10.1186/s12885-016-2948-z

Conservation of immune gene signatures in solid tumors and prognostic implications
Cited by: 62
Author(s): Julia Chifman, Ashok Pullikuth, Jeff W. Chou, Davide Bedognetti, Lance D. Miller
Software Mentions: 4
Published: over 9 years ago

10.1186/1471-2164-15-341

EXPRSS: an Illumina based high-throughput expression-profiling method to reveal transcriptional dynamics
Cited by: 34
Author(s): Ghanasyam Rallapalli, Eric Kemen, Alexandre Robert-Seilaniantz, Cécile Segonzac, Graham J. Etherington, Kee Hoon Sohn, Dan MacLean, Jonathan D. G. Jones
Software Mentions: 4
Published: over 12 years ago

10.1186/s12916-020-01726-3

COVID-19 length of hospital stay: a systematic review and data synthesis
Cited by: 385
Author(s): Eleanor M. Rees, Emily Nightingale, Yalda Jafari, Naomi R. Waterlow, Samuel Clifford, Carl A. B. Pearson, Thibaut Jombart, Simon R. Procter, Gwenan M. Knight
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0118726

Mixture Models for Distance Sampling Detection Functions
Cited by: 14
Author(s): David L. Miller, Len Thomas
Software Mentions: 4
Published: over 11 years ago

10.1186/1471-2164-15-910

Transcriptomic portrait of human Mesenchymal Stromal/Stem cells isolated from bone marrow and placenta
Cited by: 50
Author(s): Beatriz Rosón-Burgo, Fermín Sánchez‐Guijo, Consuelo del Cañizo, Javier De Las Rivas
Software Mentions: 4
Published: almost 12 years ago

10.1002/ece3.7168

Rise and fall of †Pycnodontiformes: Diversity, competition and extinction of a successful fish clade
Cited by: 10
Author(s): John Joseph Cawley, Giuseppe Marramà, Giorgio Carnevale, Jaime A. Villafaña, Faviel A. López‐Romero, Jürgen Kriwet
Software Mentions: 4
Published: over 5 years ago

10.3389/fimmu.2020.559810

Developmental Dysfunction of the Central Nervous System Lymphatics Modulates the Adaptive Neuro-Immune Response in the Perilesional Cortex in a Mouse Model of Traumatic Brain Injury
Cited by: 11
Author(s): Sara Wojciechowski, Anaïs Virenque, Maria Vihma, Barbara Galbardi, Erin Jane Rooney, Meike Hedwig Keuters, Salli Antila, Jari Koistinaho, Francesco M. Noé
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0038149

Transcriptional Profiling of Human Brain Endothelial Cells Reveals Key Properties Crucial for Predictive In Vitro Blood-Brain Barrier Models
Cited by: 164
Author(s): Eduard Urich, Stanley E. Lazic, Juliette Molnos, Isabelle Wells, Per Ola Freskgård
Software Mentions: 4
Published: about 14 years ago

10.1371/journal.pone.0025023

Determining Signalling Nodes for Apoptosis by a Genetic High-Throughput Screen
Cited by: 5
Author(s): Bevan Lin, Derek Huntley, Ghada AbuAli, Sarah R. Langley, George Sindelar, Enrico Petretto, Sarah Butcher, Stefan Grimm
Software Mentions: 4
Published: almost 15 years ago

10.1371/journal.pone.0001061

Cell Cycle Genes Are the Evolutionarily Conserved Targets of the E2F4 Transcription Factor
Cited by: 52
Author(s): Caitlin B. Conboy, Christiana Spyrou, Natalie Thorne, Elizabeth J. Wade, Nuno L. Barbosa‐Morais, Michael D. Wilson, Arindam Bhattacharjee, Richard A. Young, Simon Tavaré, Jacqueline A. Lees, Duncan T. Odom
Software Mentions: 4
Published: almost 19 years ago

10.1371/journal.pone.0056228

canEvolve: A Web Portal for Integrative Oncogenomics
Cited by: 39
Author(s): Mehmet K. Samur, Zhenyu Yan, Xujun Wang, Qingyi Cao, Nikhil C. Munshi, Li Cheng, Parantu K. Shah
Software Mentions: 4
Published: over 13 years ago

10.1289/EHP149

Temperature Variability and Mortality: A Multi-Country Study
Cited by: 195
Author(s): Yuming Guo, Antonio Gasparrini, Ben Armstrong, Benjawan Tawatsupa, Aurelio Tobías, Éric Lavigne, Micheline de Sousa Zanotti Stagliorio Coélho, Xiaochuan Pan, Ho Kim, Masahiro Hashizume, Yasushi Honda, Yue Guo, Chang‐Fu Wu, Antonella Zanobetti, Joel Schwartz, Michelle L. Bell, Ala Overcenco, Kornwipa Punnasiri, Shanshan Li, Linwei Tian, Paulo Hilário Nascimento Saldiva, Gail M. Williams, Shilu Tong
Software Mentions: 4
Published: almost 10 years ago

10.1371/journal.pone.0031505

Uniform Approximation Is More Appropriate for Wilcoxon Rank-Sum Test in Gene Set Analysis
Cited by: 10
Author(s): Zhide Fang, Ruofei Du, Xiangqin Cui
Software Mentions: 4
Published: over 14 years ago

10.1371/journal.pone.0007556

An Eight-Gene Blood Expression Profile Predicts the Response to Infliximab in Rheumatoid Arthritis
Cited by: 92
Author(s): Antonio Julià, Alba Erra, Carles Palacio, Carlos Tomás, Xavier Sans, P Barceló, Sara Marsal
Software Mentions: 4
Published: almost 17 years ago

10.1371/journal.pone.0137654

The Role of the Immune Response in the Pathogenesis of Thyroid Eye Disease: A Reassessment
Cited by: 15
Author(s): James T. Rosenbaum, Dongseok Choi, Amanda Wong, David J. Wilson, Hans E. Grossniklaus, Christina A. Harrington, Roger A. Dailey, John D. Ng, Eric A. Steele, Craig N. Czyz, Jill A. Foster, David T. Tse, Chris Alabiad, Sander R. Dubovy, Prashant K. Parekh, Gerald J. Harris, Michael Kazim, Payal Patel, Valerie A. White, Peter J. Dolman, Deepak P. Edward, Hind M. Alkatan, Hailah Al Hussain, Dinesh Selva, R. Patrick Yeatts, Bobby S. Korn, Don O. Kikkawa, Patrick Stauffer
Software Mentions: 4
Published: almost 11 years ago

10.1371/journal.pone.0240120

Aberrant expression of NKL homeobox genes HMX2 and HMX3 interferes with cell differentiation in acute myeloid leukemia
Cited by: 7
Author(s): Stefan Nagel, Claudia Pommerenke, Corinna Meyer, Roderick A.F. MacLeod, Hans G. Drexler
Software Mentions: 4
Published: almost 6 years ago

10.1017/S0950268820002757

Community movement and COVID-19: a global study using Google's Community Mobility Reports
Cited by: 76
Author(s): Mihály Sulyok, Mark Walker
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0179364

DoEstRare: A statistical test to identify local enrichments in rare genomic variants associated with disease
Cited by: 6
Author(s): Elodie Persyn, Matilde Karakachoff, Solena Le Scouarnec, Camille Le Clézio, Dominique Campion, Emmanuelle Génin, Jean‐Jacques Schott, Richard Redon, Lise Bellanger, Christian Dina
Software Mentions: 4
Published: about 9 years ago

10.1002/ece3.12

Ungulate preference for burned patches reveals strength of fire-grazing interaction
Cited by: 216
Author(s): Brady W. Allred, Samuel D. Fuhlendorf, David M. Engle, R. Dwayne Elmore
Software Mentions: 4
Published: about 15 years ago

10.1038/s41598-018-28185-4

Early alteration of epigenetic-related transcription in Huntington’s disease mouse models
Cited by: 35
Author(s): Irati Hervás-Corpión, Deisy Guiretti, Manuel Alcaráz-Iborra, Román Olivares, Antonio Campos‐Caro, Ángel Barco, Luis M. Valor
Software Mentions: 4
Published: about 8 years ago

10.1155/2020/4535820

A Novel Four-Gene Prognostic Signature as a Risk Biomarker in Cervical Cancer
Cited by: 6
Author(s): Jun Wang, Hua Zheng, Yatian Han, Geng Wang, Yanbin Li
Software Mentions: 4
Published: over 5 years ago

10.3390/ijerph17031035

A Network-Based Bioinformatics Approach to Identify Molecular Biomarkers for Type 2 Diabetes that Are Linked to the Progression of Neurological Diseases
Cited by: 48
Author(s): Habibur Rahman, Shou-Li Peng, Xiyuan Hu, Chen Chen, Rezanur Rahman, Shahadat Uddin, Julian M.W. Quinn, Mohammad Ali Moni
Software Mentions: 4
Published: over 6 years ago

10.7554/eLife.36998

Downregulation of ribosome biogenesis during early forebrain development
Cited by: 63
Author(s): Kevin F. Chau, Morgan L. Shannon, Ryann M. Fame, Erin Fonseca, Hillary Mullan, Matthew B. Johnson, Anoop K. Sendamarai, Mark W. Springel, Laurent Beaugerie, Maria K. Lehtinen
Software Mentions: 4
Published: over 8 years ago

10.1186/s12864-017-4294-1

Optimizing and evaluating the reconstruction of Metagenome-assembled microbial genomes
Cited by: 44
Author(s): Bhavya Papudeshi, John M. Haggerty, Michael P. Doane, Megan M. Morris, Kevin Walsh, Douglas T. Beattie, Dnyanada Pande, Parisa Zaeri, Genivaldo G. Z. Silva, Fabiano L. Thompson, Robert A. Edwards, Elizabeth A. Dinsdale
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pcbi.1007219

Revisiting the “satisfaction of spatial restraints” approach of MODELLER for protein homology modeling
Cited by: 11
Author(s): Giacomo Janson, Alessandro Grottesi, Marco Pietrosanto, Gabriele Ausiello, Giulia Guarguaglini, Alessandro Paiardini
Software Mentions: 4
Published: over 6 years ago

10.1186/s12967-020-02372-2

Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis
Cited by: 38
Author(s): Lixin Cheng, Chuanchuan Nan, Lin Kang, Ning Zhang, Sheng Liu, Huaisheng Chen, Chengying Hong, Youlian Chen, Zhen Liang, Xueyan Liu
Software Mentions: 4
Published: about 6 years ago

10.1186/s12967-020-02463-0

Identifying the pattern of immune related cells and genes in the peripheral blood of ischemic stroke
Cited by: 24
Author(s): Zijian Li, Yueran Cui, Juan Feng, Yanxia Guo
Software Mentions: 4
Published: about 6 years ago

10.1155/2013/167915

Correction of Spatial Bias in Oligonucleotide Array Data
Cited by: 2
Author(s): Philippe Serhal, Sébastien Lemieux
Software Mentions: 4
Published: over 13 years ago

10.1186/1471-2164-11-674

Apoplast proteome reveals that extracellular matrix contributes to multistress response in poplar
Cited by: 69
Author(s): Oľga Pecháňová, Chuan-Yu Hsu, J. F. Adams, Tibor Pechan, Lindsay Vandervelde, Jenny Drnevich, Sara Jawdy, Ardeshir Adeli, Jeffrey C. Suttle, Andrew D. Lawrence, Timothy J. Tschaplinski, Armand Séguin, Çetin Yüceer
Software Mentions: 4
Published: over 15 years ago

10.3389/fpls.2017.00819

Structural and Functional Insights into WRKY3 and WRKY4 Transcription Factors to Unravel the WRKY–DNA (W-Box) Complex Interaction in Tomato (Solanum lycopersicum L.). A Computational Approach
Cited by: 37
Author(s): Mohd Aamir, Vinay Kumar Singh, Mukesh Meena, Ram Sanmukh Upadhyay, Vijai Kumar Gupta, Surendra Singh
Software Mentions: 4
Published: about 9 years ago

10.1128/mSphere.00298-16

Human Norovirus Aptamer Exhibits High Degree of Target Conformation-Dependent Binding Similar to That of Receptors and Discriminates Particle Functionality
Cited by: 18
Author(s): Matthew D. Moore, Benjamin G. Bobay, Brittany S. Mertens, Lee‐Ann Jaykus
Software Mentions: 4
Published: over 9 years ago

10.3389/fpls.2018.01546

Post-drought Resilience After Forest Die-Off: Shifts in Regeneration, Composition, Growth and Productivity
Cited by: 30
Author(s): Antonio Gazol, J. Julio Camarero, Gabriel Sangüesa‐Barreda, Sergio M. Vicente‐Serrano
Software Mentions: 4
Published: almost 8 years ago

10.1186/s12859-021-04061-3

ProgPerm: Progressive permutation for a dynamic representation of the robustness of microbiome discoveries
Cited by: 2
Author(s): Liangliang Zhang, Yushu Shi, Kim Anh, Christine B. Peterson, Robert R. Jenq
Software Mentions: 4
Published: over 5 years ago

10.1186/s12866-020-02002-3

Lifestyle modifications result in alterations in the gut microbiota in obese children
Cited by: 21
Author(s): Ky Young Cho
Software Mentions: 4
Published: over 5 years ago

10.3390/microorganisms9061297

Bacterial Communities in Alkaline Saline Soils Amended with Young Maize Plants or Its (Hemi)Cellulose Fraction
Cited by: 1
Author(s): Valentín Pérez-Hernández, Mario Hernández-Guzmán, Marco Luna‐Guido, Yendi E. Navarro‐Noya, Elda M. Romero-Tepal, Luc Dendooven
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0187044

Rapid regrowth and detection of microbial contaminants in equine fecal microbiome samples
Cited by: 19
Author(s): Kalie F. Beckers, Christopher Schulz, Gary W. Childers
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pone.0231838

Crewmember microbiome may influence microbial composition of ISS habitable surfaces
Cited by: 47
Author(s): Aram Avila-Herrera, James B. Thissen, Camilla Urbaniak, Nicholas A. Be, David J. Smith, Fathi Karouia, Satish K. Mehta, Kasthuri Venkateswaran, Crystal Jaing
Software Mentions: 4
Published: over 6 years ago

10.1128/AEM.00415-18

Shewanella oneidensis MR-1 Utilizes both Sodium- and Proton-Pumping NADH Dehydrogenases during Aerobic Growth
Cited by: 20
Author(s): Kody L. Duhl, Nicholas M. Tefft, Michaela A. TerAvest
Software Mentions: 4
Published: about 8 years ago

10.1186/s12864-021-07412-9

Investigation of ancestral alleles in the Bovinae subfamily
Cited by: 2
Author(s): Maulana M. Naji, Yuri Tani Utsunomiya, Johann Sölkner, Benjamin D. Rosen, Gábor Mészáros
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-020-6544-x

Dynamics of mobile genetic elements of Listeria monocytogenes persisting in ready-to-eat seafood processing plants in France
Cited by: 51
Author(s): Federica Di Palma, Thomas Brauge, Nicolas Radomski, Ludovic Mallet, Arnaud Felten, Michel‐Yves Mistou, Anne Brisabois, Laurent Guillier, Graziella Midelet-Bourdin
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-017-16520-0

propr: An R-package for Identifying Proportionally Abundant Features Using Compositional Data Analysis
Cited by: 130
Author(s): Thomas P. Quinn, Mark F. Richardson, David Lovell, Tamsyn M. Crowley
Software Mentions: 4
Published: over 8 years ago

10.3390/nu12113422

PROVIT: Supplementary Probiotic Treatment and Vitamin B7 in Depression—A Randomized Controlled Trial
Cited by: 59
Author(s): Eva Reininghaus, Martina Platzer, Alexandra Kohlhammer-Dohr, Carlo Hamm, Sabrina Mörkl, Susanne Bengesser, Frederike T. Fellendorf, Theressa Lahousen-Luxenberger, Birgitta Leitner-Afschar, Helmut Schöggl, Daniela Amberger-Otti, Walter Wurm, Robert Queissner, Armin Birner, Valerie S Falzberger, Annamaria Painold, Werner Fitz, Jolana Wagner-Skacel, Martina Brunnmayr, Alexandra Rieger, Alexander Maget, Renate Unterweger, Karin Schwalsberger, Bernd Reininghaus, Melanie Lenger, Thomaz F.S. Bastiaanssen, Nina Dalkner
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12859-017-1536-9

Network-based analysis of transcriptional profiles from chemical perturbations experiments
Cited by: 11
Author(s): Francesca Mulas, Amy Li, David H. Sherr, Stefano Monti
Software Mentions: 4
Published: over 9 years ago

10.1186/s12859-021-04070-2

Large-scale labeling and assessment of sex bias in publicly available expression data
Cited by: 10
Author(s): Emily Flynn, Annie C. Y. Chang, Russ B. Altman
Software Mentions: 4
Published: over 5 years ago

10.3389/fphys.2020.00862

Strategies to Enhance Logic Modeling-Based Cell Line-Specific Drug Synergy Prediction
Cited by: 6
Author(s): Barbara Niederdorfer, Vasundra Touré, Miguél Vázquez, Liv Thommesen, Martin Kuiper, Astrid Lægreid, Åsmund Flobak
Software Mentions: 4
Published: about 6 years ago

10.3389/fpsyg.2018.00214

Group Facial Width-to-Height Ratio Predicts Intergroup Negotiation Outcomes
Cited by: 8
Author(s): Yang Yu, Chaojing Tang, Xiaofei Qu, Chao Wang, Thomas F. Denson
Software Mentions: 4
Published: over 8 years ago

10.3389/fphys.2021.698463

Integrating External and Internal Load for Monitoring Fitness and Fatigue Status in Standard Microcycles in Elite Rink Hockey
Cited by: 3
Author(s): Daniel Fernández, David Moya Malapeira, Joan A. Cadefau, Gerard Carmona
Software Mentions: 4
Published: about 5 years ago

10.1186/s12864-016-2695-1

Improving microRNA target prediction with gene expression profiles
Cited by: 22
Author(s): Cesaré Ovando-Vázquez, Daniel Lepe-Soltero, Cei Abreu‐Goodger
Software Mentions: 4
Published: about 10 years ago

10.1534/g3.118.200585

Transcriptomic Plasticity in the Arthropod Generalist <i>Tetranychus urticae</i> Upon Long-Term Acclimation to Different Host Plants
Cited by: 36
Author(s): Simon Snoeck, Nicky Wybouw, Thomas Van Leeuwen, Wannes Dermauw
Software Mentions: 4
Published: over 7 years ago

10.3390/insects9040185

Differential Gene Expression in Red Imported Fire Ant (Solenopsis invicta) (Hymenoptera: Formicidae) Larval and Pupal Stages
Cited by: 11
Author(s): Margaret L. Allen, Joshua H. Rhoades, Michael E. Sparks, Michael J. Grodowitz
Software Mentions: 4
Published: over 7 years ago

10.1186/s12935-021-01834-x

High expression of CDCA7 predicts poor prognosis for clear cell renal cell carcinoma and explores its associations with immunity
Cited by: 12
Author(s): Shouyong Liu, Yi Wang, Chenkui Miao, Zengjun Wang
Software Mentions: 4
Published: over 5 years ago

10.1186/1475-2859-8-37

Interactive visualization of clusters in microarray data: an efficient tool for improved metabolic analysis of E. coli
Cited by: 7
Author(s): Theresa Scharl, Gerald Striedner, Florentina Pötschacher, Friedrich Leisch, Karl Bayer
Software Mentions: 4
Published: about 17 years ago

10.1039/c8mo00042e

Developments in toxicogenomics: understanding and predicting compound-induced toxicity from gene expression data
Cited by: 78
Author(s): Benjamin Alexander-Dann, Lavinia Lorena Pruteanu, Erin Oerton, Naomi L. Sharma, Ioana Berindan‐Neagoe, Dezső Módos
Software Mentions: 4
Published: over 8 years ago

10.7554/eLife.47612

Evolutionary pathways to antibiotic resistance are dependent upon environmental structure and bacterial lifestyle
Cited by: 107
Author(s): Alfonso Santos-López, C. W. Marshall, Michelle R. Scribner, Donald R. Snyder, Vaughn S. Cooper
Software Mentions: 4
Published: almost 7 years ago

10.3390/ijms19082186

The Small Yeast GTPase Rho5 and Its Dimeric GEF Dck1/Lmo1 Respond to Glucose Starvation
Cited by: 13
Author(s): Hans‐Peter Schmitz, Arne Jendretzki, Carolin Sterk, Jürgen J. Heinisch
Software Mentions: 4
Published: about 8 years ago

10.3390/nu13072180

Impact of Glucosamine Supplementation on Gut Health
Cited by: 3
Author(s): Jessica M. Moon, Peter Finnegan, Richard A. Stecker, Hanna Lee, Kayla M. Ratliff, Ralf Jäger, Martin Purpura, Carolyn M. Slupsky, Maria L. Marco, Craig J. Wissent, Jason Theodosakis, Chad M. Kerksick
Software Mentions: 4
Published: about 5 years ago

10.3390/nu12123599

Se Status Prediction by Food Intake as Compared to Circulating Biomarkers in a West Algerian Population
Cited by: 9
Author(s): Moussa Belhadj, Latifa Sarra Kazi Tani, Nouria Dennouni-Medjati, Yahia Harek, Majda Dali Sahi, Qian Sun, Raban Arved Heller, Ammaria Behar, Laurent Charlet, Lutz Schomburg
Software Mentions: 4
Published: over 5 years ago

10.1186/s12879-021-06586-7

Antibody seroprevalence and rate of asymptomatic infections with SARS-CoV-2 in Austrian hospital personnel
Cited by: 3
Author(s): Iris Leister, Elisabeth Ponocny‐Seliger, Herwig Kollaritsch, Peter Dungel, Barbara Holzer, Johannes Grillari, Heinz Redl, Ivo Ponocny, Claudia Wilfing, Ludwig Aigner, Markus Exner, Michaela Stainer, Matthias Hackl, T. Hausner, Rainer Mittermayr, Wolfgang Schaden
Software Mentions: 4
Published: almost 5 years ago

10.1007/s00204-018-2178-z

Dynamic imaging of adaptive stress response pathway activation for prediction of drug induced liver injury
Cited by: 45
Author(s): Steven Wink, Steven Hiemstra, Suzanna Huppelschoten, Janna E. Klip, Bob van de Water
Software Mentions: 4
Published: over 8 years ago

10.1186/s12936-015-0885-y

Bio-efficacy of new long-lasting insecticide-treated bed nets against Anopheles funestus and Anopheles gambiae from central and northern Mozambique
Cited by: 25
Author(s): Ana Paula Abílio, Pelágio Marrune, Nilsa de Deus, Francisco Mbofana, Pedro Muianga, Ayubo Kampango
Software Mentions: 4
Published: almost 11 years ago

10.1186/s12934-016-0434-6

Key role of lipid management in nitrogen and aroma metabolism in an evolved wine yeast strain
Cited by: 32
Author(s): Stéphanie Rollero, Jean-Roch Mouret, Isabelle Sanchez, Carole Camarasa, Anne Ortiz‐Julien, Jean‐Marie Sablayrolles, Sylvie Dequin
Software Mentions: 4
Published: over 10 years ago

10.7717/peerj.6713

Validation of<i>Plasmodium falciparum</i>deoxyhypusine synthase as an antimalarial target
Cited by: 7
Author(s): Aiyada Aroonsri, Navaporn Posayapisit, Jindaporn Kongsee, Onsiri Siripan, Danoo Vitsupakorn, Sugunya Utaida, Chairat Uthaipibull, Sumalee Kamchonwongpaisan, Philip Shaw
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0238202

Immune and sex-biased gene expression in the threatened Mojave desert tortoise, Gopherus agassizii
Cited by: 2
Author(s): Cindy Xu, Greer A. Dolby, K. Kristina Drake, Todd C. Esque, Kenro Kusumi
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0227076

All of gene expression (AOE): An integrated index for public gene expression databases
Cited by: 29
Author(s): Hidemasa Bono
Software Mentions: 4
Published: over 6 years ago

10.1128/mSystems.00268-20

Impact of Glyphosate on the Honey Bee Gut Microbiota: Effects of Intensity, Duration, and Timing of Exposure
Cited by: 49
Author(s): Erick V. S. Motta, Nancy A. Moran
Software Mentions: 4
Published: almost 6 years ago

10.3390/ijms22115866

LEDGF/p75 Is Required for an Efficient DNA Damage Response
Cited by: 8
Author(s): Victoria Liedtke, Christian Schröder, Dirk Roggenbuck, Romano Weiss, Ralf Stohwasser, Peter Schierack, Stefan Rödiger, Lysann Schenk
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0229606

Postprandial transfer of colostral extracellular vesicles and their protein and miRNA cargo in neonatal calves
Cited by: 13
Author(s): Benedikt Kirchner, Dominik Buschmann, Vijay Paul, Michael W. Pfaffl
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0181902

EINCR1 is an EGF inducible lincRNA overexpressed in lung adenocarcinomas
Cited by: 4
Author(s): Karol Nowicki-Osuch, Yaoyong Li, Mairi Challinor, Dave T. Gerrard, Neil A. Hanley, Andrew D. Sharrocks
Software Mentions: 4
Published: about 9 years ago

10.7554/eLife.32581

Resilience of small intestinal beneficial bacteria to the toxicity of soybean oil fatty acids
Cited by: 14
Author(s): Sara C. Di Rienzi, Juliet Jacobson, Elizabeth A. Kennedy, Michael Bell, Qiaojuan Shi, Jillian L. Waters, Peter Lawrence, J. Thomas Brenna, Robert A. Britton, Jens Walter, Ruth E. Ley
Software Mentions: 4
Published: over 8 years ago

10.1186/s12859-019-2977-0

RESCUE: imputing dropout events in single-cell RNA-sequencing data
Cited by: 26
Author(s): Sam Tracy, Guo‐Cheng Yuan, Ruben Dries
Software Mentions: 4
Published: about 7 years ago

10.7717/peerj.6970

Detection of condition-specific marker genes from RNA-seq data with MGFR
Cited by: 8
Author(s): Khadija El Amrani, Gregorio Alanis-Lobato, Nancy Mah, Armin Kurtz, Miguel A. Andrade‐Navarro
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pone.0228933

Transcriptomic analysis to elucidate the response of honeybees (Hymenoptera: Apidae) to amitraz treatment
Cited by: 5
Author(s): Ye Liang, Peng Liu, Tengfei Shi, Wang AnRan, Yujie Zhu, Lai Li, Linsheng Yu
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0243911

The pharmacodynamic and differential gene expression analysis of PPAR α/δ agonist GFT505 in CDAHFD-induced NASH model
Cited by: 12
Author(s): Linfu Liu, Chuang Liu, Menglong Zhao, Qianru Zhang, Ying Lu, Ping Liu, Hua Yang, Jinliang Yang, Xiaoxin Chen, Yuqin Yao
Software Mentions: 4
Published: over 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

10.1016/j.exphem.2019.08.009

Machine learning predicts putative hematopoietic stem cells within large single-cell transcriptomics data sets
Cited by: 32
Author(s): Fiona Hamey, Berthold Göttgens
Software Mentions: 4
Published: almost 7 years ago

10.3389/fgene.2020.566734

Pituitary Tumor Transforming Gene 1 Orchestrates Gene Regulatory Variation in Mouse Ventral Midbrain During Aging
Cited by: 4
Author(s): Yujuan Gui, Mélanie Thomas, Pierre Garcia, Mona Karout, Rashi Halder, Alessandro Michelucci, Heike Kollmus, Cuiqi Zhou, Shlomo Melmed, Klaus Schughart, Rudi Balling, Michel Mittelbronn, Joseph H. Nadeau, Robert W. Williams, Thomas Sauter, Manuel Buttini, Lasse Sinkkonen
Software Mentions: 4
Published: almost 6 years ago

10.3389/fimmu.2017.01199

Plasmodium berghei NK65 in Combination with IFN-γ Induces Endothelial Glucocorticoid Resistance via Sustained Activation of p38 and JNK
Cited by: 9
Author(s): Karolina Zielińska, Lode De Cauwer, Sofie Knoops, Kristof Van der Molen, Alexander Sneyers, Jonathan Thommis, J. Brian de Souza, Ghislain Opdenakker, Karolien De Bosscher, Philippe E. Van den Steen
Software Mentions: 4
Published: almost 9 years ago

10.1080/21505594.2020.1790282

Phylogenetic and codon usage analysis of atypical porcine pestivirus (APPV)
Cited by: 10
Author(s): Shuonan Pan, Chunxiao Mou, Huiguang Wu, Zhenhai Chen
Software Mentions: 4
Published: about 6 years ago

10.1186/s12936-017-1848-2

Effect of climatic variability on malaria trends in Baringo County, Kenya
Cited by: 37
Author(s): Edwin K. Kipruto, Alfred O. Ochieng, Douglas N. Anyona, Macrae Mbalanya, E. Mutua, Daniel Onguru, Isaac K. Nyamongo, Benson B. Estambale
Software Mentions: 4
Published: about 9 years ago

10.3389/fimmu.2018.02902

Maturing Human CD127+ CCR7+ PDL1+ Dendritic Cells Express AIRE in the Absence of Tissue Restricted Antigens
Cited by: 35
Author(s): Joannah R. Fergusson, Michael D. Morgan, Mélanie Bruchard, Leonie F. A. Huitema, Balthasar A. Heesters, Vincent van Unen, Jan Piet van Hamburg, Nicole N. van der Wel, Daisy I. Picavet, Frits Koning, Sander W. Tas, Mark S. Anderson, John C. Marioni, Georg A. Holländer, Hergen Spits
Software Mentions: 4
Published: over 7 years ago

10.3389/fimmu.2021.636108

Impact of Tenascin-C on Radiotherapy in a Novel Syngeneic Oral Squamous Cell Carcinoma Model With Spontaneous Dissemination to the Lymph Nodes
Cited by: 5
Author(s): Caroline Spenlé, Thomas Loustau, Hélène Burckel, Gilles Riegel, Chérine Abou Faycal, Chengbei Li, Alev Yılmaz, Luciana Petti, Fanny Steinbach, Constance Ahowesso, Camille Jost, Nicodème Paul, Raphaël Carapito, Georges Noël, Fabienne Anjuère, Nathalie Salomé, Gertraud Orend
Software Mentions: 4
Published: about 5 years ago

10.3389/fmicb.2020.00495

Regulation of Bottromycin Biosynthesis Involves an Internal Transcriptional Start Site and a Cluster-Situated Modulator
Cited by: 7
Author(s): Natalia M. Vior, Eva Cea-Torrescassana, Tom H. Eyles, Govind Chandra, Andrew W. Truman
Software Mentions: 4
Published: over 6 years ago

10.3389/fmicb.2016.01688

Systems Biomedicine of Rabies Delineates the Affected Signaling Pathways
Cited by: 19
Author(s): Sadegh Azimzadeh Jamalkandi, Sayed‐Hamidreza Mozhgani, Hamid Gholami Pourbadie, Mehdi Mirzaie, Farshid Noorbakhsh, Behrouz Vaziri, Alireza Gholami, Naser Ansari-Pour, Mohieddin Jafari
Software Mentions: 4
Published: almost 10 years ago

10.3389/fmolb.2021.719982

Identification of Mast Cell-Based Molecular Subtypes and a Predictive Signature in Clear Cell Renal Cell Carcinoma
Cited by: 5
Author(s): Hanxiang Liu, Yi Yang
Software Mentions: 4
Published: almost 5 years ago

10.3389/fpls.2015.00718

A novel workflow correlating RNA-seq data to Phythophthora infestans resistance levels in wild Solanum species and potato clones
Cited by: 20
Author(s): Itziar Frades, Kibrom B. Abreha, Estelle Proux‐Wéra, Åsa Lankinen, Erik Andréasson, Erik Alexandersson
Software Mentions: 4
Published: almost 11 years ago

10.1186/gb-2005-6-6-r54

Cited by: 148
Author(s): Nils Rostoks, Justin O. Borevitz, Pete E. Hedley, Joanne Russell, Sharon Mudie, Jenny Morris, Linda Cardle, David Marshall, Robbie Waugh
Software Mentions: 4
Published: over 21 years ago

10.1186/s13059-016-1053-6

Age-related accrual of methylomic variability is linked to fundamental ageing mechanisms
Cited by: 114
Author(s): Roderick C. Slieker, Maarten van Iterson, René Luijk, Marian Beekman, Daria V. Zhernakova, Matthijs Moed, Hailiang Mei, M.A. van Galen, Patrick Deelen, Marc Jan Bonder, Alexandra Zhernakova, André G. Uitterlinden, Ettje F. Tigchelaar, Coen D. A. Stehouwer, Casper G. Schalkwijk, Carla Kallen, Albert Hofman, Diana van Heemst, Eco J. C. de Geus, Jenny van Dongen, Joris Deelen, Leonard H van den Berg, Joyce B. J. van Meurs, Ritsert C. Jansen, Peter A.C. ’t Hoen, Lude Franke, Cisca Wijmenga, Jan H. Veldink, Morris A. Swertz, Marleen M.J. van Greevenbroek, Cornelia M. van Duijn, Dorret I. Boomsma, P. Eline Slagboom, Bastiaan T. Heijmans
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12864-017-3745-z

The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model
Cited by: 20
Author(s): Martijn van Hagen, Diewertje G. E. Piebes, Wim C. de Leeuw, Ilona M. Vuist, Willeke M. C. van Roon‐Mom, Perry D. Moerland, Pernette J. Verschure
Software Mentions: 4
Published: over 9 years ago

10.7150/thno.49451

An immune cell infiltration-based immune score model predicts prognosis and chemotherapy effects in breast cancer
Cited by: 75
Author(s): Silei Sui, Xin An, Caiming Xu, Zongjuan Li, Yi-Jun Hua, Geya Huang, Sibei Sui, Long Qian, Yanxia Sui, Yuqing Xiong, Michael Ntim, Wei Guo, Miao Chen, Wu Deng, Xia Xiao, Man Li
Software Mentions: 4
Published: over 6 years ago

10.1186/s40168-017-0363-6

Pancreatic cyst fluid harbors a unique microbiome
Cited by: 53
Author(s): Shan Li, Gwenny M. Fuhler, Nahush Bn, Tony Jose, Marco J. Bruno, Maikel P. Peppelenbosch, Sergey R. Konstantinov
Software Mentions: 4
Published: almost 9 years ago

10.3390/ijerph18031202

Latent Variables Quantifying Neighborhood Characteristics and Their Associations with Poor Mental Health
Cited by: 5
Author(s): Katherine L. Forthman, Janna Colaizzi, Hung‐Wen Yeh, Rayus Kuplicki, Martin P. Paulus
Software Mentions: 4
Published: over 5 years ago

10.1186/s40246-021-00357-w

Evaluation of low-pass genome sequencing in polygenic risk score calculation for Parkinson’s disease
Cited by: 2
Author(s): Sung-Jae Kim, Jong-Yeon Shin, Nak‐Jung Kwon, Chang-Uk Kim, Changhoon Kim, Chong Sik Lee, Jeong‐Sun Seo
Software Mentions: 4
Published: almost 5 years ago

10.1128/mBio.02901-19

Comparative Analyses of Vertebrate Gut Microbiomes Reveal Convergence between Birds and Bats
Cited by: 176
Author(s): Se Jin Song, Jon G. Sanders, Frédéric Delsuc, Jessica L. Metcalf, Katherine R. Amato, Michael W. Taylor, Florent Mazel, Holly L. Lutz, Kevin Winker, Gary R. Graves, Gregory Humphrey, Jack A. Gilbert, Shannon J. Hackett, Kevin P. White, Heather Skeen, Sarah M. Kurtis, Jack J. Withrow, Thomas Braile, Matthew J. Miller, Kevin G. McCracken, James M. Maley, Vanessa O. Ezenwa, Allison Williams, Jessica M. Blanton, Valerie J. McKenzie, Rob Knight
Software Mentions: 4
Published: over 6 years ago

10.7717/peerj.8850

Monitoring the influx of new species through citizen science: the first introduced ant in Denmark
Cited by: 11
Author(s): Julie Koch Sheard, Nathan J. Sanders, Carsten Gundlach, Sämi Schär, Rasmus Stenbak Larsen
Software Mentions: 4
Published: over 6 years ago

10.1186/s12864-017-3566-0

Exploratory bioinformatics investigation reveals importance of “junk” DNA in early embryo development
Cited by: 51
Author(s): Steven Ge
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0187129

A cross-sectional study of the temporal evolution of electricity consumption of six commercial buildings
Cited by: 6
Author(s): Ethan Pickering, Mohammad A. Hossain, Jack P. Mousseau, Rachel A. Swanson, Roger H. French, Alexis R. Abramson
Software Mentions: 4
Published: almost 9 years ago

10.1186/s12918-018-0582-x

A powerful nonparametric method for detecting differentially co-expressed genes: distance correlation screening and edge-count test
Cited by: 6
Author(s): Qingyang Zhang
Software Mentions: 4
Published: about 8 years ago

10.1093/bioinformatics/btu274

Methods for time series analysis of RNA-seq data with application to human Th17 cell differentiation
Cited by: 64
Author(s): Tarmo Äijö, Vincent Butty, Zhi Chen, Verna Salo, Subhash Tripathi, Christopher B. Burge, Riitta Lahesmaa, Harri Lähdesmäki
Software Mentions: 4
Published: about 12 years ago

10.1371/journal.pone.0164766

RNA-Seq Count Data Modelling by Grey Relational Analysis and Nonparametric Gaussian Process
Cited by: 1
Author(s): Thanh Nguyen, Asim Bhatti, Samuel Yang, Saeid Nahavandi
Software Mentions: 4
Published: almost 10 years ago

10.1186/1471-2164-14-S8-S1

Interdisciplinary dialogue for education, collaboration, and innovation: Intelligent Biology and Medicine in and beyond 2013
Cited by: 49
Author(s): Bing Zhang, Yufei Huang, Jason McDermott, Rebecca H Posey, Hua Xu, Zhongming Zhao
Software Mentions: 4
Published: over 13 years ago