10.1038/s42003-021-01784-0

A multi-ethnic genome-wide association study implicates collagen matrix integrity and cell differentiation pathways in keratoconus
Cited by: 36
Author(s): Alison J. Hardcastle, Petra Lišková, Yelena Bykhovskaya, Bennet J McComish, Alice E. Davidson, Chris F. Inglehearn, Xiaohui Li, Hélène Choquet, Mahmoud Habeeb, Sionne E. M. Lucas, Srujana Sahebjada, Nikolas Pontikos, Karla E. Rojas López, Anthony P Khawaja, Manir Ali, Ľubica Ďuďáková, Pavlína Skalická, Bart T. H. van Dooren, Annette J M Geerards, Christoph Haudum, Valeria Lo Faro, Abi Tenen, Mark James Simcoe, Karina Patasova, Darioush Yarrand, Jie Yin, Salina Siddiqui, Anthony J. Rice, Layal Abi Farraj, Yii Der Ida Chen, Jugnoo S Rahi, Ronald M. Krauss, Elizabeth Theusch, Jac Charlesworth, Loretta Szczotka-Flynn, Carmel Toomes, Magda A. Meester-Smoor, Andrea J. Richardson, Paul Mitchell, Kent D. Taylor, Ronald B. Melles, Anthony J. Aldave, Richard A. Mills, Ke Cao, Elsie Chan, Mark Daniell, Jie Jin Wang, Jerome I. Rotter, Alex W. Hewitt, Stuart MacGregor, Caroline C W Klaver, Wishal D. Ramdas, Jamie E Craig, Sudha K. Iyengar, David O’Brart, Eric Jorgenson, Paul N. Baird, Yaron S. Rabinowitz, Kathryn P. Burdon, Chris Hammond, Stephen Tuft, Pirro G. Hysi
Software Mentions: 4
Published: over 5 years ago

10.3390/ani11082300

Seasonal Variation in the Faecal Microbiota of Mature Adult Horses Maintained on Pasture in New Zealand
Cited by: 5
Author(s): Karlette A. Fernandes, Erica K. Gee, Chris W. Rogers, Sandra Kittelmann, Patrick J. Biggs, Emma N. Bermingham, Charlotte F. Bolwell, David G. Thomas
Software Mentions: 4
Published: about 5 years ago

10.1038/s41419-020-02884-1

NLRP7 plays a functional role in regulating BMP4 signaling during differentiation of patient-derived trophoblasts
Cited by: 18
Author(s): Aybuke Alici-Garipcan, Burcu Özçimen, Ilke Süder, Volkan Ülker, Tamer T. Önder, Nesrin Özören
Software Mentions: 4
Published: almost 6 years ago

10.1534/g3.120.401166

DAF-16 and SMK-1 Contribute to Innate Immunity During Adulthood in<i>Caenorhabditis elegans</i>
Cited by: 14
Author(s): Daniel R. McHugh, Elena Koumis, Paul Jacob, Jennifer Goldfarb, Michelle Schlaubitz-Garcia, Safae Bennani, Paul Regan, Prem Patel, Matthew J. Youngman
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0238385

Replicable simulation of distal hot water premise plumbing using convectively-mixed pipe reactors
Cited by: 3
Author(s): Maryellen Spencer, Abraham C. Cullom, William J. Rhoads, Amy Pruden, Marc Edwards
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0242382

Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand
Cited by: 0
Author(s): Arin Ngamniyom
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.5944

Differences in persistence between dogs and wolves in an unsolvable task in the absence of humans
Cited by: 27
Author(s): Akshay R. Rao, Lara Bernasconi, Martina Lazzaroni, Sarah Marshall-Pescini, Friederike Range
Software Mentions: 4
Published: over 7 years ago

10.1093/jas/skaa181

The effect of maternal antibiotic use in sows on intestinal development in offspring
Cited by: 10
Author(s): Astrid de Greeff, Dirkjan Schokker, Petra Roubos-van den Hil, P. Ramaekers, S.A. Vastenhouw, Frank Harders, Alex Bossers, M.A. Smits, Johanna M.J. Rebel
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0215767

Short-term effect of simulated salt marsh restoration by sand-amendment on sediment bacterial communities
Cited by: 11
Author(s): François Thomas, James T. Morris, Cathleen Wigand, Stefan M. Sievert
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0240975

RNA sequencing of whole blood in dogs with primary immune-mediated hemolytic anemia (IMHA) reveals novel insights into disease pathogenesis
Cited by: 5
Author(s): Corie Borchert, Adam Herman, Megan Roth, Aimee C. Brooks, Steven G. Friedenberg
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0119254

Goodness-of-Fit Tests and Model Diagnostics for Negative Binomial Regression of RNA Sequencing Data
Cited by: 12
Author(s): Gu Mi, Yanming Di, Daniel W. Schafer
Software Mentions: 4
Published: over 11 years ago

10.1371/journal.pone.0166944

Transcriptomic Analysis Shows Decreased Cortical Expression of NR4A1, NR4A2 and RXRB in Schizophrenia and Provides Evidence for Nuclear Receptor Dysregulation
Cited by: 23
Author(s): Susan M. Corley, Shan-Yuan Tsai, Marc R. Wilkins, Cynthia Shannon Weickert
Software Mentions: 4
Published: over 9 years ago

10.1186/s13321-018-0325-4

Large scale comparison of QSAR and conformal prediction methods and their applications in drug discovery
Cited by: 91
Author(s): Nicolas Bosc, Francis Atkinson, Eloy Félix, Anna Gaulton, Anne Hersey, Andrew R. Leach
Software Mentions: 4
Published: over 7 years ago

10.3389/fimmu.2021.599805

Innate Lymphoid Cells Activation and Transcriptomic Changes in Response to Human Dengue Infection
Cited by: 6
Author(s): Tiraput Poonpanichakul, Wilawan Chan-in, Anunya Opasawatchai, Fabien Loison, Oranart Matangkasombut, Varodom Charoensawan, Ponpan Matangkasombut, Denfree Thailand
Software Mentions: 4
Published: about 5 years ago

10.3390/ani11071849

Environmental Streptococcus uberis Associated with Clinical Mastitis in Dairy Cows: Virulence Traits, Antimicrobial and Biocide Resistance, and Epidemiological Typing
Cited by: 10
Author(s): Norhan K. Abd El-Aziz, Ahmed M. Ammar, Hend M. El Damaty, Rehab A. Abd Elkader, Hosam A. Saad, Waleed El-Kazzaz, Eman Khalifa
Software Mentions: 4
Published: about 5 years ago

10.1186/s41512-020-00074-3

State of the art in selection of variables and functional forms in multivariable analysis—outstanding issues
Cited by: 99
Author(s): Willi Sauerbrei, Aris Perperoglou, Matthias Schmid, Michal Abrahamowicz, Heiko Becher, Harald Binder, Daniela Dunkler, Frank E. Harrell, Patrick Royston, Georg Heinze
Software Mentions: 4
Published: over 6 years ago

10.3390/cells10051091

Vascular Calcification Progression Modulates the Risk Associated with Vascular Calcification Burden in Incident to Dialysis Patients
Cited by: 4
Author(s): Antonio Bellasi, Luca Di Lullo, Domenico Russo, Roberto Ciarcia, Michele Magnocavallo, Carlo Lavalle, Carlo Ratti, Mario Cozzolino, Biagio Di Iorio
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0146447

Transcriptome Analysis of Honeybee (Apis Mellifera) Haploid and Diploid Embryos Reveals Early Zygotic Transcription during Cleavage
Cited by: 30
Author(s): Camilla Valente Pires, Flávia Cristina de Paula Freitas, Alexandre S. Cristino, Peter K. Dearden, Zilá Luz Paulino Simões
Software Mentions: 4
Published: over 10 years ago

10.1186/s13395-016-0115-5

Skeletal muscle characteristics are preserved in hTERT/cdk4 human myogenic cell lines
Cited by: 53
Author(s): Matthew Thorley, Stéphanie Duguez, Emilia Maria Cristina Mazza, Sara Valsoni, Anne Bigot, Kamel Mamchaoui, Brennan Harmon, Thomas Voït, Vincent Mouly, William Duddy
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0212949

The nasal and oropharyngeal microbiomes of healthy livestock workers
Cited by: 15
Author(s): Ashley E. Kates, Mark Dalman, James C. Torner, Tara C. Smith
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0235763

Comparative transcriptome analysis uncovers different heat stress responses in heat-resistant and heat-sensitive jujube cultivars
Cited by: 17
Author(s): Juan Jin, Lei Yang, Dingyu Fan, Xuxin Liu, Qing Hao
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0157022

SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data
Cited by: 660
Author(s): Hugo Varet, Loraine Brillet-Guéguen, Jean‐Yves Coppée, Marie‐Agnès Dillies
Software Mentions: 4
Published: about 10 years ago

10.1002/JLB.3A0617-261R

Effects of anti-inflammatory drugs on the expression of tryptophan-metabolism genes by human macrophages
Cited by: 22
Author(s): Tim Regan, Andrew C. Gill, Sara Clohisey, Mark W. Barnett, Carmine M. Pariante, Neil A. Harrison, David Hume, Edward T. Bullmore, Tom C. Freeman
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pone.0178532

Integrative genomic analyses for identification and prioritization of long non-coding RNAs associated with autism
Cited by: 21
Author(s): Brian Gudenas, Anand Srivastava, Liangjiang Wang
Software Mentions: 4
Published: about 9 years ago

10.7554/eLife.63838

Inducible mechanisms of disease tolerance provide an alternative strategy of acquired immunity to malaria
Cited by: 39
Author(s): Wiebke Nahrendorf, Alasdair Ivens, Philip J. Spence
Software Mentions: 4
Published: over 5 years ago

10.1007/s00784-020-03770-y

Survival of direct composite restorations placed under general anesthesia in adult patients with intellectual and/or physical disabilities
Cited by: 3
Author(s): Mona Shaghayegh Maes, Philipp Kanzow, Valentina Hraský, Annette Wiegand
Software Mentions: 4
Published: over 5 years ago

10.1080/15476286.2020.1729594

LncRNAs in molluscan and mammalian stages of parasitic schistosomes are developmentally-regulated and coordinately expressed with protein-coding genes
Cited by: 13
Author(s): Hyung Chul Kim, Ahmad M. Khalil, Emmitt R. Jolly
Software Mentions: 4
Published: over 6 years ago

10.3390/jof7090769

Defining Functions of Mannoproteins in Saccharomyces cerevisiae by High-Dimensional Morphological Phenotyping
Cited by: 2
Author(s): Farzan Ghanegolmohammadi, Hiroki Okada, Yaxuan Liu, Kaori Itto-Nakama, Shinsuke Ohnuki, A. S. Savchenko, Erfei Bi, Satoshi Yoshida, Yoshikazu Ohya
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0033933

Identification of Early Zygotic Genes in the Yellow Fever Mosquito Aedes aegypti and Discovery of a Motif Involved in Early Zygotic Genome Activation
Cited by: 46
Author(s): James K. Biedler, Wanqi Hu, Hongseok Tae, Zhijian Tu
Software Mentions: 4
Published: over 14 years ago

10.1371/journal.pone.0175528

The integrative omics of white-rot fungus Pycnoporus coccineus reveals co-regulated CAZymes for orchestrated lignocellulose breakdown
Cited by: 61
Author(s): Shingo Miyauchi, David Navarro, Sacha Grisel, Didier Chevret, Jean‐Guy Berrin, Marie Noelle Rosso
Software Mentions: 4
Published: over 9 years ago

10.1111/1755-0998.13012

Have the cake and eat it: Optimizing nondestructive DNA metabarcoding of macroinvertebrate samples for freshwater biomonitoring
Cited by: 40
Author(s): Filipa M. S. Martins, Mafalda Galhardo, Ana Filipa Filipe, Amílcar Teixeira, Paulo D. P. Pinheiro, Joana Paupério, Paulo C. Alves, Pedro Beja
Software Mentions: 4
Published: over 7 years ago

10.3389/fnins.2018.00816

sPyNNaker: A Software Package for Running PyNN Simulations on SpiNNaker
Cited by: 54
Author(s): Oliver Rhodes, Petrut Bogdan, Christian Brenninkmeijer, Simon Davidson, Donal Fellows, Andrew Gait, David Lester, Mantas Mikaitis, Luis A. Plana, Andrew Rowley, Alan B. Stokes, Steve Furber
Software Mentions: 4
Published: over 7 years ago

10.1084/jem.20201793

A positive feedback loop reinforces the allergic immune response in human peanut allergy
Cited by: 10
Author(s): Xiaoying Zhou, Wei Yu, Shu‐Chen Lyu, Claudia Macaubas, Bryan Bunning, Ziyuan He, Elizabeth Mellins, Kari Nadeau
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0152610

Human Milk Cells and Lipids Conserve Numerous Known and Novel miRNAs, Some of Which Are Differentially Expressed during Lactation
Cited by: 59
Author(s): Mohammed Alsaweed, Ching Tat Lai, Peter Hartmann, Donna T. Geddes, Foteini Kakulas
Software Mentions: 4
Published: over 10 years ago

10.1038/s42003-019-0442-2

TRAV1-2+ CD8+ T-cells including oligoconal expansions of MAIT cells are enriched in the airways in human tuberculosis
Cited by: 54
Author(s): Emily Wong, Marielle C. Gold, Erin W. Meermeier, Bongiwe Z. Xulu, Sharon Khuzwayo, Zuri A. Sullivan, Eisa Mahyari, Zoe Rogers, Henrik N. Kløverpris, Prabhat Kumar Sharma, Aneta Worley, Umesh Lalloo, Prinita Baijnath, Anish Ambaram, Leon Naidoo, Moosa Suleman, Rajhmun Madansein, James E. McLaren, Kristin Ladell, Kelly L. Miners, David A. Price, Samuel M. Behar, Morten Nielsen, Victoria Kasprowicz, Alasdair Leslie, William R. Bishai, Thumbi Ndung’u, David Lewinsohn
Software Mentions: 4
Published: about 7 years ago

10.1038/s41598-018-34453-0

Maternal High-Fat Diet Programs Offspring Liver Steatosis in a Sexually Dimorphic Manner in Association with Changes in Gut Microbial Ecology in Mice
Cited by: 64
Author(s): Umesh D. Wankhade, Ying Zhang, Ping Kang, Maria P. Alfaro, Sree V. Chintapalli, Brian D. Piccolo, Kelly E. Mercer, Aline Andres, Keshari Thakali, Kartik Shankar
Software Mentions: 4
Published: almost 8 years ago

10.1186/s13048-021-00802-3

Small RNA sequencing reveals distinct nuclear microRNAs in pig granulosa cells during ovarian follicle growth
Cited by: 7
Author(s): Derek Toms, Bo Pan, Yinshan Bai, Julang Li
Software Mentions: 4
Published: over 5 years ago

10.1101/2021.06.06.446826

Evolution of enhanced innate immune evasion by the SARS-CoV-2 B.1.1.7 UK variant
Cited by: 84
Author(s): Lucy Thorne, Mehdi Bouhaddou, Ann-Kathrin Reuschl, Lorena Zuliani-Alvarez, Benjamin J. Polacco, Adrian Pelin, Jyoti Batra, Matt Whelan, Manisha R. Ummadi, Ajda Roic, Jane Turner, Kirsten Obernier, Hannes Braberg, Margaret Soucheray, Alicia Richards, Kuei‐Ho Chen, Bhavya Harjai, Danish Memon, Myra Hosmillo, Joseph Hiatt, Aminu S. Jahun, Ian Goodfellow, Mahdad Noursadeghi, Jacqueline M. Fabius, Kevan M. Shokat, Natalia Jura, Kliment A. Verba, Pedro Beltrão, Danielle L. Swaney, Adolfo Garcı́a-Sastre, Clare Jolly, Greg J. Towers, Nevan J. Krogan
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0247534

Lettuce (Lactuca sativa) productivity influenced by microbial inocula under nitrogen-limited conditions in aquaponics
Cited by: 9
Author(s): Jessica A. Day, Christian Diener, Anne E. Otwell, Kourtney E. Tams, Brad M. Bebout, Angela M. Detweiler, Michael Lee, Madeline T. Scott, Wilson Ta, Monica Ha, Shienna A. Carreon, Kenny Tong, Abdirizak A. Ali, Sean M. Gibbons, Nitin S. Baliga
Software Mentions: 4
Published: over 5 years ago

10.12688/f1000research.11823.1

Analytical challenges of untargeted GC-MS-based metabolomics and the critical issues in selecting the data processing strategy
Cited by: 19
Author(s): Ting­-Li Han, Yang Yang, Hua Zhang, KT Law
Software Mentions: 4
Published: about 9 years ago

10.1155/2020/1949415

Serum Irisin Levels, Endothelial Dysfunction, and Inflammation in Pediatric Patients with Type 2 Diabetes Mellitus and Metabolic Syndrome
Cited by: 21
Author(s): Anna Sofia Huerta Delgado, Daniel N Roffe-Vazquez, Adrian M. Gonzalez‐Gil, José R Villarreal-Calderón, Oscar Tamez-Rivera, Nora A. Rodríguez-Gutiérrez, Elena C. Castillo, Christian Silva-Platas, Gerardo García‐Rivas, Leticia Elizondo‐Montemayor
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0218899

Hybrid gene misregulation in multiple developing tissues within a recent adaptive radiation of Cyprinodon pupfishes
Cited by: 16
Author(s): Joseph A. McGirr, Christopher H. Martin
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pone.0201690

Strap associates with Csde1 and affects expression of select Csde1-bound transcripts
Cited by: 5
Author(s): Kat Moore, Nurcan Yağcı, Floris van Alphen, Alexander B. Meijer, Peter A.C. ’t Hoen, Marieke von Lindern
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0223397

Brief communication: Long-term absence of Langerhans cells alters the gene expression profile of keratinocytes and dendritic epidermal T cells
Cited by: 10
Author(s): Qingtai Su, Aurélie Bouteau, Jacob Cardenas, Uthra Balaji, Yuanyaun Wang, Cynthia Smitherman, Jin Gu, Botond Z. Igyártó
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0245243

Potential role of the skin and gut microbiota in premenarchal vulvar lichen sclerosus: A pilot case-control study
Cited by: 13
Author(s): Suhana Chattopadhyay, Justin D. Arnold, Leena Malayil, Lauren E. Hittle, Emmanuel F. Mongodin, Kalyani Marathe, Veronica Gómez-Lobo, Amy R. Sapkota
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.ppat.1009132

Memory like NK cells display stem cell like properties after Zika virus infection
Cited by: 8
Author(s): Weshely Kujur, Oscar Murillo, Sitaramaraju Adduri, Ramakrishna Vankayalapati, Nagarjun V. Konduru, Sachin Mulik
Software Mentions: 4
Published: over 5 years ago

10.7759/cureus.12518

Validity of TIMI Score for Predicting 14-Day Mortality of Non-ST Elevation Myocardial Infarction Patients
Cited by: 0
Author(s): Dileep Kumar, Tahir Saghir, Maham Zahid, Arti Ashok, Mukesh Kumar, Asad Hussain Shah, Izza Shahid, Sajjad Ali, Ayema Haque, Musa Karim
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0211705

Little cigars and cigarillos harbor diverse bacterial communities that differ between the tobacco and the wrapper
Cited by: 11
Author(s): Suhana Chattopadhyay, Eoghan M. Smyth, Prachi Kulkarni, Kelsey R. Babik, Molly C. Reid, Lauren E. Hittle, Pamela I. Clark, Emmanuel F. Mongodin, Amy R. Sapkota
Software Mentions: 4
Published: over 7 years ago

10.3389/fvets.2017.00244

Drivers of Live Cattle Price in the Livestock Trading System of Central Cameroon
Cited by: 3
Author(s): Paolo Carlo Motta, Ian Handel, Gustaf Rydevik, Saidou M. Hamman, Victor Ngu Ngwa, Vincent N. Tanya, K. L. Morgan, Barend M. deC. Bronsvoort, Thibaud Porphyre
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.ppat.1009734

Divergent metabolism between Trypanosoma congolense and Trypanosoma brucei results in differential sensitivity to metabolic inhibition
Cited by: 10
Author(s): Pieter C. Steketee, Emily A. Dickie, James Iremonger, Kathryn Crouch, Edith Paxton, Siddharth Jayaraman, Omar A. Alfituri, Georgina Awuah‐Mensah, Ryan Ritchie, Achim Schnaufer, T.G. Rowan, Harry P. de Koning, Catarina Gadelha, Bill Wickstead, Michael P. Barrett, Liam J. Morrison
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-020-74947-4

Pancreatic duct ligation reduces premalignant pancreatic lesions in a Kras model of pancreatic adenocarcinoma in mice
Cited by: 4
Author(s): Marta Cáceres, Rita Quesada, Mar Iglesias, Francisco X. Real, María Villamonte, Jaime Martínez de Villarreal, M.E. Ruíz Pérez, Anna Andaluz, Xavier Moll, Enrique Berjano, Dimitri Dorcaratto, Patricia Sánchez-Velázquez, Luís Grande, Fernando Burdı́o
Software Mentions: 4
Published: almost 6 years ago

10.3390/ijerph17155280

Teacher Technostress in the Chilean School System
Cited by: 29
Author(s): Carla Estrada-Muñoz, Dante Castillo, Alejandro Vega-Muñoz, Joan Boada-Grau
Software Mentions: 4
Published: about 6 years ago

10.3390/antiox9050402

Long Non-Coding RNA and mRNA Profiling in Early-Stage Bovine Embryos Treated with Glutathione
Cited by: 1
Author(s): Qihao Guo, Linlin Cui, Weijun Sun, Li Feng, Hao Huang, Xueming Zhao, Huabin Zhu, Weihua Du
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-019-38900-4

Fine scale spatial variability in the influence of environmental cycles on the occurrence of dolphins at coastal sites
Cited by: 8
Author(s): Oihane Fernandez-Betelu, Isla M. Graham, Thomas Cornulier, Paul M. Thompson
Software Mentions: 4
Published: over 7 years ago

10.1186/s12864-019-6041-2

SigProfilerMatrixGenerator: a tool for visualizing and exploring patterns of small mutational events
Cited by: 142
Author(s): Erik N. Bergstrom, Huang Mi, Uma Mahto, Mark Barnes, Michael R. Stratton, Steven G. Rozen, Ludmil B. Alexandrov
Software Mentions: 4
Published: almost 7 years ago

10.1111/acel.12293

Genetic variants modify the effect of age on<i><scp>APOE</scp></i>methylation in the<scp>G</scp>enetics of<scp>L</scp>ipid<scp>L</scp>owering<scp>D</scp>rugs and<scp>D</scp>iet<scp>N</scp>etwork study
Cited by: 34
Author(s): Yiyi Ma, Caren E. Smith, Chao‐Qiang Lai, Marguerite R. Irvin, Laurence D. Parnell, Yu Chi Lee, Lucia D. Pham, Stella Aslibekyan, Steven A. Claas, Michael Y. Tsai, Ingrid B. Borecki, Edmond K. Kabagambe, Silvia Berciano, José M. Ordovás, Devin Absher, Donna K. Arnett
Software Mentions: 4
Published: over 11 years ago

10.1007/s00442-016-3729-8

Temporal effects of hunting on foraging behavior of an apex predator: Do bears forego foraging when risk is high?
Cited by: 65
Author(s): Anne G. Hertel, Andreas Zedrosser, Atle Mysterud, Ole‐Gunnar Støen, Sam M. J. G. Steyaert, Jon E. Swenson
Software Mentions: 4
Published: almost 10 years ago

10.1038/s41598-021-92455-x

Genome-wide association analyses identify genotype-by-environment interactions of growth traits in Simmental cattle
Cited by: 14
Author(s): Camila Urbano Braz, Troy N. Rowan, Robert D. Schnabel, Jared E. Decker
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pcbi.1008734

Evolution of heterogeneous perceptual limits and indifference in competitive foraging
Cited by: 2
Author(s): Richard P. Mann
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0207952

RNA-sequencing analysis of umbilical cord plasma microRNAs from healthy newborns
Cited by: 8
Author(s): Gary P. Brennan, Dimitrios Vitsios, Sophie Casey, Ann-Marie Looney, Boubou Hallberg, David C. Henshall, Geraldine B. Boylan, Deirdre M. Murray, Catherine Mooney
Software Mentions: 4
Published: over 7 years ago

10.3390/ijerph16050746

Comparison of Frequentist and Bayesian Generalized Additive Models for Assessing the Association Between Daily Exposure to Fine Particles and Respiratory Mortality: A Simulation Study
Cited by: 8
Author(s): Xin Fang, Bo Fang, Chunfang Wang, Tian Xia, Matteo Bottai, Fang Fang, Yang Cao
Software Mentions: 4
Published: over 7 years ago

10.1186/s13223-021-00584-9

Expression profiling of ileal mucosa in asthma reveals upregulation of innate immunity and genes characteristic of Paneth and goblet cells
Cited by: 1
Author(s): Jan Krzysztof Nowak, Marzena Dworacka, Nazgul Gubaj, Arystan Dossimov, Zhumabek Dossimov, Jarosław Walkowiak
Software Mentions: 4
Published: about 5 years ago

10.1155/2019/8912961

Curcumin Inhibits ERK/c-Jun Expressions and Phosphorylation against Endometrial Carcinoma
Cited by: 25
Author(s): Zhenxue Zhang, Pengfei Yi, Changchun Tu, Jiejie Zhan, Liping Jiang, Fanglin Zhang
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41598-018-32904-2

Transcriptomics and co-expression networks reveal tissue-specific responses and regulatory hubs under mild and severe drought in papaya (Carica papaya L.)
Cited by: 33
Author(s): Samuel David Gamboa-Tuz, Alejandro Pereira-Santana, Jesús Alejandro Zamora‐Briseño, Enrique Castaño, Francisco Espadas-Gil, Jorge Tonatiuh Ayala-Sumuano, Miguel A. Keb-Llanes, Lorenzo Felipe Sánchez Teyer, Luis Carlos Rodríguez-Zapata
Software Mentions: 4
Published: almost 8 years ago

10.1002/ece3.3041

An evaluation of semi‐automated methods for collecting ecosystem‐level data in temperate marine systems
Cited by: 8
Author(s): Kingsley J. Griffin, Luke H. Hedge, Manuel González‐Rivero, Ove Hoegh‐Guldberg, Emma L. Johnston
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pone.0256148

RNA-sequencing of AVPV and ARH reveals vastly different temporal and transcriptomic responses to estradiol in the female rat hypothalamus
Cited by: 5
Author(s): Margaret A. Mohr, Angela Wong, Gauthaman Sukumar, Clifton L. Dalgard, Weizhe Hong, Tao Wu, Ye Wu, Paul E. Micevych
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12881-020-01005-1

Association between FCGR2A rs1801274 and MUC5B rs35705950 variations and pneumonia susceptibility
Cited by: 6
Author(s): Xueshu Shi, Yaqi Ma, Haiyan Li, Huanxin Yu
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0244038

Rapid nucleus-scale reorganization of chromatin in neurons enables transcriptional adaptation for memory consolidation
Cited by: 9
Author(s): Manuel Peter, Dominik F. Aschauer, Renata Rose, Anne Sinning, Florian Grössl, Dominic Kargl, Klaus Kraitsy, Thomas R Burkard, Heiko J. Luhmann, Wulf Haubensak, Simon Rumpel
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pntd.0007603

Association of APOL1 renal disease risk alleles with Trypanosoma brucei rhodesiense infection outcomes in the northern part of Malawi
Cited by: 12
Author(s): Kelita Kamoto, Harry Noyes, Peter Nambala, Edward Senga, Janelisa Musaya, Benjamin Kumwenda, Bruno Bucheton, Annette MacLeod, Anneli Cooper, Caroline Clucas, Christiane Herz-Fowler, Enock Matove, Arthur Chiwaya, John Chisi
Software Mentions: 4
Published: almost 7 years ago

10.1186/s13058-019-1170-8

Claudin-low-like mouse mammary tumors show distinct transcriptomic patterns uncoupled from genomic drivers
Cited by: 17
Author(s): Christian Fougner, Helga Bergholtz, Raoul V. Kuiper, Jens Henrik Norum, Thérese Sørlie
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pone.0258029

Differential expression profile of gluten-specific T cells identified by single-cell RNA-seq
Cited by: 4
Author(s): Ying Yao, Łukasz Wyrozżemski, Knut E.A. Lundin, Geir Kjetil Sandve
Software Mentions: 4
Published: almost 5 years ago

10.1002/ece3.1612

Temporal dynamics of linkage disequilibrium in two populations of bighorn sheep
Cited by: 10
Author(s): Joshua M. Miller, Jocelyn Poissant, René M. Malenfant, John T. Hogg, David W. Coltman
Software Mentions: 4
Published: about 11 years ago

10.1038/srep28836

Genetic architecture dissection by genome-wide association analysis reveals avian eggshell ultrastructure traits
Cited by: 11
Author(s): Zhongyi Duan, Chang Sun, Manman Shen, Kehua Wang, Ning Yang, Jiangxia Zheng, Guiyun Xu
Software Mentions: 4
Published: about 10 years ago

10.1128/AEM.00853-19

Generation of a Prophage-Free Variant of the Fast-Growing Bacterium Vibrio natriegens
Cited by: 25
Author(s): Eugen Pfeifer, Slawomir Michniewski, Cornelia Gätgens, Eugenia Münch, Felix L. Müller, Tino Polen, Andrew Millard, Bastian Blombach, Julia Frunzke
Software Mentions: 4
Published: almost 7 years ago

10.3389/fpls.2021.670302

CRISPR/Cas9-Induced Loss-of-Function Mutation in the Barley Mitogen-Activated Protein Kinase 6 Gene Causes Abnormal Embryo Development Leading to Severely Reduced Grain Germination and Seedling Shootless Phenotype
Cited by: 8
Author(s): Pavel Křenek, Elizaveta Chubar, Pavol Vadovič, Ludmila Ohnoutková, Tomáš Vlčko, Véronique Bergougnoux, Petr Cápal, Miroslav Ovečka, Jozef Šamaj
Software Mentions: 4
Published: about 5 years ago

10.1002/cam4.3649

Integration of comprehensive genomic profiling, tumor mutational burden, and PD‐L1 expression to identify novel biomarkers of immunotherapy in non‐small cell lung cancer
Cited by: 43
Author(s): Yunfei Shi, Youming Lei, Li Liu, Shiyue Zhang, Wenjing Wang, Juan Zhao, Shuaiguo Zhao, Xiaowei Dong, Ming Yao, Kai Wang, Qing Zhou
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0180751

Increased dermal collagen bundle alignment in systemic sclerosis is associated with a cell migration signature and role of Arhgdib in directed fibroblast migration on aligned ECMs
Cited by: 14
Author(s): Lizhi Cao, Robert Lafyatis, Linda C. Burkly
Software Mentions: 4
Published: about 9 years ago

10.1186/s40164-020-00165-3

Microenvironment characterization and multi-omics signatures related to prognosis and immunotherapy response of hepatocellular carcinoma
Cited by: 45
Author(s): Furong Liu, Lu Qin, Zhibin Liao, Jia Song, Chaoyi Yuan, Yachong Liu, Yu Wang, Heze Xu, Qiaofeng Zhang, Yigang Pei, Hongwei Zhang, Yonglong Pan, Xiaoping Chen, Zhanguo Zhang, Wanguang Zhang, Bixiang Zhang
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0232189

Investigating the epithelial barrier and immune signatures in the pathogenesis of equine insect bite hypersensitivity
Cited by: 10
Author(s): Iva Cvitaš, Simone Oberhänsli, Tosso Leeb, Martina Dettwiler, Eliane J. Müller, Rémy Bruggman, Eliane Marti
Software Mentions: 4
Published: over 6 years ago

10.7554/eLife.10607

PHF13 is a molecular reader and transcriptional co-regulator of H3K4me2/3
Cited by: 20
Author(s): Ho‐Ryun Chung, Chao Xu, Alisa Fuchs, Andreas Mund, Martin Lange, Hannah Staege, Tobias Schubert, Chuanbing Bian, Ilona Dunkel, Anton Eberharter, Catherine Regnard, Henrike Klinker, David Meierhofer, Luca Cozzuto, Andreas Winterpacht, Luciano Di Croce, Jinrong Min, Hans Will, Sarah Kinkley
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pone.0136765

In-Depth Duodenal Transcriptome Survey in Chickens with Divergent Feed Efficiency Using RNA-Seq
Cited by: 35
Author(s): Guoqiang Yi, Jiahui Yuan, Huijuan Bi, Wei Yan, Ning Yang, Lujiang Qu
Software Mentions: 4
Published: almost 11 years ago

10.1038/s41598-021-86821-y

Prediction of single-cell mechanisms for disease progression in hypertrophic remodelling by a trans-omics approach
Cited by: 3
Author(s): Momoko Hamano, Seitaro Nomura, Midori Iida, Issei Komuro, Yoshihiro Yamanishi
Software Mentions: 4
Published: over 5 years ago

10.1186/s12859-020-03883-x

NDRindex: a method for the quality assessment of single-cell RNA-Seq preprocessing data
Cited by: 0
Author(s): Ruiyu Xiao, Guoshan Lu, Wanqian Guo, Shuilin Jin
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-020-07009-8

Bivalent genes that undergo transcriptional switching identify networks of key regulators of embryonic stem cell differentiation
Cited by: 6
Author(s): Ah-Jung Jeon, Greg Tucker‐Kellogg
Software Mentions: 4
Published: almost 6 years ago

10.3390/insects11060390

Ecological Drivers and Sex-Based Variation in Body Size and Shape in the Queensland Fruit Fly, Bactrocera tryoni (Diptera: Tephritidae)
Cited by: 3
Author(s): Yufei Zhou, Juanita Rodríguez, Nicole Fisher, Renee A. Catullo
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pmed.1002204

The Subclonal Architecture of Metastatic Breast Cancer: Results from a Prospective Community-Based Rapid Autopsy Program “CASCADE”
Cited by: 111
Author(s): Peter Savas, Zhi L. Teo, Christophe Lefèvre, Christoffer Flensburg, Franco Caramia, Kathryn Alsop, Mariam Mansour, Prudence A. Francis, Heather Thorne, Maria João Silva, Nnennaya Kanu, Michelle Dietzen, Andrew Rowan, Maik Kschischo, Stephen B. Fox, David D.L. Bowtell, Sarah-Jane Dawson, Terence P. Speed, Charles Swanton, Sherene Loi
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0240885

Whole egg consumption increases gene expression within the glutathione pathway in the liver of Zucker Diabetic Fatty rats
Cited by: 2
Author(s): J. L. Webb, Amanda Bries, Brooke Vogel, Claudia Carrillo, Lily Harvison, Timothy A. Day, Michael J. Kimber, Rudy J. Valentine, Matthew J. Rowling, Stephanie Clark, Elizabeth McNeill, Kevin L. Schalinske
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41416-019-0552-0

A panel of DNA methylated markers predicts metastasis of pN0M0 gastric carcinoma: a prospective cohort study
Cited by: 11
Author(s): Zhaojun Liu, Xiaoxing Cheng, Lianhai Zhang, Jing Zhou, Dajun Deng, Jiafu Ji
Software Mentions: 4
Published: almost 7 years ago

10.3390/cancers13184518

The Tumor Microenvironment-Dependent Transcription Factors AHR and HIF-1α Are Dispensable for Leukemogenesis in the Eµ-TCL1 Mouse Model of Chronic Lymphocytic Leukemia
Cited by: 3
Author(s): Susanne Gonder, Anne Largeot, Ernesto Gargiulo, Sandrine Pierson, Iria Fernandez Botana, Giulia Pagano, Jérôme Paggetti, Etienne Moussay
Software Mentions: 4
Published: almost 5 years ago

10.1186/s40635-020-00335-x

Alkaline phosphatase in pulmonary inflammation—a translational study in ventilated critically ill patients and rats
Cited by: 6
Author(s): Jenny Juschten, Sarah A. Ingelse, Lieuwe D. J. Bos, Armand R. J. Girbes, Nicole P. Juffermans, Tom van der Poll, Marcus J. Schultz, Pieter R. Tuinman
Software Mentions: 4
Published: over 5 years ago

10.3390/cancers13102306

Evidence of Cooperation between Hippo Pathway and RAS Mutation in Thyroid Carcinomas
Cited by: 3
Author(s): Thaise Nayane Ribeiro Carneiro, Larissa Valdemarin Bim, Vanessa Candiotti Buzatto, Vanessa Galdeno, Paula Fontes Asprino, Eunjung Alice Lee, Pedro A. F. Galante, Janete M. Cerutti
Software Mentions: 4
Published: over 5 years ago

10.3389/fcell.2021.687756

m6A Regulator-Associated Modification Patterns and Immune Infiltration of the Tumor Microenvironment in Hepatocarcinoma
Cited by: 16
Author(s): Jianhao Li, Weiwei Wang, Yubing Zhou, Liwen Liu, Guizhen Zhang, Kelei Guan, Xichun Cui, Xin Liu, Mengling Huang, Guangying Cui, Ranran Sun
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0246443

Unraveling the chaotic genomic landscape of primary and metastatic canine appendicular osteosarcoma with current sequencing technologies and bioinformatic approaches
Cited by: 4
Author(s): Shirley Chu, Zachary L. Skidmore, Jason Kunisaki, Jason Walker, Malachi Griffith, Obi L. Griffith, Jeffrey N. Bryan
Software Mentions: 4
Published: over 5 years ago

10.3390/ijms21093318

Epigenetic Patterns and Geographical Parthenogenesis in the Alpine Plant Species Ranunculus kuepferi (Ranunculaceae)
Cited by: 7
Author(s): Christoph C. F. Schinkel, Eleni Syngelaki, Bernhard Kirchheimer, Stefan Dullinger, Simone Klatt, Elvira Hörandl
Software Mentions: 4
Published: over 6 years ago

10.1186/1471-2105-15-81

spliceR: an R package for classification of alternative splicing and prediction of coding potential from RNA-seq data
Cited by: 89
Author(s): Kristoffer Vitting-Seerup, Bo T. Porse, Albin Sandelin, Johannes Waage
Software Mentions: 4
Published: over 12 years ago

10.1186/1748-7188-7-5

A normalization strategy for comparing tag count data
Cited by: 72
Author(s): Koji Kadota, Tomoaki Nishiyama, Kentaro Shimizu
Software Mentions: 4
Published: over 14 years ago

10.1002/cam4.1303

Identification of a novel gene pairs signature in the prognosis of gastric cancer
Cited by: 42
Author(s): Pailan Peng, Xiangyu Zhou, Guo-Dong Yi, Pengfei Chen, Fan Wang, Weiguo Dong
Software Mentions: 4
Published: over 8 years ago

10.1002/jbmr.3279

Ethnic Differences in Peripheral Skeletal Development Among Urban South African Adolescents: A Ten-Year Longitudinal pQCT Study
Cited by: 5
Author(s): Simon Schoenbuchner, John M. Pettifor, Shane A. Norris, Lisa K. Micklesfield, Ann Prentice, Kate A Ward
Software Mentions: 4
Published: almost 9 years ago

10.1111/cpr.12861

RNA processing genes characterize RNA splicing and further stratify colorectal cancer
Cited by: 4
Author(s): Xiaofan Lu, Yu Jie Zhou, Jialin Meng, Liyun Jiang, Jun Gao, Changhong Yu, Hangyu Yan, Yang Wang, Bing Zhang, Xiaobo Li, Fangrong Yan
Software Mentions: 4
Published: about 6 years ago

10.3390/cancers11101533

17β-Estradiol Activates HSF1 via MAPK Signaling in ERα-Positive Breast Cancer Cells
Cited by: 22
Author(s): Natalia Vydra, Patryk Janus, Agnieszka Toma-Jonik, Tomasz Stokowy, Katarzyna Mrowiec, Joanna Korfanty, Anna Długajczyk, Bartosz Wojtaś, Bartłomiej Gielniewski, Wiesława Widłak
Software Mentions: 4
Published: almost 7 years ago