10.1186/s12864-016-2952-3

Global transcriptional analysis suggests Lasiodiplodia theobromae pathogenicity factors involved in modulation of grapevine defensive response
Cited by: 46
Author(s): Marcos Paolinelli, José Manuel Villalobos-Escobedo, Philippe E. Rolshausen, Alfredo Herrera-Estrella, Clara E. Galindo-Sánchez, José Fabricio López-Hernández, Rufina Hernández-Martínez
Software Mentions: 4
Published: almost 10 years ago

10.18632/aging.102556

Robust immunoscore model to predict the response to anti-PD1 therapy in melanoma
Cited by: 14
Author(s): Run‐Cong Nie, Shu Qiang Yuan, Yun Wang, Yan Yu Cai, Shi Chen, Shu Man Li, Jie Zhou, Guo Ming Chen, Tian Qi Luo, Zhi Wei Zhou, Yuan Fang Li
Software Mentions: 4
Published: over 6 years ago

10.1186/s12874-017-0364-y

Simulation of complex data structures for planning of studies with focus on biomarker comparison
Cited by: 4
Author(s): Andreas Schulz, Daniela Zöller, Stefan Nickels, Manfred E. Beutel, Maria Blettner, Philipp S. Wild, Harald Binder
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pone.0166104

Piphillin: Improved Prediction of Metagenomic Content by Direct Inference from Human Microbiomes
Cited by: 249
Author(s): Shoko Iwai, Thomas Weinmaier, Brian L. Schmidt, Donna G. Albertson, Neil J. Poloso, Karim Dabbagh, Todd Z. DeSantis
Software Mentions: 4
Published: over 9 years ago

10.18632/aging.104134

The value of a metabolic reprogramming-related gene signature for pancreatic adenocarcinoma prognosis prediction
Cited by: 12
Author(s): Zhen Tan, Yubin Lei, Jin Xu, Si Shi, Jie Hua, Bo Zhang, Qingcai Meng, Jiang Liu, Yiyin Zhang, Miaoyan Wei, Xianjun Yu, Chen Liang
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0233841

Whole blood transcriptional responses of very preterm infants during late-onset sepsis
Cited by: 16
Author(s): Sherrianne Ng, Tobias Strunk, Ahwon Lee, Erin E. Gill, Reza Falsafi, Tabitha Woodman, Julie Hibbert, Robert E. W. Hancock, Andrew Currie
Software Mentions: 4
Published: about 6 years ago

10.1186/s12864-021-07592-4

RNA sequencing describes both population structure and plasticity-selection dynamics in a non-model fish
Cited by: 8
Author(s): Matt J. Thorstensen, Melinda R. Baerwald, Ken M. Jeffries
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pntd.0005973

Developing a dengue forecast model using machine learning: A case study in China
Cited by: 141
Author(s): Pi Guo, Tao Liu, Qin Zhang, Li Wang, Jianpeng Xiao, Qingying Zhang, Ganfeng Luo, Zhihao Li, Jianfeng He, Yonghui Zhang
Software Mentions: 4
Published: almost 9 years ago

10.18632/aging.202170

A three-gene signature based on tumour microenvironment predicts overall survival of osteosarcoma in adolescents and young adults
Cited by: 10
Author(s): Chun-Kai Wen, Hongxue Wang, Han Wang, Hao Yuan Mo, Weiying Zhong, Jing Tang, Yuefeng Lu, Wenxian Zhou, Aihua Tan, Yan Liu, Weimin Xie
Software Mentions: 4
Published: over 5 years ago

10.7554/eLife.38432

Immune-mediated hookworm clearance and survival of a marine mammal decrease with warmer ocean temperatures
Cited by: 13
Author(s): Mauricio Seguel, Felipe Montalva, Diego Pérez-Venegas, Josefina Gutiérrez, Héctor Pavés, Ananda Müller, Carola Valencia-Soto, Elizabeth W. Howerth, Victoria C Mendiola, Nicole L. Gottdenker
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0246473

The forests of the midwestern United States at Euro-American settlement: Spatial and physical structure based on contemporaneous survey data
Cited by: 6
Author(s): Paciorek Cj, Charles V. Cogbill, Jody A. Peters, John W. Williams, David J. Mladenoff, Andria Dawson, J. S. McLachlan
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0101268

Fortuitous Encounters between Seagliders and Adult Female Northern Fur Seals (Callorhinus ursinus) off the Washington (USA) Coast: Upper Ocean Variability and Links to Top Predator Behavior
Cited by: 18
Author(s): Noel A. Pelland, Jeremy T. Sterling, Mary‐Anne Lea, Nicholas A. Bond, Rolf R. Ream, Craig M. Lee, Charles C. Eriksen
Software Mentions: 4
Published: almost 12 years ago

10.1371/journal.pone.0183848

A Dynamic Energy Budget (DEB) model to describe Laternula elliptica (King, 1832) seasonal feeding and metabolism
Cited by: 17
Author(s): Antonio Agüera, In Young Ahn, Charlène Guillaumot, Bruno Danis
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pone.0092882

Smoking and Body Fat Mass in Relation to Bone Mineral Density and Hip Fracture: The Hordaland Health Study
Cited by: 27
Author(s): Jannike Øyen, Clara Gram Gjesdal, Ottar Nygård, Stein Atle Lie, Haakon E Meyer, Ellen M Apalset, Per Magne Ueland, Eva Kristine Ringdal Pedersen, Øivind Midttun, Stein Emil Vollset, Grethe S. Tell
Software Mentions: 4
Published: over 12 years ago

10.1186/s13148-020-00990-7

DNA methylation epi-signature is associated with two molecularly and phenotypically distinct clinical subtypes of Phelan-McDermid syndrome
Cited by: 25
Author(s): Laila C. Schenkel, Erfan Aref‐Eshghi, Kathleen Rooney, Jennifer Kerkhof, Michael A. Levy, Haley McConkey, R. Curtis Rogers, Katy Phelan, Sara M. Sarasua, Lavanya Jain, Rini Pauly, Luigi Boccuto, Barbara R. DuPont, Gerarda Cappuccio, Nicola Brunetti‐Pierri, Charles E. Schwartz, Bekim Sadiković
Software Mentions: 4
Published: over 5 years ago

10.1038/s41431-021-00854-5

Regional heritability mapping identifies several novel loci (STAT4, ULK4, and KCNH5) for primary biliary cholangitis in the Japanese population
Cited by: 6
Author(s): Olivier Gervais, Kazuko Ueno, Yosuke Kawai, Yuki Hitomi, Yoshihiro Aiba, Mayumi Ueta, Minoru Nakamura, Katsushi Tokunaga, Masao Nagasaki
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0219981

Pathogen invasion history elucidates contemporary host pathogen dynamics
Cited by: 14
Author(s): Vance T. Vredenburg, Samuel V. G. McNally, Hasan Sulaeman, Helen Butler, Tiffany A. Yap, Michelle S. Koo, Dirk S. Schmeller, Celeste Dodge, Tina L. Cheng, Gordon Lau, Cheryl J. Briggs
Software Mentions: 4
Published: almost 7 years ago

10.3389/fonc.2021.634569

Sharp Downregulation of Hub Genes Associated With the Pathogenesis of Breast Cancer From Ductal Carcinoma In Situ to Invasive Ductal Carcinoma
Cited by: 4
Author(s): Yao Wang, Faqing Liang, Yuting Zhou, Juanjuan Qiu, Qing Lv, Zhenggui Du
Software Mentions: 4
Published: about 5 years ago

10.1099/acmi.0.000082

Transcriptome analysis of Brucella abortus S19∆per immunized mouse spleen revealed activation of MHC-I and MHC-II pathways
Cited by: 2
Author(s): K. S. Solanki, Ravikumar Gandham, Prasad Thomas, Pallab Chaudhuri
Software Mentions: 4
Published: over 6 years ago

10.1155/2018/1243858

Characterization of Transcription Termination-Associated RNAs: New Insights into their Biogenesis, Tailing, and Expression in Primary Tumors
Cited by: 4
Author(s): Ilaria Laudadio, Sara Formichetti, Silvia Gioiosa, Filippos Klironomos, Nikolaus Rajewsky, Giuseppe Macino, Claudia Carissimi, Valerio Fulci
Software Mentions: 4
Published: over 8 years ago

10.1111/1365-2656.12282

Long‐term phenological trends, species accumulation rates, aphid traits and climate: five decades of change in migrating aphids
Cited by: 118
Author(s): James R. Bell, L. J. Alderson, Daniela Izera, T. Kruger, Sue Parker, J. Pickup, C. R. Shortall, M. S. Taylor, P. J. Verrier, R. Harrington
Software Mentions: 4
Published: almost 12 years ago

10.1186/s40104-021-00616-9

Identification of key genes affecting porcine fat deposition based on co-expression network analysis of weighted genes
Cited by: 17
Author(s): Kai Xing, Huatao Liu, Fengxia Zhang, Yibing Liu, Yong Shi, Xiangdong Ding, Chuduan Wang
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41598-018-26854-y

Transcriptome analysis in Hevea brasiliensis latex revealed changes in hormone signalling pathways during ethephon stimulation and consequent Tapping Panel Dryness
Cited by: 23
Author(s): Pascal Montoro, Shizhou Wu, Bénédicte Favreau, Eva Herlinawati, Cécile Labrune, Marie‐Laure Martin‐Magniette, Stéphanie Pointet, Maryannick Rio, Julie Leclercq, Sigit Ismawanto, Kuswanhadi
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pone.0190550

MicroRNA signatures of endogenous Huntingtin CAG repeat expansion in mice
Cited by: 36
Author(s): Peter Langfelder, Fuying Gao, Nan Wang, David Howland, Seung Kwak, Thomas Vogt, Jeffrey S. Aaronson, Jim Rosinski, Giovanni Coppola, Steve Horvath, Xiangdong Yang
Software Mentions: 4
Published: over 8 years ago

10.1186/s40478-020-00968-9

Global alterations to the choroid plexus blood-CSF barrier in amyotrophic lateral sclerosis
Cited by: 29
Author(s): J. Saul, Elizabeth Hutchins, Rebecca Reiman, Michelle Saul, Lyle W. Ostrow, Brent T. Harris, Kendall Van Keuren‐Jensen, Robert Bowser, Nadine Bakkar
Software Mentions: 4
Published: about 6 years ago

10.18632/aging.102820

Development and validation of a prognostic classifier based on HIF-1 signaling for hepatocellular carcinoma
Cited by: 22
Author(s): Feiwen Deng, Chen Dong, Xiaoli Wei, Shilin Lu, Xuan Luo, Jincan He, Junting Liu, Tiebao Meng, Anli Yang, Huanwei Chen
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-021-98249-5

Psychological factors shaping public responses to COVID-19 digital contact tracing technologies in Germany
Cited by: 14
Author(s): Anastasia Kozyreva, Philipp Lorenz-Spreen, Stephan Lewandowsky, Paul Michael Garrett, Stefan M. Herzog, Thorsten Pachur, Ralph Hertwig
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41598-017-05949-y

Enhanced differential expression statistics for data-independent acquisition proteomics
Cited by: 29
Author(s): Tomi Suomi, Laura L. Elo
Software Mentions: 4
Published: about 9 years ago

10.1016/j.heliyon.2021.e07258

EEG signal analysis using classification techniques: Logistic regression, artificial neural networks, support vector machines, and convolutional neural networks
Cited by: 34
Author(s): María C. M. de Guerrero, Juan Sebastián Parada, Helbert Eduardo Espitia
Software Mentions: 4
Published: about 5 years ago

10.1038/s42003-021-01834-7

High resolution DNA barcode library for European butterflies reveals continental patterns of mitochondrial genetic diversity
Cited by: 51
Author(s): Vlad Dincă, Leonardo Dapporto, Panu Somervuo, Raluca Vodă, Sylvain Cuvelier, Martin Gascoigne‐Pees, Peter Huemer, Marko Mutanen, Paul D. N. Hebert, Roger Vila
Software Mentions: 4
Published: over 5 years ago

10.1038/s42003-020-0837-0

Single-cell RNA sequencing reveals a heterogeneous response to Glucocorticoids in breast cancer cells
Cited by: 39
Author(s): Jackson A. Hoffman, Brian N. Papas, Kevin W. Trotter, Trevor Archer
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

10.1155/2020/6784138

Identification of FOS as a Candidate Risk Gene for Liver Cancer by Integrated Bioinformatic Analysis
Cited by: 10
Author(s): Jinwu Hu, Guangyu Ding, Pei-Yao Fu, Wei‐Guo Tang, Qiqing Sun, Xiao‐Dong Zhu, Ying‐Hao Shen, Ji Zhou, Jia Fan, Hui–Chuan Sun, Cheng Huang
Software Mentions: 4
Published: over 6 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

10.1371/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

10.5414/NP301110

Molecular diagnostic testing of diffuse gliomas in the real-life setting: A practical approach
Cited by: 8
Author(s): Michał Bieńkowski, Adelheid Wöhrer, Patrizia Moser, Melitta Kitzwögerer, Gerda Ricken, Thomas Ströbel, Johannes A. Hainfellner
Software Mentions: 4
Published: about 8 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/s12864-016-3065-8

Removal of unwanted variation reveals novel patterns of gene expression linked to sleep homeostasis in murine cortex
Cited by: 35
Author(s): Jason R. Gerstner, John N. Koberstein, Adam Watson, Nikolai Zapero, Davide Risso, Terence P. Speed, Marcos G. Frank, Lucı́a Peixoto
Software Mentions: 4
Published: almost 10 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

10.3389/fimmu.2019.02186

Common Nodes of Virus–Host Interaction Revealed Through an Integrated Network Analysis
Cited by: 65
Author(s): Korbinian Bösl, Aleksandr Ianevski, Thoa Thi Than, Petter I. Andersen, Suvi Kuivanen, Mona Teppor, Eva Žusinaite, Uga Dumpis, Astra Vitkauskienė, Rebecca Jane Cox, Hannimari Kallio‐Kokko, Anders Bergqvist, Tanel Tenson, Andres Merits, Valentyn Oksenych, Magnar Bjørås, Marit W. Anthonsen, David Shum, Mari Kaarbø, Olli Vapalahti, Marc P. Windisch, Giulio Superti‐Furga, Berend Snijder, Denis E. Kainov, Richard K. Kandasamy
Software Mentions: 4
Published: almost 7 years ago

10.3390/cancers12071778

Potential Added Value of PET/CT Radiomics for Survival Prognostication beyond AJCC 8th Edition Staging in Oropharyngeal Squamous Cell Carcinoma
Cited by: 32
Author(s): Stefan P. Haider, Tal Zeevi, Philipp Baumeister, Christoph Reichel, Kariem Sharaf, Reza Forghani, Benjamin H. Kann, Benjamin L. Judson, Manju L. Prasad, Barbara Burtness, Amit Mahajan, Sam Payabvash
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1008595

Super-resolution imaging of RAD51 and DMC1 in DNA repair foci reveals dynamic distribution patterns in meiotic prophase
Cited by: 22
Author(s): Johan A. Slotman, Maarten W. Paul, Fabrizia Carofiglio, H. Martijn de Gruiter, Tessa Vergroesen, Lieke Koornneef, Wiggert A. van Cappellen, Adriaan B. Houtsmuller, Willy M. Baarends
Software Mentions: 4
Published: about 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

10.1186/1471-2105-14-S16-S4

cellXpress: a fast and user-friendly software platform for profiling cellular phenotypes
Cited by: 25
Author(s): Danai Laksameethanasan, Rui Zhen Tan, Geraldine Wei-Ling Toh, Lit‐Hsin Loo
Software Mentions: 4
Published: almost 13 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

10.1007/s00216-021-03393-6

Sample preparation strategy for the detection of steroid-like compounds using MALDI mass spectrometry imaging: pulmonary distribution of budesonide as a case study
Cited by: 11
Author(s): Riccardo Zecchi, Pietro Franceschi, Laura Tigli, Davide Amidani, Chiara Catozzi, Francesca Ricci, Fabrizio Salomone, Giuseppe Pieraccini, Barbara Pioselli, Valentina Mileo
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0232384

Socio-ecological network structures from process graphs
Cited by: 11
Author(s): Angelyn R. Lao, Heriberto Cabezas, Ákos Orosz, Ferenc Friedler, Raymond R. Tan
Software Mentions: 4
Published: almost 6 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

10.1155/2019/8912961

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: over 6 years ago

10.1371/journal.ppat.1004959

Fungal Morphology, Iron Homeostasis, and Lipid Metabolism Regulated by a GATA Transcription Factor in Blastomyces dermatitidis
Cited by: 16
Author(s): Amber J. Marty, Aimee Teo Broman, Robert Żarnowski, Teigan G. Dwyer, Laura M. Bond, Anissa Lounès-Hadj Sahraoui, Joël Fontaine, James M. Ntambi, Sündüz Keleş, Christina Kendziorski, Gregory M. Gauthier
Software Mentions: 4
Published: about 11 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: about 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

10.1371/journal.pone.0166748

Human Disturbance during Early Life Impairs Nestling Growth in Birds Inhabiting a Nature Recreation Area
Cited by: 16
Author(s): Carolina Remacha, Juan A. Delgado, Mateja Bulaic, Javier Pérez‐Tris
Software Mentions: 4
Published: over 9 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

10.1371/journal.pone.0161168

Taxonomic and Functional Metagenomic Signature of Turfs in the Abrolhos Reef System (Brazil)
Cited by: 20
Author(s): Juline M. Walter, Diogo A. Tschoeke, Pedro Milet Meirelles, Luciana de Oliveira, Luciana Leomil, Márcio Murilo Barboza Tenório, Rogério Valle, Paulo S. Salomon, Cristiane C. Thompson, Fabiano L. Thompson
Software Mentions: 4
Published: almost 10 years ago

10.7717/peerj-cs.357

Survey on graph embeddings and their applications to machine learning problems on graphs
Cited by: 48
Author(s): Ilya Makarov, Dmitrii Kiselev, Nikita Nikitinsky, Lovro Šubelj
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0103417

Non-Additive Increases in Sediment Stability Are Generated by Macroinvertebrate Species Interactions in Laboratory Streams
Cited by: 26
Author(s): Lindsey K. Albertson, Bradley J. Cardinale, L. S. Sklar
Software Mentions: 4
Published: almost 12 years ago

10.1371/journal.pone.0061736

Gene Expression Signatures of Energetic Acclimatisation in the Reef Building Coral Acropora millepora
Cited by: 30
Author(s): Line K. Bay, Aurélie Guérécheau, Nikos Andreakis, Karin E. Ulstrup, Mikhail V. Matz
Software Mentions: 4
Published: about 13 years ago

10.1371/journal.pone.0229745

Changes in the gut microbiota of mice orally exposed to methylimidazolium ionic liquids
Cited by: 9
Author(s): Gregory R. Young, Tarek M. Abdelghany, Alistair C. Leitch, Michael Dunn, Peter G. Blain, Clare Lanyon, Matthew C. Wright
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0243748

Diversity and functional prediction of microbial communities involved in the first aerobic bioreactor of coking wastewater treatment system
Cited by: 14
Author(s): Jinsi Deng, Baoshan Zhang, Junting Xie, Haixia Wu, Zemin Li, Guanglei Qiu, Chaohai Wei, Shuang Zhu
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0066798

An Experimental Test of Competition among Mice, Chipmunks, and Squirrels in Deciduous Forest Fragments
Cited by: 17
Author(s): Jesse L. Brunner, Shannon Duerr, Felicia Keesing, Mary Killilea, Holly B. Vuong, Richard S. Ostfeld
Software Mentions: 4
Published: about 13 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

10.3390/cancers13040851

Network Analysis Identifies Drug Targets and Small Molecules to Modulate Apoptosis Resistant Cancers
Cited by: 6
Author(s): Samreen Fathima, Swati Sinha, Sainitin Donakonda
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.9371

pulseTD: RNA life cycle dynamics analysis based on pulse model of 4sU-seq time course sequencing data
Cited by: 0
Author(s): Xin Wang, Siyu He, Jian Li, Jun Wang, Chengyi Wang, Mingwei Wang, Danni He, Xingfeng Lv, Qiuyan Zhong, Hongjiu Wang, Zhenzhen Wang
Software Mentions: 4
Published: about 6 years ago

10.1002/advs.202000938

Atlas of Musculoskeletal Stem Cells with the Soft and Hard Tissue Differentiation Architecture
Cited by: 7
Author(s): Zi Yin, Junxin Lin, Ruojin Yan, Richun Liu, Mengfei Liu, Bo Zhou, Wenyan Zhou, An Chen, Yangwu Chen, Yin Hu, Chunmei Fan, Kun Zhao, Bowen Wu, Xiaohui Zou, Jin Zhang, Ahmed El-Hashash, Xiao Chen
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0045007

Genetic Diversity and Ecosystem Functioning in the Face of Multiple Stressors
Cited by: 44
Author(s): Fabian Roger, Anna Godhe, Lars Gamfeldt
Software Mentions: 4
Published: almost 14 years ago

10.1371/journal.pone.0233067

No evidence for a relationship between breed cooperativeness and inequity aversion in dogs
Cited by: 5
Author(s): Jim McGetrick, Désirée Brucks, Sarah Marshall-Pescini, Friederike Range
Software Mentions: 4
Published: about 6 years ago

10.3390/cancers13174483

Prognostic and Therapeutic Potential of the OIP5 Network in Papillary Renal Cell Carcinoma
Cited by: 6
Author(s): Mathilda Jing Chow, Yan Gu, Lizhi He, Xiaozeng Lin, Ying Dong, Wenjuan Mei, Anil Kapoor, Damu Tang
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0232372

Clinical feasibility of ultrafast intracranial vessel imaging with non-Cartesian spiral 3D time-of-flight MR angiography at 1.5T: An intra-individual comparison study
Cited by: 10
Author(s): Thomas Sartoretti, Elisabeth Sartoretti, Árpád Schwenk, Luuk van Smoorenburg, Manoj Mannil, André Euler, Anton S. Becker, Alex Alfieri, Arash Najafi, Christoph A. Binkert, Michael Wyss, Sabine Sartoretti‐Schefer
Software Mentions: 4
Published: over 6 years ago

10.18632/aging.202780

circRNA expression profiling of colon tissue from mesalazine-treated mouse of inflammatory bowel disease reveals an important circRNA-miRNA-mRNA pathway
Cited by: 8
Author(s): Wei Zhou, Haiyin Zhang, Y. B. Pan, Yingbin Xu, Yongqing Cao
Software Mentions: 4
Published: over 5 years ago

10.3390/cancers12082210

Human FBXL8 Is a Novel E3 Ligase Which Promotes BRCA Metastasis by Stimulating Pro-Tumorigenic Cytokines and Inhibiting Tumor Suppressors
Cited by: 10
Author(s): Shu Chun Chang, Wei‐Hsiu Hsu, Emily Chia Yu Su, Chin Sheng Hung, Jeak Ling Ding
Software Mentions: 4
Published: almost 6 years ago

10.3390/cancers13071494

Musashi1 Contribution to Glioblastoma Development via Regulation of a Network of DNA Replication, Cell Cycle and Division Genes
Cited by: 9
Author(s): Mirella Baroni, Caihong Yi, Saket Choudhary, Xiufen Lei, Adam Kosti, Denise Grieshober, Mitzli X. Velasco, Mu Qiao, Suzanne Burns, Patrícia Rosa de Araújo, Talia Delambre, Mi‐Young Son, Michelina Plateroti, Marco A. R. Ferreira, Paul Hasty, Luiz O. F. Penalva
Software Mentions: 4
Published: over 5 years ago

10.1186/s13040-017-0149-1

Genetically improved BarraCUDA
Cited by: 7
Author(s): William B. Langdon, Brian Y.H. Lam
Software Mentions: 4
Published: almost 9 years ago

10.1172/jci.insight.151621

Combinatorial transcription factor profiles predict mature and functional human islet α and β cells
Cited by: 21
Author(s): Shristi Shrestha, Diane Saunders, John T. Walker, Joan Camunas-Soler, Xiao-Qing Dai, Rachana Haliyur, Radhika Aramandla, Greg Poffenberger, Nripesh Prasad, Rita Bottino, Roland Stein, Jean‐Philippe Cartailler, Stephen C. J. Parker, Patrick E. MacDonald, Shawn Levy, Alvin C. Powers, Marcela Briššová
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0240037

Changes in root-associated fungal communities in Triticum aestivum ssp. spelta L. and Triticum aestivum ssp. vulgare L. under drought stress and in various soil processing
Cited by: 12
Author(s): Sylwia Salamon, Katarzyna Mikołajczak, Lidia Błaszczyk, Karolina Ratajczak, H. Sulewska
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-018-23746-z

Local oceanographic variability influences the performance of juvenile abalone under climate change
Cited by: 26
Author(s): Charles A. Boch, Fiorenza Micheli, Maha W. Alnajjar, Stephen G. Monismith, Jody M. Beers, Juan Carlos Bonilla, Antonio Espinoza, Leonardo Vázquez‐Vera, C. Brock Woodson
Software Mentions: 4
Published: over 8 years ago

10.1080/15384101.2016.1261765

Genome-wide screen of cell-cycle regulators in normal and tumor cells identifies a differential response to nucleosome depletion
Cited by: 24
Author(s): Maria Sokolova, Mikko Turunen, Oliver Mortusewicz, Teemu Kivioja, Patrick Herr, Anna Vähärautio, Mikael Björklund, Minna Taipale, Thomas Helleday, Jussi Taipale
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0253037

A meta-analysis of transcriptomic profiles of Huntington’s disease patients
Cited by: 14
Author(s): Manuel Seefelder, Stefan Kochanek
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0085097

Bacterial Communities in Malagasy Soils with Differing Levels of Disturbance Affecting Botanical Diversity
Cited by: 7
Author(s): Leah C. Blasiak, Alex W. Schmidt, Honoré Andriamiarinoro, Temesgen Belayneh Mulaw, Rado Rasolomampianina, Wendy L. Applequist, Chris Birkinshaw, Félicitée Rejo-Fienena, Porter P. Lowry, Thomas M. Schmidt, Russell T. Hill
Software Mentions: 4
Published: over 12 years ago

10.1038/s41598-019-54782-y

Investigating the energy crisis in Alzheimer disease using transcriptome study
Cited by: 21
Author(s): S. Akila Parvathy Dharshini, Y-h. Taguchi, M. Michael Gromiha
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0210364

The effect of local land use on aerial insectivorous bats (Chiroptera) within the two dominating crop types in the Northern-Caribbean lowlands of Costa Rica
Cited by: 9
Author(s): Priscilla Alpízar, Bernal Rodríguez‐Herrera, Kirsten Jung
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0139404

Reproduction in Risky Environments: The Role of Invasive Egg Predators in Ladybird Laying Strategies
Cited by: 8
Author(s): Sarah Catherine Paul, J. K. Pell, Jonathan D. Blount
Software Mentions: 4
Published: almost 11 years ago

10.3389/fcell.2021.671806

Knockdown of Splicing Complex Protein PCBP2 Reduces Extravillous Trophoblast Differentiation Through Transcript Switching
Cited by: 6
Author(s): Danai Georgiadou, Souad Boussata, Remco Keijser, Dianta Janssen, Gijs B. Afink, Marie van Dijk
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pcbi.1003246

dPeak: High Resolution Identification of Transcription Factor Binding Sites from PET and SET ChIP-Seq Data
Cited by: 13
Author(s): Dongjun Chung, Dan Park, Kevin S. Myers, Jeffrey A. Grass, Patricia J. Kiley, Robert Landick, Sündüz Keleş
Software Mentions: 4
Published: almost 13 years ago

10.3390/cancers13051007

A Lung Organotypic Coculture Reveals a Role for TFEB-Lysosomal Axis in the Survival of Disseminated Dormant Cancer Cells
Cited by: 5
Author(s): Manuela Zangrossi, Probir Chakravarty, Patrizia Romani, Sirio Dupont, Steven Hooper, Erik Sahai, Marco Montagner
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0221694

Capability for arsenic mobilization in groundwater is distributed across broad phylogenetic lineages
Cited by: 15
Author(s): Robert Danczak, Michael D. Johnston, Chris Kenah, Michael T. Slattery, Michael J. Wilkins
Software Mentions: 4
Published: almost 7 years ago

10.1186/s12874-020-01090-z

Disease progression of cancer patients during COVID-19 pandemic: a comprehensive analytical strategy by time-dependent modelling
Cited by: 7
Author(s): Atanu Bhattacharjee, Gajendra K. Vishwakarma, Souvik Banerjee, Sharvari Shukla
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pgen.1007530

Powerful gene set analysis in GWAS with the Generalized Berk-Jones statistic
Cited by: 31
Author(s): Ryan Sun, Shirley Hui, Gary D. Bader, Xihong Lin, Peter Kraft
Software Mentions: 4
Published: over 7 years ago

10.3390/ani10071167

Spatial Aspects of Gardens Drive Ranging in Urban Foxes (Vulpes vulpes): The Resource Dispersion Hypothesis Revisited
Cited by: 3
Author(s): Bryony A. Tolhurst, Rowenna Baker, Francesca Cagnacci, Dawn M. Scott
Software Mentions: 4
Published: about 6 years ago

10.3390/cancers12102844

Target Enrichment Enables the Discovery of lncRNAs with Somatic Mutations or Altered Expression in Paraffin-Embedded Colorectal Cancer Samples
Cited by: 6
Author(s): Susana Iraola-Guzmán, Anna Brunet-Vega, Cinta Pegueroles, Ester Saus, Hrant Hovhannisyan, Àlex Casalots, Carles Pericay, Toni Gabaldón
Software Mentions: 4
Published: almost 6 years ago

10.1186/1471-2105-15-191

Efficient design of meganucleases using a machine learning approach
Cited by: 9
Author(s): Mikhail Zaslavskiy, Claudia Bertonati, Philippe Duchâteau, Aymeric Duclert, George H. Silva
Software Mentions: 4
Published: about 12 years ago

10.3390/cancers12030632

Model-Based Integration Analysis Revealed Presence of Novel Prognostic miRNA Targets and Important Cancer Driver Genes in Triple-Negative Breast Cancers
Cited by: 6
Author(s): Masood Zaka, Chris W. Sutton, Yonghong Peng, Savas Konur
Software Mentions: 4
Published: over 6 years ago