fabian Horn, Ilse D. Jacobsen, Sabrina Jenull, Thomas Wolf, Karl Kuchler, Reinhard Guthke, Oliver Kurzai, Anja Forche, Christophe d’Enfert, Sascha Brunke, Bernhard Hube
Software Mentions: 4
Published: over 11 years ago

10.1186/s13059-021-02340-z

HDAC4 degradation during senescence unleashes an epigenetic program driven by AP-1/p300 at selected enhancers and super-enhancers
Cited by: 22
Author(s): Eros Di Giorgio, Harikrishnareddy Paluvai, Emiliano Dalla, Liliana Ranzino, Alessandra Renzini, Viviana Moresi, Martina Minisini, Raffaella Picco, Claudio Brancolini
Software Mentions: 4
Published: over 5 years ago

10.1111/tpj.14299

Hybrid sequencing reveals insight into heat sensing and signaling of bread wheat
Cited by: 46
Author(s): Xiaoming Wang, Siyuan Chen, Song Xue, Danni Liu, Peng Zhao, Yunze Lu, Yanbing Cheng, Zhenshan Liu, Xiaojun Nie, Weining Song, Qixin Sun, Shengbao Xu, Chuang Ma
Software Mentions: 4
Published: over 7 years ago

10.3389/fmicb.2020.00993

The Core Gut Microbiome of Black Soldier Fly (Hermetia illucens) Larvae Raised on Low-Bioburden Diets
Cited by: 71
Author(s): Thomas Klammsteiner, Andreas Walter, Tajda Bogataj, Carina Desirée Heussler, Blaž Stres, Florian M. Steiner, Birgit C. Schlick‐Steiner, Wolfgang Arthofer, Heribert Insam
Software Mentions: 4
Published: about 6 years ago

10.1038/srep29122

The transcriptomes of novel marmoset monkey embryonic stem cell lines reflect distinct genomic features
Cited by: 16
Author(s): Katharina Debowski, Charis Drummer, Jana Lentes, Maren Cors, Ralf Dressel, Thomas Lingner, Gabriela Salinas-Riester, Sigrid Fuchs, Erika Sasaki, Rüdiger Behr
Software Mentions: 4
Published: about 10 years ago

10.1038/s41598-018-29329-2

Determination of system level alterations in host transcriptome due to Zika virus (ZIKV) Infection in retinal pigment epithelium
Cited by: 33
Author(s): Pawan Kumar Singh, Indu Khatri, Alokkumar Jha, Carla D. Pretto, Katherine R. Spindler, Vaithilingaraja Arumugaswami, Shailendra Giri, Ashok Kumar, Manoj Bhasin
Software Mentions: 4
Published: about 8 years ago

10.3390/genes8020068

Differential Binding of Three Major Human ADAR Isoforms to Coding and Long Non-Coding Transcripts
Cited by: 34
Author(s): Josephine Galipon, Rintaro Ishii, Yutaka Suzuki, Masaru Tomita, Kumiko Ui-Tei
Software Mentions: 4
Published: over 9 years ago

10.3389/fmicb.2018.00899

A Mosaic of Geothermal and Marine Features Shapes Microbial Community Structure on Deception Island Volcano, Antarctica
Cited by: 28
Author(s): Amanda Gonçalves Bendia, Camila Negrão Signori, Diego Castillo Franco, Rubens Tadeu Delgado Duarte, Brendan J. M. Bohannan, Vivian H. Pellizari
Software Mentions: 4
Published: over 8 years ago

10.3389/fmicb.2021.636986

Metabolic Potential, Ecology and Presence of Associated Bacteria Is Reflected in Genomic Diversity of Mucoromycotina
Cited by: 10
Author(s): Anna Muszewska, Alicja Okrasińska, Kamil Steczkiewicz, Olga Drgas, Małgorzata Orłowska, Urszula Perlińska-Lenart, Tamara Aleksandrzak‐Piekarczyk, Katarzyna Szatraj, Urszula Zielenkiewicz, Sebastian Piłsyk, Ewa Malc, Piotr A. Mieczkowski, Joanna S. Kruszewska, Przemysław Bernat, Julia Pawłowska
Software Mentions: 4
Published: over 5 years ago

10.1093/molbev/msaa172

Gene Loss Predictably Drives Evolutionary Adaptation
Cited by: 49
Author(s): Jana Helsen, Karin Voordeckers, Laura Vanderwaeren, Toon Santermans, Maria Tsontaki, Kevin J. Verstrepen, Rob Jelier
Software Mentions: 4
Published: about 6 years ago

10.3390/microorganisms7010017

Socioeconomic Status and the Gut Microbiome: A TwinsUK Cohort Study
Cited by: 84
Author(s): Ruth C E Bowyer, Matthew A. Jackson, Caroline I. Le Roy, Mary Ní Lochlainn, Timothy D. Spector, Jennifer Beam Dowd, Claire J. Steves
Software Mentions: 4
Published: over 7 years ago

10.3390/microorganisms9010149

Hallmarks of Basidiomycete Soft- and White-Rot in Wood-Decay -Omics Data of Two Armillaria Species
Cited by: 21
Author(s): Niranjan P. Sahu, Zsolt Merényi, Balázs Bálint, Brigitta Kiss, György Sipos, Rebecca A. Owens, László G. Nagy
Software Mentions: 4
Published: over 5 years ago

10.1001/jamanetworkopen.2018.4080

Association of Concomitant Use of Cholinesterase Inhibitors or Memantine With Cognitive Decline in Alzheimer Clinical Trials
Cited by: 17
Author(s): Richard E. Kennedy, Gary Cutter, Mackenzie E. Fowler, Lon S. Schneider
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0151984

Expectation-Maximization Binary Clustering for Behavioural Annotation
Cited by: 99
Author(s): Jordi Garriga, John R. B. Palmer, Aitana Oltra, Frederic Bartumeus
Software Mentions: 4
Published: over 10 years ago

10.3389/fmicb.2021.679409

Zetaproteobacteria Pan-Genome Reveals Candidate Gene Cluster for Twisted Stalk Biosynthesis and Export
Cited by: 5
Author(s): Elif Koeksoy, Oliver Bezuidt, Timm Bayer, Clara S. Chan, David Emerson
Software Mentions: 4
Published: about 5 years ago

10.1093/gigascience/giaa127

GigaSOM.jl: High-performance clustering and visualization of huge cytometry datasets
Cited by: 6
Author(s): Miroslav Kratochvíl, Oliver Hunewald, Laurent Heirendt, Vasco Verissimo, Jiřı́ Vondrášek, Venkata Satagopam, Reinhard Schneider, Christophe Trefois, Markus Ollert
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2020.01636

Evidence of Vent-Adaptation in Sponges Living at the Periphery of Hydrothermal Vent Environments: Ecological and Evolutionary Implications
Cited by: 12
Author(s): Magdalena N. Georgieva, Sergi Taboada, Ana Riesgo, Cristina Díez‐Vives, Fabio C. De Leo, Rachel M. Jeffreys, Jonathan T. Copley, Crispin T. S. Little, Pilar Ríos, Javier Cristobo, Jon Thomassen Hestetun, Adrian G. Glover
Software Mentions: 4
Published: about 6 years ago

10.3389/fmicb.2021.720513

DAnIEL: A User-Friendly Web Server for Fungal ITS Amplicon Sequencing Data
Cited by: 8
Author(s): Daniel Loos, Lu Zhang, Christine Beemelmanns, Oliver Kurzai, Gianni Panagiotou
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12859-019-2880-8

Cell segmentation methods for label-free contrast microscopy: review and comprehensive comparison
Cited by: 126
Author(s): Pavel Kopel, Jan Balvan, Josef Jaroš, Florian Jug, Radim Kolář, Michal Masařík, Jaromír Gumulec
Software Mentions: 4
Published: about 7 years ago

10.3389/fmicb.2017.02379

Responses of Microbial Community Composition to Temperature Gradient and Carbon Steel Corrosion in Production Water of Petroleum Reservoir
Cited by: 35
Author(s): Xiaoxiao Li, Tao Yang, Serge Maurice Mbadinga, Jinfeng Liu, Shi‐Zhong Yang, Ji‐Dong Gu, Bo‐Zhong Mu
Software Mentions: 4
Published: over 8 years ago

10.1038/s41375-021-01221-5

Temporal multiomic modeling reveals a B-cell receptor proliferative program in chronic lymphocytic leukemia
Cited by: 5
Author(s): Cédric Schleiss, Raphaël Carapito, Luc‐Matthieu Fornecker, Leslie Muller, Nicodème Paul, Ouria Tahar, Angélique Pichot, Manuela Tavian, Alina Nicolae, Laurent Miguet, Laurent Mauvieux, Raoul Herbrecht, Sarah Cianférani, Jean–Noël Freund, Myriam Maumy-Bertrand, Seiamak Bahram, Frédèric Bertrand, Laurent Vallat
Software Mentions: 4
Published: over 5 years ago

10.1186/s12859-017-1790-x

Bayesian Unidimensional Scaling for visualizing uncertainty in high dimensional datasets with latent ordering of observations
Cited by: 13
Author(s): Linh P. Nguyen, Susan Holmes
Software Mentions: 4
Published: almost 9 years ago

10.1099/mgen.0.000319

Landscape of gene expression variation of natural isolates of Cryptococcus neoformans in response to biologically relevant stresses
Cited by: 22
Author(s): Yu Chen, Chen Yuan, Christopher A. Desjardins, Jennifer L. Tenor, Dena L. Toffaletti, Charles Giamberardino, Anastasia P. Litvintseva, John R. Perfect, Christina A. Cuomo
Software Mentions: 4
Published: over 6 years ago

10.3390/metabo10120513

Single-Cell Transcriptional Profiling of Mouse Islets Following Short-Term Obesogenic Dietary Intervention
Cited by: 12
Author(s): Annie R. Piñeros, Hongyu Gao, Wenting Wu, Yunlong Liu, Sarah A. Tersey, Raghavendra G. Mirmira
Software Mentions: 4
Published: over 5 years ago

10.3389/fmicb.2019.00348

Mycobiome Diversity in Traditionally Prepared Starters for Alcoholic Beverages in India by High-Throughput Sequencing Method
Cited by: 21
Author(s): Shankar Prasad Sha, Mangesh V. Suryavanshi, Jyoti Prakash Tamang
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pbio.2005359

Comparative genomics and the nature of placozoan species
Cited by: 63
Author(s): Michael Eitel, Warren R. Francis, Frédérique Varoqueaux, Jean Daraspe, Hans-Jürgen Osigus, Stefan Krebs, Sergio Vargas, Helmut Blum, Gray A. Williams, Bernd Schierwater, Gert Wörheide
Software Mentions: 4
Published: about 8 years ago

10.1002/cam4.3275

A prognostic model composed of four long noncoding RNAs predicts the overall survival of Asian patients with hepatocellular carcinoma
Cited by: 8
Author(s): Xuefeng Gu, Hongbo Li, Ling Sha, Wei Zhao
Software Mentions: 4
Published: about 6 years ago

10.1186/s12864-019-6021-6

Transcriptomics analysis revealing candidate genes and networks for sex differentiation of yesso scallop (Patinopecten yessoensis)
Cited by: 17
Author(s): Liqing Zhou, Zhihong Liu, Yan Dong, Xiujun Sun, Biao Wu, Tao Yu, Yao Zheng, Aiguo Yang, Qing Zhao, Dan Zhao
Software Mentions: 4
Published: almost 7 years ago

10.3389/fcimb.2018.00181

Macrophage Activation Marker Neopterin: A Candidate Biomarker for Treatment Response and Relapse in Visceral Leishmaniasis
Cited by: 14
Author(s): Anke E Kip, Monique Wasunna, Fabiana Alves, Jan H.M. Schellens, Jos H. Beijnen, Ahmed Musa, E. A. G. Khalil, Thomas P. C. Dorlo
Software Mentions: 4
Published: about 8 years ago

10.1186/s40246-018-0170-6

Forward and reverse mutations in stages of cancer development
Cited by: 11
Author(s): Taobo Hu, Yogesh Kumar, Shazia Iram, Si Duan, Yang Li, Lei Chen, Jinfei Chen, Rong Yin, Ava Kwong, Gilberto Ka Kit Leung, Wai Kin Mat, Zhenggang Wu, Xi Long, Colin Chan, Si Chen, Peggy Lee, Siu Kin Ng, Timothy Y. C. Ho, Jianfeng Yang, Xueliang Ding, Suk Ying Tsang, Xinrui Zhou, Danhua Zhang, Enbo Zhou, Lin Xu, Wai-sang Poon, Hongyang Wang, Hong Xue
Software Mentions: 4
Published: almost 8 years ago

10.1007/s00330-017-5031-5

Optimising preoperative risk stratification tools for prostate cancer using mpMRI
Cited by: 17
Author(s): Lars Anders Rokne Reisæter, Jurgen J. Fütterer, Are Losnegård, Yngve Nygård, Jan Ankar Monssen, Karsten Gravdal, Ole J. Halvorsen, Lars A. Akslen, Martin Biermann, Svein A. Haukaas, Jarle Rørvik, Christian Beisland
Software Mentions: 4
Published: almost 9 years ago

10.3390/ijms21238898

MicroRNA Profiling in Oesophageal Adenocarcinoma Cell Lines and Patient Serum Samples Reveals a Role for miR-451a in Radiation Resistance
Cited by: 8
Author(s): Frederike Butz, Ann-Kathrin Eichelmann, George C. Mayne, Tingting Wang, Isabell Bastian, Karen Chiam, Shashikanth Marri, Pamela J. Sykes, Bas P. L. Wijnhoven, Eelke Toxopeus, Michael Michael, Christos S. Karapetis, Richard Hummel, David I. Watson, Damian J. Hussey
Software Mentions: 4
Published: over 5 years ago

10.3390/microorganisms9091976

Mussel Mass Mortality and the Microbiome: Evidence for Shifts in the Bacterial Microbiome of a Declining Freshwater Bivalve
Cited by: 15
Author(s): Jordan Richard, Lewis J. Campbell, Eric Leis, Rose E. Agbalog, Chris D. Dunn, Diane L. Waller, Susan Knowles, Joel Putnam, Tony L. Goldberg
Software Mentions: 4
Published: almost 5 years ago

10.3389/fcimb.2020.00086

Methodological Insight Into Mosquito Microbiome Studies
Cited by: 12
Author(s): Sonia M. Rodríguez‐Ruano, Eliška Juhaňáková, Jakub Vávra, Eva Nováková
Software Mentions: 4
Published: over 6 years ago

10.3389/fcell.2021.666376

MCM4 Is a Novel Biomarker Associated With Genomic Instability, BRCAness Phenotype, and Therapeutic Potentials in Soft-Tissue Sarcoma
Cited by: 2
Author(s): Qi Liu, Qiyuan Bao, Yanguang Xu, Yucheng Fu, Zhijian Jin, Jun Wang, Weibin Zhang, Yuhui Shen
Software Mentions: 4
Published: about 5 years ago

10.1186/s12885-020-07716-1

The R-enantiomer of ketorolac reduces ovarian cancer tumor burden in vivo
Cited by: 10
Author(s): Martha M. Grimes, S. Ray Kenney, Dayna Dominguez, Kathryn J. Brayer, Yi Guo, Angela Wandinger‐Ness, Laurie G. Hudson
Software Mentions: 4
Published: over 5 years ago

10.12688/f1000research.4510.2

Cytoscape tools for the web age: D3.js and Cytoscape.js exporters
Cited by: 38
Author(s): Keiichiro Ono, Barry Demchak, Trey Ideker
Software Mentions: 4
Published: almost 12 years ago

10.12688/f1000research.15789.2

TRGAted: A web tool for survival analysis using protein data in the Cancer Genome Atlas.
Cited by: 18
Author(s): Nicholas Borcherding, Nicholas L. Bormann, Andrew P. Voigt, Weizhou Zhang
Software Mentions: 4
Published: almost 8 years ago

10.1186/s12864-018-4457-8

Genome-wide identification and comprehensive analysis of microRNAs and phased small interfering RNAs in watermelon
Cited by: 10
Author(s): Li Liu, Shuchao Ren, Junqiang Guo, Qingyi Wang, Xiaotuo Zhang, Peiran Liao, Shipeng Li, Ramanjulu Sunkar, Yun Zheng
Software Mentions: 4
Published: over 8 years ago

10.1038/s12276-021-00627-6

Gut microbiota restoration through fecal microbiota transplantation: a new atopic dermatitis therapy
Cited by: 36
Author(s): Jong-Hwa Kim, Ki‐Young Kim, Wonyong Kim
Software Mentions: 4
Published: over 5 years ago

10.1186/s12874-016-0277-1

Clinical prediction in defined populations: a simulation study investigating when and how to aggregate existing models
Cited by: 21
Author(s): Glen P. Martin, Mamas A. Mamas, Niels Peek, Iain Buchan, Matthew Sperrin
Software Mentions: 4
Published: over 9 years ago

10.1186/s12864-016-2403-1

RNA sequencing-based analysis of the spleen transcriptome following infectious bronchitis virus infection of chickens selected for different mannose-binding lectin serum concentrations
Cited by: 20
Author(s): Edin Hamzić, Rikke Brødsgaard Kjærup, Núria Mach, Guilietta Minozzi, Francesco Strozzi, V. Gualdi, J. L. Williams, Jun Chen, Eva Wattrang, Bart Buitenhuis, Helle R. Juul‐Madsen, Tina Sørensen Dalgaard
Software Mentions: 4
Published: over 10 years ago

10.1007/s00259-018-4217-7

Longitudinal association between astrocyte function and glucose metabolism in autosomal dominant Alzheimer’s disease
Cited by: 34
Author(s): Stephen F. Carter, Konstantinos Chiotis, Agneta Nordberg, Elena Rodriguez‐Vieitez
Software Mentions: 4
Published: over 7 years ago

10.1186/s13072-019-0258-9

Integrated epigenomic analysis stratifies chromatin remodellers into distinct functional groups
Cited by: 21
Author(s): Katherine A. Giles, Cathryn M. Gould, Qian Du, Ksenia Skvortsova, Jenny Z. Song, Madhavi P. Maddugoda, Joanna Achinger-Kawecka, Clare Stirzaker, Susan J. Clark, Phillippa C. Taberlay
Software Mentions: 4
Published: over 7 years ago

10.1007/s11356-019-06268-7

Association between ambient air pollution exposure and infants small for gestational age in Huangshi, China: a cross-sectional study
Cited by: 13
Author(s): Jiayuan Hao, Faxue Zhang, Dieyi Chen, Yanyun Liu, Lina Liao, Chengmin Shen, Tianyu Li, Jingling Liao, Lu Ma
Software Mentions: 4
Published: almost 7 years ago

10.1186/s12864-018-5089-8

Impact of energy restriction during late gestation on the muscle and blood transcriptome of beef calves after preconditioning
Cited by: 19
Author(s): Letícia P Sanglard, Moysés Nascimento, Philipe Moriel, Jeffrey R. Sommer, M.S. Ashwell, M. H. Poore, Márcio de Souza Duarte, Nick V. L. Serão
Software Mentions: 4
Published: almost 8 years ago

10.1186/1471-2164-14-266

Characterization of differential transcript abundance through time during Nematostella vectensis development
Cited by: 73
Author(s): Rebecca R. Helm, Stefan Siebert, Sarah Tulin, Joel Smith, Casey W. Dunn
Software Mentions: 4
Published: over 13 years ago

10.1186/s12864-018-5146-3

Cell-type specific RNA-Seq reveals novel roles and regulatory programs for terminally differentiated Dictyostelium cells
Cited by: 18
Author(s): Koryu Kin, Gillian Forbes, Andrew Cassidy, Pauline Schaap
Software Mentions: 4
Published: almost 8 years ago

10.1186/s12864-016-3345-3

TRPM2 SNP genotype previously associated with susceptibility to Rhodococcus equi pneumonia in Quarter Horse foals displays differential gene expression identified using RNA-Seq
Cited by: 6
Author(s): Cole M. McQueen, Canaan Whitfield-Cargile, Kranti Konganti, Glenn P. Blodgett, Scott V. Dindot, Noah D. Cohen
Software Mentions: 4
Published: over 9 years ago

10.1002/ece3.5781

Limited seed retention during winter inhibits vegetation establishment in spring, affecting lateral marsh expansion capacity
Cited by: 12
Author(s): M. van Regteren, I. Colosimo, P. de Vries, M.E.B. van Puijenbroek, Victor Sebastiaan Freij, M.J. Baptist, Kelly Elschot
Software Mentions: 4
Published: almost 7 years ago

10.1002/ece3.7506

Onset of morning activity in bumblebee foragers under natural low light conditions
Cited by: 6
Author(s): Katie Hall, Théo Robert, Kevin J. Gaston, Natalie Hempel de Ibarra
Software Mentions: 4
Published: over 5 years ago

10.1002/ece3.6413

Gut microbiomes of sympatric Amazonian wood‐eating catfishes (Loricariidae) reflect host identity and little role in wood digestion
Cited by: 12
Author(s): Mark McCauley, Donovan P. German, Nathan K. Lujan, Colin R. Jackson
Software Mentions: 4
Published: about 6 years ago

10.1186/s12940-016-0119-y

Does local ambient temperature impact children’s blood pressure? A Chinese National Survey
Cited by: 16
Author(s): Li Qin, Hyewon Lee, Wei Dong, Yi Song, Jie Song, Jun Ma, Hai Jun Wang
Software Mentions: 4
Published: over 10 years ago

10.1002/ece3.6299

Interspecific comparison of the fecal microbiota structure in three Arctic migratory bird species
Cited by: 13
Author(s): Hyunjun Cho, Won Young Lee
Software Mentions: 4
Published: about 6 years ago

10.1186/s12859-019-2800-y

Integrating data and knowledge to identify functional modules of genes: a multilayer approach
Cited by: 10
Author(s): Lifan Liang, Vicky Chen, Kunju Zhu, Xiao-Nan Fan, Xinghua Lu, Songjian Lu
Software Mentions: 4
Published: over 7 years ago

10.3390/cancers12040892

Integrated Analysis of RNA-Binding Proteins in Glioma
Cited by: 43
Author(s): Zhixing Wang, Wanjun Tang, Jing Yuan, Boqin Qiang, Wei Han, Xiaozhong Peng
Software Mentions: 4
Published: over 6 years ago

10.3390/cancers12020381

NASA GeneLab Platform Utilized for Biological Response to Space Radiation in Animal Models
Cited by: 16
Author(s): J. Tyson McDonald, R. Stainforth, Jack Miller, Thomas J. Cahill, Willian A. da Silveira, Komal S. Rathi, Gary Hardiman, Deanne Taylor, Sylvain V. Costes, Vinita Chauhan, Robert Meller, Afshin Beheshti
Software Mentions: 4
Published: over 6 years ago

10.3390/cancers12092466

Expression Profiling of Extracellular Matrix Genes Reveals Global and Entity-Specific Characteristics in Adenoid Cystic, Mucoepidermoid and Salivary Duct Carcinomas
Cited by: 16
Author(s): Christoph Arolt, Moritz Meyer, Franziska Hoffmann, Svenja Wagener‐Ryczek, David Schwarz, Lisa Nachtsheim, Dirk Beutner, Margarete Odenthal, Orlando Guntinas‐Lichius, Reinhard Buettner, Ferdinand von Eggeling, Jens Peter Klußmann, Alexander Quaas
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12885-015-1179-z

Prediction of long noncoding RNA functions with co-expression network in esophageal squamous cell carcinoma
Cited by: 57
Author(s): Yibin Hao, Wei Wu, Fachun Shi, Rodrigo Juliani Siqueira Dalmolin, Ming Yan, Fei Tian, Xiaobing Chen, Guoyong Chen, Wei Cao
Software Mentions: 4
Published: over 11 years ago

10.1186/s12918-018-0596-4

Single molecules can operate as primitive biological sensors, switches and oscillators
Cited by: 10
Author(s): Rosa D. Hernansaiz-Ballesteros, Luca Cardelli, Attila Csikász‐Nagy
Software Mentions: 4
Published: about 8 years ago