10.1371/journal.pone.0014049

Menin Links the Stress Response to Genome Stability in Drosophila melanogaster
Cited by: 6
Author(s): Maria Papaconstantinou, Alicia N. Pepper, Ying Wu, Dahlia Kasimer, Tim Westwood, Ana Regina Nascimento Campos, Pierre-André Bédard
Software Mentions: 1
Published: almost 16 years ago

10.1186/1471-2164-14-628

BSTA: a targeted approach combines bulked segregant analysis with next- generation sequencing and de novo transcriptome assembly for SNP discovery in sunflower
Cited by: 41
Author(s): M. Livaja, Yu Wang, Silke Wieckhorst, Grit Haseneyer, Michael Seidel, Volker Hahn, Steven J. Knapp, Stefan Taudien, Chris‐Carolin Schön, Eva Bauer
Software Mentions: 1
Published: over 13 years ago

10.1186/1471-2164-11-360

Transcriptomic responses in mouse brain exposed to chronic excess of the neurotransmitter glutamate
Cited by: 31
Author(s): Xinkun Wang, Xiaodong Bao, Ranu Pal, Abdulbakî Agbaş, Elias K. Michaelis
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0007315

Cancer Genomics Identifies Regulatory Gene Networks Associated with the Transition from Dysplasia to Advanced Lung Adenocarcinomas Induced by c-Raf-1
Cited by: 33
Author(s): Astrid Rohrbeck, Jürgen Borlak
Software Mentions: 1
Published: almost 17 years ago

10.1186/1471-2164-14-597

Comparative genomics of metabolic capacities of regulons controlled by cis-regulatory RNA motifs in bacteria
Cited by: 39
Author(s): Eric I. Sun, Semen A. Leyn, Marat D. Kazanov, Milton H. Saier, Pavel S. Novichkov, Dmitry A. Rodionov
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0009482

Increasing Alternative Promoter Repertories Is Positively Associated with Differential Expression and Disease Susceptibility
Cited by: 14
Author(s): Song Liu
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0125171

MicroRNA-27a Contributes to Rhabdomyosarcoma Cell Proliferation by Suppressing RARA and RXRA
Cited by: 21
Author(s): Lucia Tombolan, Matteo Zampini, Silvia Casara, Elena Boldrin, Angelica Zin, Gianni Bisogno, Angelo Rosolen, Cristiano De Pittà, Gerolamo Lanfranchi
Software Mentions: 1
Published: over 11 years ago

10.1038/s41598-021-89237-w

A TILLING by sequencing approach to identify induced mutations in sunflower genes
Cited by: 9
Author(s): Valentina Fanelli, Kathie J. Ngo, Veronica Thompson, Brennan R. Silva, Helen Tsai, Wilma Sabetta, Cinzia Montemurro, Luca Comai, Stacey L. Harmer
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-017-3723-5

A high quality assembly of the Nile Tilapia (Oreochromis niloticus) genome reveals the structure of two sex determination regions
Cited by: 164
Author(s): Matthew A. Conte, William J Gammerdinger, Kerry L. Bartie, David J. Penman, Thomas D. Kocher
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0178485

Global transcriptome profiling identifies KLF15 and SLC25A10 as modifiers of adipocytes insulin sensitivity in obese women
Cited by: 25
Author(s): Agné Kulyté, Anna Ehrlund, Peter Arner, Ingrid Dahlman
Software Mentions: 1
Published: over 9 years ago

10.1113/JP279410

Preventative therapeutic approaches for hypertrophic cardiomyopathy
Cited by: 6
Author(s): Tanya Solomon, Aleksandra Filipovska, Livia C. Hool, Helena M. Viola
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0035553

A Unique Combination of Male Germ Cell miRNAs Coordinates Gonocyte Differentiation
Cited by: 72
Author(s): Skye C McIver, Simone J. Stanger, Danielle M. Santarelli, Shaun D. Roman, Brett Nixon, Eileen A. McLaughlin
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0038870

A Bioinformatics Filtering Strategy for Identifying Radiation Response Biomarker Candidates
Cited by: 17
Author(s): Jung Hun Oh, Harry P. Wong, Xiaowei Wang, Joseph O. Deasy
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0025357

Metabolomic Profiling from Formalin-Fixed, Paraffin-Embedded Tumor Tissue Using Targeted LC/MS/MS: Application in Sarcoma
Cited by: 72
Author(s): Andrew D. Kelly, Susanne B. Breitkopf, Min Yuan, Jeffrey D. Goldsmith, Dimitrios Spentzos, John M. Asara
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0054602

DNA Damage and Transcriptional Changes in the Gills of Mytilus galloprovincialis Exposed to Nanomolar Doses of Combined Metal Salts (Cd, Cu, Hg)
Cited by: 61
Author(s): L Varotto, Stefania Domeneghetti, Umberto Rosani, Chiara Manfrin, M.P. Cajaraville, Stefano Raccanelli, Alberto Pallavicini, Paola Venier
Software Mentions: 1
Published: over 13 years ago

10.1038/s41598-021-89720-4

Zonally asymmetric phytoplankton response to the Southern annular mode in the marginal sea of the Southern ocean
Cited by: 2
Author(s): Kyung Min Noh, Hyung‐Gyu Lim, Jong‐Seong Kug
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0071755

Distinct Gene Expression Signatures in Lynch Syndrome and Familial Colorectal Cancer Type X
Cited by: 30
Author(s): Mev Dominguez‐Valentin, Christina Therkildsen, Srinivas Veerla, Mats Jönsson, Inge Bernstein, Åke Borg, Mef Nilbert
Software Mentions: 1
Published: about 13 years ago

10.1186/ar1501

Cited by: 137
Author(s): Dominique Baeten, Elli Kruithof, Leen De Rycke, Anemieke M Boots, Herman Mielants, Eric Veys, Filip De Keyser
Software Mentions: 1
Published: over 21 years ago

10.1371/journal.pone.0080738

Signature of Circulating MicroRNAs as Potential Biomarkers in Vulnerable Coronary Artery Disease
Cited by: 163
Author(s): Jingyi Ren, Jing Zhang, Ning Xu, Han Guan-ping, Qiang Geng, Junxian Song, Sufang Li, Jianqing Zhao, Hong Chen
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0046763

Transcriptome Analysis of Quantitative Resistance-Specific Response upon Ralstonia solanacearum Infection in Tomato
Cited by: 83
Author(s): T. Ishihara, Ichiro Mitsuhara, Hideki Takahashi, Kazuhiro Nakaho
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0027384

IRF8 Governs Expression of Genes Involved in Innate and Adaptive Immunity in Human and Mouse Germinal Center B Cells
Cited by: 45
Author(s): Dong‐Mi Shin, Chang‐Hoon Lee, Herbert C. Morse
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0030168

Differential Gene Expression between African American and European American Colorectal Cancer Patients
Cited by: 79
Author(s): Biljana Jovov, Félix Araújo-Pérez, Carlie S. Sigel, Jeran K. Stratford, Amber N. McCoy, Jen Jen Yeh, Temitope O. Keku
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0020341

Identification of miRs-143 and -145 that Is Associated with Bone Metastasis of Prostate Cancer and Involved in the Regulation of EMT
Cited by: 202
Author(s): Xinsheng Peng, Wei Guo, Liu Tiejian, Xi Wang, Xiang-An Tu, Dafu Xiong, Song Chen, Yingrong Lai, Hong Du, Guangfu Chen, Guanglin Liu, Yubo Tang, Shuai Huang, Xuenong Zou
Software Mentions: 1
Published: over 15 years ago

10.1113/jphysiol.2014.285577

Statin myalgia is not associated with reduced muscle strength, mass or protein turnover in older male volunteers, but is allied with a slowing of time to peak power output, insulin resistance and differential muscle mRNA expression
Cited by: 36
Author(s): Joanne Mallinson, Kanagaraj Marimuthu, Andrew J. Murton, Anna Selby, Kenneth Smith, Dumitru Constantin‐Teodosiu, Michael J. Rennie, Paul L. Greenhaff
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2164-11-98

Transcriptional profiling of Actinobacillus pleuropneumoniae during the acute phase of a natural infection in pigs
Cited by: 45
Author(s): Vincent Deslandes, Martine Denicourt, Christiane Girard, Josée Harel, John H. E. Nash, Mario Jacques
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2164-15-372

Optimization of linkage mapping strategy and construction of a high-density American lotus linkage map
Cited by: 17
Author(s): Qiong Zhang, Leiting Li, Robert VanBuren, Yanling Liu, Mei Yang, Liming Xu, John E. Bowers, Caihong Zhong, Yuepeng Han, Shaohua Li, Ray Ming
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2164-15-S10-S3

Identification of conserved and polymorphic STRs for personal genomes
Cited by: 8
Author(s): Chien‐Ming Chen, Chi Pong Sio, Yu Lu, Hao Teng Chang, Chaofang Hu, Tun‐Wen Pai
Software Mentions: 1
Published: almost 12 years ago

10.1186/1471-2164-8-438

Dynamic gene expression in fish muscle during recovery growth induced by a fasting-refeeding schedule
Cited by: 96
Author(s): Pierre‐Yves Rescan, Jérôme Montfort, Cécile Rallière, Aurélie Le Cam, Diane Esquerré, Karine Hugot
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pone.0024595

Suppression of Breast Tumor Growth and Metastasis by an Engineered Transcription Factor
Cited by: 46
Author(s): Adriana S. Beltran, Angela Russo, Haydee Lara, Cheng Fan, Paul M. Lizardi, Pilar Blancafort
Software Mentions: 1
Published: about 15 years ago

10.1186/s13075-015-0839-3

A subset of CD163+ macrophages displays mixed polarizations in discoid lupus skin
Cited by: 36
Author(s): Benjamin F. Chong, Lin Chiang Tseng, Gregory A. Hosler, Noelle Teske, Song Zhang, David R. Karp, Nancy J. Olsen, Chandra Mohan
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-015-2120-1

Transcriptome profiling reveals that feeding wild zooplankton to larval Atlantic cod (Gadus morhua) influences suites of genes involved in oxidation-reduction, mitosis, and selenium homeostasis
Cited by: 15
Author(s): Matthew L. Rise, Jennifer R. Hall, Gordon W. Nash, Xi Xue, Marije Booman, Tomer Katan, A. Kurt Gamperl
Software Mentions: 1
Published: almost 11 years ago

10.1186/1471-2164-13-707

Insights into the regulation of human CNV-miRNAs from the view of their target genes
Cited by: 17
Author(s): Xudong Wu, Dinglin Zhang, Guohui Li
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0158991

Affective Pictures and the Open Library of Affective Foods (OLAF): Tools to Investigate Emotions toward Food in Adults
Cited by: 31
Author(s): Laura Miccoli, R. Delgado, Pedro Guerra, Francesco Versace, Sonia Rodríguez‐Ruiz, M. Carmen Fernández‐Santaella
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0149982

The Economic Impact of Eradicating Peste des Petits Ruminants: A Benefit-Cost Analysis
Cited by: 77
Author(s): B. Jones, Karl M. Rich, Jeffrey C. Mariner, J. Anderson, Martyn Jeggo, Sam Thevasagayam, Yi Cai, A. R. Peters, P. L. Roeder
Software Mentions: 1
Published: over 10 years ago

10.1186/s13075-017-1252-x

Multiplex serum protein analysis reveals potential mechanisms and markers of response to hyperimmune caprine serum in systemic sclerosis
Cited by: 6
Author(s): Niamh Quillinan, Kristina E. N. Clark, Bryan Youl, Jeffrey Vernes, D. McIntosh, Syed Atiqul Haq, Christopher P. Denton
Software Mentions: 1
Published: over 9 years ago

10.1186/ar2706

Blood autoantibody and cytokine profiles predict response to anti-tumor necrosis factor therapy in rheumatoid arthritis
Cited by: 104
Author(s): Wolfgang Hueber, Beren Tomooka, Franak Batliwalla, Wentian Li, Paul A. Monach, Robert Tibshirani, Ronald F. van Vollenhoven, Jon Lampa, Kazuyoshi Saito, Yoshiya Tanaka, Mark C. Genovese, Lars Klareskog, Peter K. Gregersen, William H. Robinson
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pone.0019321

The Involvement of SMILE/TMTC3 in Endoplasmic Reticulum Stress Response
Cited by: 26
Author(s): Maud Racapé, Jean‐Paul Duong Van Huyen, Richard Danger, Magali Giral, Françoise Bleicher, Yohann Foucher, Annaïck Pallier, Paul Pilet, Petra Tafelmeyer, Joanna Ashton‐Chess, Emilie Dugast, Ségolène Pettré, Béatrice Charreau, Jean‐Paul Soulillou, Sophie Brouard
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0020060

Non-Parametric Change-Point Method for Differential Gene Expression Detection
Cited by: 30
Author(s): Yao Wang, Chunguo Wu, Zhaohua Ji, Bing–Hong Wang, Yanchun Liang
Software Mentions: 1
Published: over 15 years ago

10.1186/ar3555

Plasma proteins present in osteoarthritic synovial fluid can stimulate cytokine production via Toll-like receptor 4
Cited by: 254
Author(s): Dong Hyun Sohn, Jeremy Sokolove, Orr Sharpe, Jennifer C. Erhart, Piyanka Chandra, Lauren J. Lahey, Tamsin M. Lindström, Inyong Hwang, Katherine A. Boyer, Thomas P. Andriacchi, William H. Robinson
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0044822

Distinct Functional Patterns of Gene Promoter Hypomethylation and Hypermethylation in Cancer Genomes
Cited by: 25
Author(s): Xiaopei Shen, Zheng He, Hongdong Li, Chen Yao, Yang Zhang, Lang He, Shan Li, Jian Huang, Zheng Guo
Software Mentions: 1
Published: about 14 years ago

10.1186/1471-2164-11-248

Comparative gene expression in toxic versus non-toxic strains of the marine dinoflagellate Alexandrium minutum
Cited by: 72
Author(s): Ines Yang, Uwe John, Sára Beszteri, Gernot Glöckner, Bernd Krock, Alexander Goesmann, Allan Cembella
Software Mentions: 1
Published: over 16 years ago

10.1186/ar1751

Cited by: 57
Author(s): Takahito Tsubaki, Norimasa Arita, Takuma Kawakami, Takayuki Shiratsuchi, Haruyasu Yamamoto, Nobuo Takubo, Kazuhito Yamada, Satoshi Nakata, Sachiko Yamamoto, Masato Nose
Software Mentions: 1
Published: over 21 years ago

10.1186/s12864-015-1309-7

REDHORSE-REcombination and Double crossover detection in Haploid Organisms using next-geneRation SEquencing data
Cited by: 5
Author(s): Jahangheer Shaik, Asis Khan, Stephen M. Beverley, L. David Sibley
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0005987

Induction of Empathy by the Smell of Anxiety
Cited by: 188
Author(s): Alexander Prehn‐Kristensen, Christian D. Wiesner, Til Ole Bergmann, Stephan Wolff, Olav Jansen, H. Maximilian Mehdorn, Roman Ferstl, Bettina M. Pause
Software Mentions: 1
Published: about 17 years ago

10.1186/1471-2164-15-S3-S2

Extraction and annotation of human mitochondrial genomes from 1000 Genomes Whole Exome Sequencing data
Cited by: 56
Author(s): Maria Angela Diroma, Claudia Calabrese, Domenico Simone, Mariangela Santorsola, Francesco Maria Calabrese, Giuseppe Gasparre, Marcella Attimonelli
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2164-5-47

A molecular 'signature' of primary breast cancer cultures; patterns resembling tumor tissue
Cited by: 60
Author(s): Shanaz H. Dairkee, Youngran Ji, Yong Ben, Dan H. Moore, Zhenhang Meng, Stefanie S. Jeffrey
Software Mentions: 1
Published: about 22 years ago

10.1371/journal.pone.0234343

Predictors of in-hospital mortality among under-five children with severe acute malnutrition in South-Western Uganda
Cited by: 7
Author(s): Timothy Nduhukire, Daniel Atwine, Rachel Luwaga, Joseph Byonanebye
Software Mentions: 1
Published: about 6 years ago

10.1186/1471-2164-12-605

MicroRNA-mediated gene regulation plays a minor role in the transcriptomic plasticity of cold-acclimated Zebrafish brain tissue
Cited by: 33
Author(s): Ruolin Yang, Zhendong Dai, Shue Chen, Liangbiao Chen
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0154604

Manipulating the Prion Protein Gene Sequence and Expression Levels with CRISPR/Cas9
Cited by: 19
Author(s): Lech Kaczmarczyk, Ylva Mende, Branko Zevnik, Walker S. Jackson
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0126070

Tn-Seq Explorer: A Tool for Analysis of High-Throughput Sequencing Data of Transposon Mutant Libraries
Cited by: 61
Author(s): Sina Solaimanpour, Felipe Sarmiento, Jan Mrázek
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0221764

Bayesian multilevel model of micro RNA levels in ovarian-cancer and healthy subjects
Cited by: 7
Author(s): Paweł Wiczling, Emilia Daghir-Wojtkowiak, Roman Kaliszan, Michał J. Markuszewski, Janusz Limon, Magdalena Koczkowska, Maciej Stukan, Alina Kuźniacka, Magdalena Ratajska
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0009730

Distinct Types of Fibrocyte Can Differentiate from Mononuclear Cells in the Presence and Absence of Serum
Cited by: 53
Author(s): S. John Curnow, Marianne Elizabeth Fairclough, Caroline Schmutz, Steve Kissane, Alastair K Denniston, Kate Nash, Christopher D. Buckley, Janet M. Lord, Mike Salmon
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0122285

The Role of HOXB9 and miR-196a in Head and Neck Squamous Cell Carcinoma
Cited by: 49
Author(s): Lav Darda, Fahad Hakami, Richard Morgan, Craig Murdoch, D Lambert, Keith D. Hunter
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0228584

The role of mobility in sexual risk behaviour and HIV acquisition among sub-Saharan African migrants residing in two European cities
Cited by: 14
Author(s): Sónia Dias, Ana Gama, Jasna Loos, Luis Roxo, Daniel Simões, Christiana Nöstlinger
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0134955

Simultaneous Hypoxia and Low Extracellular pH Suppress Overall Metabolic Rate and Protein Synthesis In Vitro
Cited by: 17
Author(s): Brita Singers Sørensen, Morten Busk, Jens Overgaard, Michael R. Horsman, Jan Alsner
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0024287

Structural Mechanism of S-Adenosyl Methionine Binding to Catechol O-Methyltransferase
Cited by: 29
Author(s): Douglas Tsao, Luda Diatchenko, Nikolay V. Dokholyan
Software Mentions: 1
Published: about 15 years ago

10.1186/1471-2164-11-31

Temperature increase prevails over acidification in gene expression modulation of amastigote differentiation in Leishmania infantum
Cited by: 57
Author(s): Pedro J. Alcolea, Ana Alonso, Manuel J. Gómez, Alicia Sánchez-Gorostiaga, Mercedes Moreno‐Paz, Eduardo González-Pastor, Alfredo Toraño, Vı́ctor Parro, Vicente Larraga
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0058469

Additional Routes to Staphylococcus aureus Daptomycin Resistance as Revealed by Comparative Genome Sequencing, Transcriptional Profiling, and Phenotypic Studies
Cited by: 49
Author(s): Yang Song, Aileen Rubio, Radheshyam K. Jayaswal, Jared Silverman, Brian J. Wilkinson
Software Mentions: 1
Published: over 13 years ago

10.1186/ar1990

Gene profiling in white blood cells predicts infliximab responsiveness in rheumatoid arthritis
Cited by: 132
Author(s): Thierry Lequerré, Anne-Christine Gauthier-Jauneau, Carine Bansard, Céline Derambure, Martine Hiron, Olivier Vittecoq, Maryvonne Daveau, O. Mejjad, A. Daragon, François Tron, Xavier Le Loët, Jean‐Philippe Salier
Software Mentions: 1
Published: over 20 years ago

10.1186/ar4609

Inflammatory expression profiles in monocyte-to-macrophage differentiation in patients with systemic lupus erythematosus and relationship with atherosclerosis
Cited by: 27
Author(s): Benjamin Korman, Chiang-Ching Huang, Carly Skamra, Peggy Wu, Renee E. Koessler, David Yao, Qi Huang, William Pearce, Kim Sutton-Tyrrell, George T. Kondos, Daniel Edmundowicz, Richard M. Pope, Rosalind Ramsey‐Goldman
Software Mentions: 1
Published: over 12 years ago

10.1038/s41598-021-95212-2

“Ecce Homo” by Antonello da Messina, from non-invasive investigations to data fusion and dissemination
Cited by: 15
Author(s): Fauzia Albertin, Chiara Ruberto, Costanza Cucci, Marco Callieri, Marco Potenziani, Eliana Siotto, Paolo Pingi, Roberto Scopigno, Matteo Bettuzzi, Rosa Brancaccio, Maria Pia Morigi, Lisa Castelli, F. Taccetti, Marcello Picollo, Lorenzo De Stefani, F. De Vita
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0012243

Examination of Apoptosis Signaling in Pancreatic Cancer by Computational Signal Transduction Analysis
Cited by: 31
Author(s): Felix Rückert, Gihan Dawelbait, Christof Winter, Arndt Hartmann, Axel Denz, Ole Ammerpohl, Michael Schroeder, Hans K. Schackert, Bence Sipos, Günter Klöppel, Holger Kalthoff, Hans‐Detlev Saeger, Christian Pilarsky, Robert Grützmann
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0066714

Principal Component Analysis Based Feature Extraction Approach to Identify Circulating microRNA Biomarkers
Cited by: 62
Author(s): Y-h. Taguchi, Yoshiki Murakami
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0093243

Serum Inflammatory Mediators as Markers of Human Lyme Disease Activity
Cited by: 47
Author(s): Mark J. Soloski, Lauren A. Crowder, Lauren J. Lahey, Catriona A. Wagner, William H. Robinson, John N. Aucott
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0043769

Transcriptional Profiling of Midgut Immunity Response and Degeneration in the Wandering Silkworm, Bombyx mori
Cited by: 40
Author(s): Qiufang Xu, Aijun Lü, Guohua Xiao, Bing Yang, Jie Zhang, Xuquan Li, Jingmin Guan, Qi-Miao Shao, Brenda T. Beerntsen, Peng Zhang, Chengshu Wang, Erjun Ling
Software Mentions: 1
Published: about 14 years ago

10.1038/s41598-021-95781-2

Molecular and functional characterization of detrusor PDGFRα positive cells in spinal cord injury-induced detrusor overactivity
Cited by: 2
Author(s): Ken Lee, Sang O Park, Pil-Cho Choi, Seung‐Bum Ryoo, Haeyeong Lee, Lauren E. Peri, Tong Zhou, Robert D. Corrigan, Andrew Yanez, Sun-Young Moon, Brian A. Perrino, Kenton M. Sanders, Sang Don Koh
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0112119

Defining Landscape Resistance Values in Least-Cost Connectivity Models for the Invasive Grey Squirrel: A Comparison of Approaches Using Expert-Opinion and Habitat Suitability Modelling
Cited by: 49
Author(s): Claire D. Stevenson-Holt, Kevin Watts, Chloe Bellamy, Owen Nevin, Andrew D. Ramsey
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0026369

Strain-Dependent Host Transcriptional Responses to Toxoplasma Infection Are Largely Conserved in Mammalian and Avian Hosts
Cited by: 22
Author(s): Yi-Ching Ong, Jon P. Boyle, John C. Boothroyd
Software Mentions: 1
Published: almost 15 years ago

10.1038/s41598-021-96059-3

Numerical simulation and analysis of effects of individual differences on the field distribution in the human brain with electromagnetic pulses
Cited by: 4
Author(s): Shan Wang, Song Zhang, Huiping Li, Guozhen Guo, Xiaoli Xi
Software Mentions: 1
Published: about 5 years ago

10.1186/s13075-017-1360-7

Limited cutaneous systemic sclerosis skin demonstrates distinct molecular subsets separated by a cardiovascular development gene expression signature
Cited by: 13
Author(s): Emma Derrett-Smith, Viktor Martyanov, Cecilia Beatrice Chighizola, Pia Moinzadeh, Corrado Campochiaro, Korsa Khan, Tammara A. Wood, Pier Luigi Meroni, David Abraham, Voon H Ong, Robert Lafyatis, Michael L. Whitfield, Christopher P. Denton
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0059471

Gender and Facial Dominance in Gaze Cuing: Emotional Context Matters in the Eyes That We Follow
Cited by: 43
Author(s): Garian Ohlsen, Wieske van Zoest, Mark van Vugt
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0152039

Profiling Ethylene-Responsive Genes Expressed in the Latex of the Mature Virgin Rubber Trees Using cDNA Microarray
Cited by: 11
Author(s): Zhiyi Nie, Guijuan Kang, Cuifang Duan, Li Yu, Longjun Dai, Rizhong Zeng
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0025988

S-MART, A Software Toolbox to Aid RNA-seq Data Analysis
Cited by: 32
Author(s): Matthias Zytnicki, Hadi Quesneville
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0185612

High-throughput m6A-seq reveals RNA m6A methylation patterns in the chloroplast and mitochondria transcriptomes of Arabidopsis thaliana
Cited by: 35
Author(s): Zegang Wang, Kai Tang, Dayong Zhang, Yizhen Wan, Yan Wen, Quan-You Lu, Lei Wang
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0005775

Gene Expression Profiling of Lymphoblasts from Autistic and Nonaffected Sib Pairs: Altered Pathways in Neuronal Development and Steroid Biosynthesis
Cited by: 135
Author(s): Valerie W. Hu, Anh Thu Nguyen, Kyung Soon Kim, Mara E. Steinberg, Tewarit Sarachana, Michele A. Scully, Steven J. Soldin, Truong Luu, Norman H. Lee
Software Mentions: 1
Published: over 17 years ago

10.1186/s13075-016-0991-4

Comparative analysis of gene expression profiles in normal hip human cartilage and cartilage from patients with necrosis of the femoral head
Cited by: 20
Author(s): Ruiyu Liu, Qi Liu, Kunzheng Wang, Xiaoqian Dang, Feng Zhang
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2164-10-10

A gene expression signature shared by human mature oocytes and embryonic stem cells
Cited by: 109
Author(s): Saïd Assou, Doris Cerecedo, Sylvie Tondeur, Véronique Pantesco, Outi Hovatta, Bernard Klein, S. Hamamah, John De Vos
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pone.0106759

Cultural Differences in the Relationship between Intrusions and Trauma Narratives Using the Trauma Film Paradigm
Cited by: 12
Author(s): Laura Jobson, Tim Dalgleish
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0008549

Gene Expression in a Drosophila Model of Mitochondrial Disease
Cited by: 66
Author(s): Daniel J. M. Fernández-Ayala, Shanjun Chen, Esko Kemppainen, Kevin O’Dell, Howard T. Jacobs
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0007148

Highly Sensitive Detection of Individual HEAT and ARM Repeats with HHpred and COACH
Cited by: 30
Author(s): Fred Kippert, Dietlind L. Gerloff
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pone.0008785

Molecular Signatures of Quiescent, Mobilized and Leukemia-Initiating Hematopoietic Stem Cells
Cited by: 111
Author(s): Erik Forsberg, Emmanuelle Passegué, Susan Prohaska, Amy J. Wagers, Martina Koeva, Joshua M. Stuart, Irving L. Weissman
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0042618

The Neuromagnetic Dynamics of Time Perception
Cited by: 7
Author(s): Frederick W. Carver, Brita Elvevåg, Mario Altamura, Daniel R. Weinberger, Richard Coppola
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0008599

The First Bite— Profiling the Predatosome in the Bacterial Pathogen Bdellovibrio
Cited by: 83
Author(s): Carey Lambert, Chien‐Yi Chang, Michael J. Capeness, R. Elizabeth Sockett
Software Mentions: 1
Published: over 16 years ago

10.1186/s40101-016-0116-4

Positive emotion inducement modulates cardiovascular responses caused by mental work
Cited by: 6
Author(s): Xinxin Liu, Kazuma Ishimatsu, Midori Sotoyama, Kazuyuki Iwakiri
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0060400

Daily Step Count Predicts Acute Exacerbations in a US Cohort with COPD
Cited by: 113
Author(s): Marilyn L. Moy, Merilee Teylan, Nicole Weston, David Gagnon, Eric Garshick
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0106277

Diet-Induced Obesity Modulates Epigenetic Responses to Ionizing Radiation in Mice
Cited by: 27
Author(s): Guillaume Varès, Bing Wang, Hiroko Ishii-Ohba, Mitsuru Nenoi, Tetsuo Nakajima
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0009753

Dissecting Interferon-Induced Transcriptional Programs in Human Peripheral Blood Cells
Cited by: 138
Author(s): Simon J. Waddell, Stephen J. Popper, Kathleen H. Rubins, Michael J. Griffiths, Patrick O. Brown, Michael Levin, David A. Relman
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0144302

Tissue Restricted Splice Junctions Originate Not Only from Tissue-Specific Gene Loci, but Gene Loci with a Broad Pattern of Expression
Cited by: 4
Author(s): Matthew S. Hestand, Zheng Zeng, Stephen J. Coleman, Jinze Liu, James N. MacLeod
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0049569

Transcriptome Analysis of Renal Ischemia/Reperfusion Injury and Its Modulation by Ischemic Pre-Conditioning or Hemin Treatment
Cited by: 46
Author(s): Matheus Corrêa-Costa, Hátylas Azevedo, Mariane Tami Amano, Giselle Martins Gonçalves, Meire Ioshie Hyane, Marcos Antônio Cenedeze, Paulo Guilherme Renesto, Álvaro Pacheco-Silva, Carlos Alberto Moreira-Filho, Niels Olsen Saraiva Câmara
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0001919

Maternal Cocaine Administration in Mice Alters DNA Methylation and Gene Expression in Hippocampal Neurons of Neonatal and Prepubertal Offspring
Cited by: 126
Author(s): Svetlana I. Novikova, Fang He, Jie Bai, Nicholas J. Cutrufello, Michael S. Lidow, Ashiwel S. Undieh
Software Mentions: 1
Published: over 18 years ago

10.1371/journal.pone.0035514

Environmental Effects on Vertebrate Species Richness: Testing the Energy, Environmental Stability and Habitat Heterogeneity Hypotheses
Cited by: 35
Author(s): Zhenhua Luo, Shuangshuang Tang, Chunwang Li, Han Fang, Huijian Hu, Ji Ho Yang, Jingjing Ding, Zhigang Jiang
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0206542

miR-21, miR-99b and miR-375 combination as predictive response signature for preoperative chemoradiotherapy in rectal cancer
Cited by: 33
Author(s): Marc Campayo, Alfons Navarro, José Carlos Benítez, Sandra Santasusagna, Carme Ferrer, Mariano Monzó, Luís Cirera
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0040112

Evaluation of Gene, Protein and Neurotrophin Expression in the Brain of Mice Exposed to Space Environment for 91 Days
Cited by: 49
Author(s): Daniela Santucci, Fuminori Kawano, Takashi Ohira, Masahiro Terada, Norihiro Nakai, Nadia Francia, Enrico Alleva, Luigi Aloe, Toshimasa Ochiai, Ranieri Cancedda, Katsumasa Goto, Yoshinobu Ohira
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0172625

The natural killer cell response to West Nile virus in young and old individuals with or without a prior history of infection
Cited by: 25
Author(s): Yi Yao, Dara M. Strauss‐Albee, Julian Q. Zhou, Anna Malawista, Melissa N. Garcia, Kristy O. Murray, Catherine A. Blish, Ruth R. Montgomery
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2164-8-376

Intrinsic androgen-dependent gene expression patterns revealed by comparison of genital fibroblasts from normal males and individuals with complete and partial androgen insensitivity syndrome
Cited by: 37
Author(s): Paul‐Martin Holterhus, Uta Deppe, Ralf Werner, Annette Richter‐Unruh, Jan-Hendrik Bebermeier, Lutz Wünsch, Susanne Krege, Hans‐Udo Schweikert, János Demeter, Felix G. Riepe, Olaf Hiort, James D. Brooks
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pone.0175251

Different reprogramming propensities in plants and mammals: Are small variations in the core network wirings responsible?
Cited by: 6
Author(s): Victor Olariu, Julia Nilsson, Henrik Jönsson, Carsten Peterson
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-021-98448-0

Visual explanations from spiking neural networks using inter-spike intervals
Cited by: 13
Author(s): Youngeun Kim, Priyadarshini Panda
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0016636

Comparative Profiling of Primary Colorectal Carcinomas and Liver Metastases Identifies LEF1 as a Prognostic Biomarker
Cited by: 55
Author(s): Albert Y. Lin, Mei-Sze Chua, Yoon‐La Choi, William Yeh, Young H. Kim, Raymond L. Azzi, Gregg A. Adams, Kristin L. Sainani, Matt van de Rijn, Samuel So, Jonathan R. Pollack
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0025758

Alternative Transcript Initiation and Splicing as a Response to DNA Damage
Cited by: 45
Author(s): Carl N. Sprung, Jason Li, Daniel Hovan, Michael J. McKay, Helen B. Forrester
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0114123

Gold Nanoparticle Interference Study during the Isolation, Quantification, Purity and Integrity Analysis of RNA
Cited by: 8
Author(s): Natasha Sanabria, Melissa Vetten, Charlene Andraos, Kailen Boodhia, Mary Gulumian
Software Mentions: 1
Published: almost 12 years ago