10.1186/s12864-016-3433-4

Short bowel syndrome results in increased gene expression associated with proliferation, inflammation, bile acid synthesis and immune system activation: RNA sequencing a zebrafish SBS model
Cited by: 24
Author(s): Kathy Schall, Matthew E. Thornton, Mubina Isani, Kathleen A. Holoyda, Xiaogang Hou, Ching‐Ling Lien, Brendan H. Grubbs, Tracy C. Grikscheit
Software Mentions: 3
Published: over 9 years ago

10.3390/ijms22041831

Receptor Tyrosine Kinase Signaling and Targeting in Glioblastoma Multiforme
Cited by: 33
Author(s): Manali Tilak, Jennifer Holborn, Laura A. New, Jasmin Lalonde, Nina Jones
Software Mentions: 3
Published: over 5 years ago

10.1016/j.gdata.2016.10.005

Transcriptional profiles of WNV neurovirulence in a genetically diverse Collaborative Cross population
Cited by: 10
Author(s): Richard Green, Courtney Wilkins, Sunil Thomas, Aimee Sekine, Reneé C. Ireton, Martin T. Ferris, Duncan M. Hendrick, Kathleen Voss, Fernando Pardo-Manuel de Villena, Ralph S. Baric, Mark T. Heise, Michael Gale
Software Mentions: 3
Published: over 9 years ago

10.3390/cancers11091377

MALDI-MSI as a Complementary Diagnostic Tool in Cytopathology: A Pilot Study for the Characterization of Thyroid Nodules
Cited by: 22
Author(s): Giulia Capitoli, Isabella Piga, Stefania Galimberti, Davide Leni, Angela Ida Pincelli, Mattia Garancini, Francesca Clerici, Allia Mahajneh, Virginia Brambilla, Andrew Smith, Fulvio Magni, Fabio Pagni
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12936-020-03441-z

High prevalence of asymptomatic malaria infections in adults, Ashanti Region, Ghana, 2018
Cited by: 22
Author(s): Melina Heinemann, Richard Odame Phillips, Christof D. Vinnemeier, Christina C. Rolling, Egbert Tannich, Thierry Rolling
Software Mentions: 3
Published: almost 6 years ago

10.3390/cancers11121886

Cancer Is Associated with Alterations in the Three-Dimensional Organization of the Genome
Cited by: 13
Author(s): Lifei Li, Nicolai K H Barth, Christian Pilarsky, Leila Taher
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-017-3663-0

Transcriptome analysis of the two unrelated fungal β-lactam producers Acremonium chrysogenum and Penicillium chrysogenum: Velvet-regulated genes are major targets during conventional strain improvement programs
Cited by: 22
Author(s): Dominik Terfehr, Tim A. Dahlmann, Ulrich Kück
Software Mentions: 3
Published: over 9 years ago

10.3390/vaccines8040655

Immune Checkpoint Blockade Enhances Immune Activity of Therapeutic Lung Cancer Vaccine
Cited by: 3
Author(s): Pournima Kadam, Ram Pyare Singh, Michael Davoodi, Jay M. Lee, Maie St. John, Sherven Sharma
Software Mentions: 3
Published: almost 6 years ago

10.1007/s00784-016-2024-8

Efficacy of desensitizing products containing 8% arginine and calcium carbonate for hypersensitivity relief in MIH-affected molars: an 8-week clinical study
Cited by: 43
Author(s): Katrin Bekes, Karolin Heinzelmann, Stefan Lettner, Hans‐Günter Schaller
Software Mentions: 3
Published: over 9 years ago

10.3390/vaccines9030300

Factors Associated with COVID-19 Vaccine Hesitancy
Cited by: 404
Author(s): Patrícia Soares, Jorge Luiz da Rocha, Marta Moniz, Ana Gama, P.A. Laires, Ana Rita Pedro, Sónia Dias, Andreia Leite, Carla Nunes
Software Mentions: 3
Published: over 5 years ago

10.3390/cancers12092713

Hormonal Receptor Status Determines Prognostic Significance of FGFR2 in Invasive Breast Carcinoma
Cited by: 9
Author(s): Marcin Braun, Dominika Piasecka, Bartłomiej Tomasik, Kamil Mieczkowski, Konrad Stawiski, Aleksandra Zielińska, Janusz Kopczyński, Dariusz Nejc, Radzisław Kordek, Rafał Sądej, Hanna Romańska
Software Mentions: 3
Published: almost 6 years ago

10.3390/vaccines9040332

Awareness, Attitudes and Clinical Practices Regarding Human Papillomavirus Vaccination among General Practitioners and Pediatricians in Switzerland
Cited by: 2
Author(s): Levy Jäger, Oliver Senn, Thomas Rosemann, Andreas Plate
Software Mentions: 3
Published: over 5 years ago

10.1111/eva.12658

Structural and compositional mismatch between captive and wild Atlantic salmon (<i>Salmo salar</i>) parrs’ gut microbiota highlights the relevance of integrating molecular ecology for management and conservation methods
Cited by: 30
Author(s): Camille Lavoie, Maxime Courcelle, Baptise Redivo, Nicolas Derôme
Software Mentions: 3
Published: about 8 years ago

10.1186/s12862-018-1199-9

The evolution of a series of behavioral traits is associated with autism-risk genes in cavefish
Cited by: 28
Author(s): Masato Yoshizawa, Alexander Settle, Meredith C. Hermosura, Lillian J. Tuttle, Nicolas Cetraro, Courtney N. Passow, Suzanne E. McGaugh
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0054885

A Biophysical Model for Identifying Splicing Regulatory Elements and Their Interactions
Cited by: 6
Author(s): Ji Wen, Zhibin Chen, Xiaodong Cai
Software Mentions: 3
Published: over 13 years ago

10.1186/s13073-018-0557-y

Therapy-induced stress response is associated with downregulation of pre-mRNA splicing in cancer cells
Cited by: 27
Author(s): Ksenia S. Anufrieva, Victoria О. Shender, Georgij Arapidi, Marat S. Pavlyukov, M. I. Shakhparonov, Polina V. Shnaider, Ivan Butenko, Maria A. Lagarkova, Vadim M. Govorun
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0027368

Defining the Role of Essential Genes in Human Disease
Cited by: 85
Author(s): Jonathan E. Dickerson, Ana Zhu, David L. Robertson, Kathryn E. Hentges
Software Mentions: 3
Published: almost 15 years ago

10.3389/fonc.2020.00788

The Landscape of Iron Metabolism-Related and Methylated Genes in the Prognosis Prediction of Clear Cell Renal Cell Carcinoma
Cited by: 15
Author(s): Yanhua Mou, Yao Zhang, Jinchun Wu, Busheng Hu, Chunfang Zhang, Chaojun Duan, Bin Li
Software Mentions: 3
Published: about 6 years ago

10.3390/ijms22052424

Dysregulated CD38 Expression on Peripheral Blood Immune Cell Subsets in SLE
Cited by: 17
Author(s): Marie Burns, Lennard Ostendorf, Robert Biesen, Andreas Grützkau, Falk Hiepe, Henrik E. Mei, Tobias Alexander
Software Mentions: 3
Published: over 5 years ago

10.3389/fmicb.2018.01845

Quantitative RNA-seq Analysis Unveils Osmotic and Thermal Adaptation Mechanisms Relevant for Ectoine Production in Chromohalobacter salexigens
Cited by: 17
Author(s): Manuel Salvador, Montserrat Argandoña, Emilia Naranjo, Francine Piubeli, Joaquı́n J. Nieto, L.N. Csonka, Carmen Regla Vargas
Software Mentions: 3
Published: about 8 years ago

10.1186/s13072-015-0028-2

BIDCHIPS: bias decomposition and removal from ChIP-seq data clarifies true binding signal and its functional correlates
Cited by: 16
Author(s): Parameswaran Ramachandran, Gareth Palidwor, Theodore J. Perkins
Software Mentions: 3
Published: almost 11 years ago

10.1038/srep09100

Genomic analysis of LPS-stimulated myeloid cells identifies a common pro-inflammatory response but divergent IL-10 anti-inflammatory responses
Cited by: 41
Author(s): Andrew Paul Hutchins, Yoshiko Takahashi, Diego Miranda‐Saavedra
Software Mentions: 3
Published: over 11 years ago

10.1038/srep20837

Differential Expression of Genes and DNA Methylation associated with Prenatal Protein Undernutrition by Albumen Removal in an avian model
Cited by: 15
Author(s): Els Willems, Carlos Guerrero-Bosagna, Eddy Decuypere, Steven Janssens, Johan Buyse, Nadine Buys, Per Jensen, Nadia Everaert
Software Mentions: 3
Published: over 10 years ago

10.1186/s12864-018-5303-8

Higher plane of nutrition pre-weaning enhances Holstein calf mammary gland development through alterations in the parenchyma and fat pad transcriptome
Cited by: 13
Author(s): Mario Vailati-Riboni, Ryan Bucktrout, Siyuan Zhan, Ashley Geiger, Joshua C McCann, R.M. Akers, Juan J. Loor
Software Mentions: 3
Published: over 7 years ago

10.1038/s42003-021-02588-y

Burkholderia PglL enzymes are Serine preferring oligosaccharyltransferases which target conserved proteins across the Burkholderia genus
Cited by: 3
Author(s): Andrew Hayes, Jessica M Lewis, Mark R. Davies, Nichollas E. Scott
Software Mentions: 3
Published: almost 5 years ago

10.1038/s42003-021-02242-7

A human isogenic iPSC-derived cell line panel identifies major regulators of aberrant astrocyte proliferation in Down syndrome
Cited by: 11
Author(s): Keiji Kawatani, Toshihiko Nambara, Nobutoshi Nawa, Hidetaka Yoshimatsu, Haruna Kusakabe, Katsuya Hirata, Akira Tanave, Kenta Sumiyama, Kimihiko Banno, Hidetoshi Taniguchi, Hitomi Arahori, Keiichi Ozono, Yasuji Kitabatake
Software Mentions: 3
Published: about 5 years ago

10.1186/s42523-021-00116-1

Molecular and culture-based assessment of the microbiome in a zebrafish (Danio rerio) housing system during set-up and equilibration
Cited by: 4
Author(s): Aaron C. Ericsson, Susheel Bhanu Busi, Daniel R. Davis, Henda Nabli, David C. Eckhoff, Rebecca A. Dorfmeyer, Giedre Turner, Payton S. Oswalt, Marcus J Crim, Elizabeth C. Bryda
Software Mentions: 3
Published: about 5 years ago

10.1186/s12864-016-2363-5

Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Cited by: 41
Author(s): Roy G. Danzmann, Andrea L. Kocmarek, Joseph D. Norman, Caird E. Rexroad, Yniv Palti
Software Mentions: 3
Published: over 10 years ago

10.1093/bioinformatics/btaa707

The optimal discovery procedure for significance analysis of general gene expression studies
Cited by: 1
Author(s): Andrew J. Bass, J. Douglas Storey
Software Mentions: 3
Published: almost 6 years ago

10.1002/mbo3.583

Characterization of Swedish<i>Campylobacter coli</i>clade 2 and clade 3 water isolates
Cited by: 5
Author(s): Anna Nilsson, Astrid Skarp, Cecilia Johansson, René Kaden, Lars Engstrand, Hilpi Rautelin
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-015-2043-x

Whole transcriptome analysis of Penicillium digitatum strains treatmented with prochloraz reveals their drug-resistant mechanisms
Cited by: 41
Author(s): Jing Liu, Shengqiang Wang, Tingting Qin, Na Li, Yuhui Niu, Dandan Li, Yongze Yuan, Hui Geng, Xiong Li, De Li Liu
Software Mentions: 3
Published: almost 11 years ago

10.1371/journal.pcbi.1003472

Integrative Computational and Experimental Approaches to Establish a Post-Myocardial Infarction Knowledge Map
Cited by: 9
Author(s): Nguyen T. Nguyen, Xiaolin Zhang, Cathy H. Wu, Richard A. Lange, Robert Chilton, Merry L. Lindsey, Yu Jin
Software Mentions: 3
Published: over 12 years ago

10.3389/fcell.2021.694769

Comparison of Genome-Wide DNA Methylation Profiles of Human Fetal Tissues Conceived by in vitro Fertilization and Natural Conception
Cited by: 4
Author(s): Ye Liu, Xinzhu Li, Songchang Chen, Li Wang, Ya‐Jing Tan, Xiaocui Li, Lin Tang, Junyu Zhang, Dandan Wu, Yanting Wu, Xinmei Liu, Yimin Zhu, Jian‐Zhong Sheng, Jiexue Pan, Li Jin, He‐Feng Huang
Software Mentions: 3
Published: about 5 years ago

10.3389/fnins.2014.00409

Functional genomic analysis and neuroanatomical localization of miR-2954, a song-responsive sex-linked microRNA in the zebra finch
Cited by: 13
Author(s): Ya-Chi Lin, Christopher N. Balakrishnan, David F. Clayton
Software Mentions: 3
Published: over 11 years ago

10.1186/s13567-018-0507-0

Effects of temperature on Veronaea botryosa infections in white sturgeon Acipenser transmontanus and fungal induced cytotoxicity of fish cell lines
Cited by: 16
Author(s): Denver J. Coleman, Alvin C. Camus, Beatriz Martínez‐López, Susan Yun, Brittany N. Stevens, Esteban Soto
Software Mentions: 3
Published: over 8 years ago

10.1186/s12977-017-0378-x

Modulation of the functional association between the HIV-1 intasome and the nucleosome by histone amino-terminal tails
Cited by: 14
Author(s): Mohamed Salah Benleulmi, Julien Matysiak, Xavier Robert, Csaba Miskey, Eric Mauro, Delphine Lapaillerie, Paul Lesbats, Stéphane Chaignepain, Daniel R. Henríquez, Christina Calmels, Oyindamola Oladosu, Eloïse Thierry, Óscar León, Marc Lavigne, Marie‐Line Andréola, Olivier Delelis, Zoltán Ivics, Marc Ruff, Patrice Gouet, Vincent Parissi
Software Mentions: 3
Published: over 8 years ago

10.1007/s00401-013-1168-8

Deep sequencing reveals increased DNA methylation in chronic rat epilepsy
Cited by: 162
Author(s): Katja Kobow, Antony Kaspi, K N Harikrishnan, K. Kiese, Mark Ziemann, Ishant Khurana, Ina Fritzsche, Jan Hauke, Eric Hahnen, Roland Coras, Angelika Mühlebner, Assam El‐Osta, Ingmar Blümcke
Software Mentions: 3
Published: almost 13 years ago

10.1371/journal.pone.0127433

Data Mining Approaches for Genomic Biomarker Development: Applications Using Drug Screening Data from the Cancer Genome Project and the Cancer Cell Line Encyclopedia
Cited by: 25
Author(s): David G. Covell
Software Mentions: 3
Published: about 11 years ago

10.3390/ijms22010296

Distinct Regulation of the Expression of Satellite DNAs in the Beetle Tribolium castaneum
Cited by: 4
Author(s): Antonio Sermek, Isidoro Feliciello, Đurđica Ugarković
Software Mentions: 3
Published: over 5 years ago

10.3390/metabo11080525

Metabolomic Profiling of Adults with Congenital Heart Disease
Cited by: 8
Author(s): Ari Cedars, Cedric Manlhiot, Jong Mi Ko, Teodoro Bottiglieri, Erland Arning, Angela Weingarten, Alexander R. Opotowsky, Shelby Kutty
Software Mentions: 3
Published: about 5 years ago

10.1038/s42003-020-1073-3

Task rule and choice are reflected by layer-specific processing in rodent auditory cortical microcircuits
Cited by: 14
Author(s): Marina M. Zempeltzi, Martin Kisse, Michael G. K. Brunk, Claudia Glemser, Sümeyra Aksit, Katrina E. Deane, Sandip Maurya, Lina Schneider, Frank W. Ohl, Matthias Deliano, Max F. K. Happel
Software Mentions: 3
Published: about 6 years ago

10.1038/srep41498

Accessing the genomic information of unculturable oceanic picoeukaryotes by combining multiple single cells
Cited by: 46
Author(s): Jean‐François Mangot, Ramiro Logares, Pablo Sánchez, Fran Latorre, Yoann Seeleuthner, Samuel Mondy, Michael E. Sieracki, Olivier Jaillon, Patrick Wincker, Colomban de Vargas, Ramón Massana
Software Mentions: 3
Published: over 9 years ago

10.1186/s40478-018-0569-2

ABCA1 haplodeficiency affects the brain transcriptome following traumatic brain injury in mice expressing human APOE isoforms
Cited by: 16
Author(s): Emilie L. Castranio, Cody M. Wolfe, Kyong Nyon Nam, Florent Letronne, Nicholas F. Fitz, Iliya Lefterov, Radosveta Koldamova
Software Mentions: 3
Published: about 8 years ago

10.1038/s42003-019-0718-6

Monocytes undergo multi-step differentiation in mice during oral infection by Toxoplasma gondii
Cited by: 8
Author(s): Aurélie Detavernier, Abdulkader Azouz, Hussein Shehade, Marion Splittgerber, Laurye Van Maele, Muriel Nguyen, Séverine Thomas, Younès Achouri, David Švec, Emilie Calonne, François Fuks, Guillaume Oldenhove, Stanislas Goriely
Software Mentions: 3
Published: over 6 years ago

10.7554/eLife.32697

A switch in transcription and cell fate governs the onset of an epigenetically-deregulated tumor in Drosophila
Cited by: 13
Author(s): Joana Torres, Remo Monti, Ariane L. Moore, Makiko Seimiya, Yanrui Jiang, Niko Beerenwinkel, Christian Beisel, Jorge V. Beira, Renato Paro
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0112943

Performance of Forest Bryophytes with Different Geographical Distributions Transplanted across a Topographically Heterogeneous Landscape
Cited by: 11
Author(s): C. Johan Dahlberg, Johan Ehrlén, Kristoffer Hylander
Software Mentions: 3
Published: almost 12 years ago

10.1371/journal.pone.0135284

Integrative Analysis of MicroRNA and mRNA Data Reveals an Orchestrated Function of MicroRNAs in Skeletal Myocyte Differentiation in Response to TNF-α or IGF1
Cited by: 20
Author(s): Swanhild U. Meyer, Steffen Sass, Nikola S. Mueller, Stefan Krebs, Stefan Bauersachs, Sebastian Kaiser, Helmut Blum, Christian Thirion, Sabine Krause, Fabian J. Theis, Michael W. Pfaffl
Software Mentions: 3
Published: about 11 years ago

10.1186/s12864-021-07959-7

Dual RNA-seq transcriptome analysis of caecal tissue during primary Eimeria tenella infection in chickens
Cited by: 7
Author(s): Arnar K. S. Sandholt, Eva Wattrang, Tobias Lilja, Harri Ahola, Anna Lundén, Karin Troell, Staffan G. Svärd, Robert Söderlund
Software Mentions: 3
Published: almost 5 years ago

10.3390/ijms22052630

Population-Predicted MHC Class II Epitope Presentation of SARS-CoV-2 Structural Proteins Correlates to the Case Fatality Rates of COVID-19 in Different Countries
Cited by: 8
Author(s): Chunguang Liang, Elena Bencúrová, Eric Psota, Priya Neurgaonkar, Martina Prelog, Carsten Scheller, Thomas Dandekar
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0243250

Medical students in distress: The impact of gender, race, debt, and disability
Cited by: 27
Author(s): Nikhil Rajapuram, Simone Langness, Megan Marshall, Amanda Sammann
Software Mentions: 3
Published: over 5 years ago

10.7554/eLife.58130

Specialization of the chromatin remodeler RSC to mobilize partially-unwrapped nucleosomes
Cited by: 15
Author(s): Alisha Schlichter, Margaret M. Kasten, Timothy J. Parnell, Bradley R. Cairns
Software Mentions: 3
Published: about 6 years ago

10.3390/biology10040266

PER2 Circadian Oscillation Sensitizes Esophageal Cancer Cells to Chemotherapy
Cited by: 6
Author(s): Juan Alfonso Redondo, Romain Bibes, Alizée Vercauteren Drubbel, Benjamin Dassy, Xavier Bisteau, Eléonore Maury, Benjamin Beck
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0229509

Comparing spatial regression to random forests for large environmental data sets
Cited by: 31
Author(s): Eric W. Fox, Jay M. Ver Hoef, A.R. Olsen
Software Mentions: 3
Published: over 6 years ago

10.18632/aging.203425

ADAM15 correlates with prognosis, immune infiltration and apoptosis in hepatocellular carcinoma
Cited by: 9
Author(s): Jun Xu, Yong Guan, Yi Chao Zhang, Zhendong Qiu, Yu Zhou, Chen Chen, Jie-Ping Yu, Weixing Wang
Software Mentions: 3
Published: almost 5 years ago

10.1038/srep28995

Characterization and target genes of nine human PRD-like homeobox domain genes expressed exclusively in early embryos
Cited by: 30
Author(s): Elo Madissoon, Eeva-Mari Jouhilahti, Liselotte Vesterlund, Virpi Töhönen, Kaarel Krjutškov, Sophie Petropoulos, Elisabet Einarsdottir, Sten Linnarsson, Fredrik Lanner, Robert Månsson, Outi Hovatta, Thomas R. Bürglin, Shintaro Katayama, Juha Kere
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pone.0202615

Tracking a serial killer: Integrating phylogenetic relationships, epidemiology, and geography for two invasive meningococcal disease outbreaks
Cited by: 8
Author(s): Ifeoma Ezeoke, Madeline R. Galac, Ying Lin, Alvin T. Liem, Pierce A. Roth, Andy Kilianski, Henry S. Gibbons, Danielle Bloch, John Kornblum, Paula Del Rosso, Daniel Janies, Don Weiss
Software Mentions: 3
Published: over 7 years ago

10.1186/s13073-016-0310-3

Reconstruction of gene regulatory networks reveals chromatin remodelers and key transcription factors in tumorigenesis
Cited by: 18
Author(s): Valeriya Malysheva, Marco Antonio Mendoza-Parra, Mohamed-Ashick M. Saleem, Hinrich Gronemeyer
Software Mentions: 3
Published: about 10 years ago

10.1155/2020/2018214

Construction and Comprehensive Analysis of Dysregulated Long Noncoding RNA-Associated Competing Endogenous RNA Network in Moyamoya Disease
Cited by: 2
Author(s): Xuefeng Gu, Da-Quan Jiang, Yanwen Yang, Peng Zhang, Guoqing Wan, Wangxian Gu, Junfeng Shi, Liying Jiang, Bing Chen, Yanjun Zheng, Dingsheng Liu, Shu Guo, Changlian Lu
Software Mentions: 3
Published: about 6 years ago

10.7554/eLife.10809

An aspartyl protease defines a novel pathway for export of Toxoplasma proteins into the host cell
Cited by: 93
Author(s): Michael Coffey, Brad E. Sleebs, Alessandro D. Uboldi, Alexandra L. Garnham, Magdalena Franco, Nicole D. Marino, Michael W. Panas, David J. P. Ferguson, Marta Enciso, Matthew T O'Neill, Sash Lopaticki, Rebecca J. Stewart, Grant Dewson, Gordon K. Smyth, Brian J. Smith, Seth L. Masters, John C. Boothroyd, Justin A Boddey, Christopher J. Tonkin
Software Mentions: 3
Published: over 10 years ago

10.1186/s13073-015-0227-2

Dynamic tracking of functional gene modules in treated juvenile idiopathic arthritis
Cited by: 12
Author(s): Nan Du, Kaiyu Jiang, Ashley Sawle, Mark Barton Frank, Carol A. Wallace, Aidong Zhang, James N. Jarvis
Software Mentions: 3
Published: almost 11 years ago

10.1186/s40649-021-00098-9

A model for the co-evolution of dynamic social networks and infectious disease dynamics
Cited by: 8
Author(s): Hendrik Nunner, Vincent Buskens, Mirjam Kretzschmar
Software Mentions: 3
Published: almost 5 years ago

10.3390/ijms22031484

Novel Transcript Discovery Expands the Repertoire of Pathologically-Associated, Long Non-Coding RNAs in Vascular Smooth Muscle Cells
Cited by: 5
Author(s): Matthew Bennett, Igor Ulitsky, Iraide Alloza, Koen Vandenbroeck, Vladislav Miscianinov, Amira D. Mahmoud, Margaret D. Ballantyne, Julie Rodor, Andrew H. Baker
Software Mentions: 3
Published: over 5 years ago

10.7554/eLife.43821

HDAC3 restrains CD8-lineage genes to maintain a bi-potential state in CD4+CD8+ thymocytes for CD4-lineage commitment
Cited by: 23
Author(s): Rachael Laura Philips, Jeong Heon Lee, Krutika S. Gaonkar, Pritha Chanana, Ji Young Chung, Sinibaldo Romero Arocha, Aaron Schwab, Tamás Ördög, Virginia Smith Shapiro
Software Mentions: 3
Published: over 7 years ago

10.7554/eLife.63731

CEP78 functions downstream of CEP350 to control biogenesis of primary cilia by negatively regulating CP110 levels
Cited by: 24
Author(s): André Gonçalves, Sarah Kirstine Hasselbalch, Beinta Biskopstø Joensen, Sebastian Patzke, Pernille Martens, Signe Krogh Ohlsen, Mathieu Quinodoz, Konstantinos Nikopoulos, Reem Suleiman, Magnus Per Damsø Jeppesen, Catja Weiss, Søren Tvorup Christensen, Carlo Rivolta, Jens S. Andersen, Pietro Farinelli, Lotte B. Pedersen
Software Mentions: 3
Published: about 5 years ago

10.18632/aging.101541

Comprehensive analysis of circRNA expression pattern and circRNA-miRNA-mRNA network in the pathogenesis of atherosclerosis in rabbits
Cited by: 129
Author(s): Feng Zhang, Ruyou Zhang, Xiaoyu Zhang, Yingnan Wu, Xiaoying Li, Shuang Zhang, Wen-ying Hou, Yu Ding, Jiawei Tian, Lei Sun, Xiangdong Kong
Software Mentions: 3
Published: almost 8 years ago

10.1002/wsbm.1467

Functional genomic approaches to elucidate the role of enhancers during development
Cited by: 13
Author(s): Genevieve E. Ryan, Emma K. Farley
Software Mentions: 3
Published: over 6 years ago

10.1186/1471-2164-13-484

Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing
Cited by: 180
Author(s): José A Robles, Sumaira Qureshi, Stuart Stephen, Susan R. Wilson, Conrad J. Burden, Jennifer Taylor
Software Mentions: 3
Published: almost 14 years ago

10.1186/s13195-020-00657-8

Association of glial and neuronal degeneration markers with Alzheimer’s disease cerebrospinal fluid profile and cognitive functions
Cited by: 17
Author(s): Unnur D. Teitsdottir, Marıá K. Jónsdóttir, Sigrún H. Lund, Taher Darreh‐Shori, Jón Snædal, Petur H. Petersen
Software Mentions: 3
Published: about 6 years ago

10.1186/gm130

Integration of microRNA changes in vivo identifies novel molecular features of muscle insulin resistance in type 2 diabetes
Cited by: 228
Author(s): Iain J. Gallagher, Camilla Schéele, Pernille Keller, Annemette Nielsen, Judit Reményi, Christian P. Fischer, Karim Roder, John Babraj, Claes Wahlestedt, György Hutvágner, Bente Klarlund Pedersen, James A. Timmons
Software Mentions: 3
Published: over 16 years ago

10.1186/s13637-015-0034-5

Gene expression analysis supports tumor threshold over 2.0 cm for T-category breast cancer
Cited by: 2
Author(s): Hiroko Kato Solvang, Arnoldo Frigessi, Fatemeh Kaveh, Margit Riis, Torben Lüders, Ida Rashida Khan Bukholm, Vessela N. Kristensen, Bettina Kulle Andreassen
Software Mentions: 3
Published: over 10 years ago

10.1093/ve/veaa071

Large-scale survey reveals pervasiveness and potential function of endogenous geminiviral sequences in plants
Cited by: 15
Author(s): Vikas Sharma, Pierre Lefeuvre, Philippe Roumagnac, Denis Filloux, Pierre‐Yves Teycheney, Darren P. Martin, Florian Maumus
Software Mentions: 3
Published: about 6 years ago

10.18632/aging.103683

Profiling of circular RNAs in age-related cataract reveals circZNF292 as an antioxidant by sponging miR-23b-3p
Cited by: 27
Author(s): Shijie Liang, Shengqian Dou, Wenfeng Li, Yusen Huang
Software Mentions: 3
Published: almost 6 years ago

10.1186/s13054-019-2489-3

Prevalence of post-traumatic stress disorder symptoms in adult critical care survivors: a systematic review and meta-analysis
Cited by: 134
Author(s): Cássia Righy, Régis Goulart Rosa, Rodrigo Teixeira Amancio da Silva, Renata Kochhann, Celina Borges Migliavaca, Caroline Cabral Robinson, Stefania Pigatto Teche, Cassiano Teixeira, Fernando A. Bozza, Maicon Falavigna
Software Mentions: 3
Published: about 7 years ago

10.18632/aging.203102

Alterations in the RTK/Ras/PI3K/AKT pathway serve as potential biomarkers for immunotherapy outcome of diffuse gliomas
Cited by: 11
Author(s): Song Han, Pengfei Wang, Hong‐Qing Cai, Jinghai Wan, Shouwei Li, Ze-Huan Lin, Chunmei Yu, Yan Chen
Software Mentions: 3
Published: about 5 years ago

10.18632/aging.202989

Integrated analysis of long noncoding RNAs and mRNA expression profiles reveals the potential role of lncRNAs in early stage of post-peripheral nerve injury in Sprague-Dawley rats
Cited by: 3
Author(s): Yujing Zhang, Zhaowei Zhu, Xiangxia Liu, Shuqia Xu, Yi Zhang, Yangbin Xu, Bo He
Software Mentions: 3
Published: over 5 years ago

10.1093/ve/veab005

Virome composition in marine fish revealed by meta-transcriptomics
Cited by: 48
Author(s): Jemma L. Geoghegan, Francesca Di Giallonardo, Michelle Wille, Ayda Susana Ortiz-Báez, Vincenzo A Costa, Timothy M. Ghaly, Jonathon C O Mifsud, Olivia M. H. Turnbull, David R. Bellwood, Jane E. Williamson, Edward C. Holmes
Software Mentions: 3
Published: over 5 years ago

10.1186/s13072-020-00338-8

The conserved DNMT1-dependent methylation regions in human cells are vulnerable to neurotoxicant rotenone exposure
Cited by: 6
Author(s): Dana M. Freeman, Dan Lou, Yanqiang Li, Suzanne N. Martos, Zhibin Wang
Software Mentions: 3
Published: over 6 years ago

10.7759/cureus.16310

Functional Larynx Preservation in Patients With Locally Advanced Squamous Cell Carcinoma of the Larynx and Hypopharynx Treated With Induction Chemotherapy vs. Concurrent Chemoradiation Alone
Cited by: 1
Author(s): Anthony D. Nehlsen, Eric J. Lehrer, Daniel R. Dickstein, Marshall R. Posner, Krzysztof Misiukiewicz, Jerry Liu, Vishal Gupta, Richard L. Bakst, Sonam Sharma
Software Mentions: 3
Published: about 5 years ago

10.3390/ijms22052282

The RNAi Mechanism Regulates a New Exonuclease Gene Involved in the Virulence of Mucorales
Cited by: 8
Author(s): Carlos Pèrez-Arques, María Isabel Navarro-Mendoza, Laura Murcia, Eusebio Navarro, Victoriano Garre
Software Mentions: 3
Published: over 5 years ago

10.1016/j.cub.2021.03.056

Stable high-density and maternally inherited Wolbachia infections in Anopheles moucheti and Anopheles demeilloni mosquitoes
Cited by: 40
Author(s): Thomas Walker, Shannon Quek, Claire L. Jeffries, Janvier Bandibabone, Vishaal Dhokiya, Roland Bamou, Mojca Kristan, Louisa A. Messenger, Alexandra Gidley, Emily A. Hornett, Enyia R Anderson, Cintia Cansado-Utrilla, Shivanand Hegde, Bantuzeko Chimanuka, Jennifer Stevenson, Neil F. Lobo, Simon C. Wagstaff, Christophe Antonio-Nkondjio, Seth R. Irish, Eva Heinz, Grant L. Hughes
Software Mentions: 3
Published: about 5 years ago

10.1186/s12864-019-5984-7

An insight into the sialome, mialome and virome of the horn fly, Haematobia irritans
Cited by: 14
Author(s): José M. C. Ribeiro, Humberto Julio Debat, Mariana Boiani, X. Ures, Sérgio Paulo Dejato da Rocha, Martı́n Breijo
Software Mentions: 3
Published: about 7 years ago

10.18632/aging.102931

Using ESTIMATE algorithm to establish an 8-mRNA signature prognosis prediction system and identify immunocyte infiltration-related genes in Pancreatic adenocarcinoma
Cited by: 51
Author(s): Zhaoqing Meng, Dianyun Ren, Kun Zhang, Jingyuan Zhao, Xin Jin, Heshui Wu
Software Mentions: 3
Published: over 6 years ago

10.3389/fonc.2020.556018

Integrative Analysis of DNA Methylation Identified 12 Signature Genes Specific to Metastatic ccRCC
Cited by: 8
Author(s): Siwei Qian, Si Sun, Lei Zhang, Shengwei Tian, Kai Xu, Guangyuan Zhang, Ming Chen
Software Mentions: 3
Published: almost 6 years ago

10.18632/aging.104088

An eleven metabolic gene signature-based prognostic model for clear cell renal cell carcinoma
Cited by: 11
Author(s): Yue Wu, Wa Xian, Huan Feng, Bintao Hu, Bo Liu, Yang Luan, Yajun Ruan, Xiaohui Liu, Zhuo Liu, Shaogang Wang, Jihong Liu, Tao Wang
Software Mentions: 3
Published: over 5 years ago

10.18632/aging.202838

The effectiveness of continuous renal replacement therapy in critical COVID-19 patients with cytokine release syndrome: a retrospective, multicenter, descriptive study from Wuhan, China
Cited by: 5
Author(s): Huiling Xiang, Bin Song, Yuanyuan Zhang, Jianduan Zhang, Jing Xiong
Software Mentions: 3
Published: over 5 years ago

10.18632/aging.101187

Methylome-wide association study of whole blood DNA in the Norfolk Island isolate identifies robust loci associated with age
Cited by: 26
Author(s): Miles C. Benton, Heidi G. Sutherland, Donia Macartney-Coxson, Larisa M. Haupt, Rodney Arthur Lea, Lyn R. Griffiths
Software Mentions: 3
Published: over 9 years ago

10.3390/cancers10110397

DNA Methylation Predicts the Response of Triple-Negative Breast Cancers to All-Trans Retinoic Acid
Cited by: 19
Author(s): Krysta M. Coyle, Cheryl A. Dean, Margaret Lois Thomas, Dejan Vidovic, Carman A. Giacomantonio, Lucy Helyer, Paola Marcato
Software Mentions: 3
Published: almost 8 years ago

10.1111/acel.13420

Circulating microRNA profile in humans and mice with congenital GH deficiency
Cited by: 6
Author(s): Tatiana D. Saccon, Augusto Schneider, Cindi G. Marinho, Allancer D C Nunes, Sarah Noureddine, Joseph M. Dhahbi, Yury O. Nunez Lopez, Gage LeMunyan, Roberto Salvatori, Carla R. P. Oliveira, Alécia A Oliveira-Santos, Nicolas Musi, Andrzej Bartke, Manuel H. Aguiar‐Oliveira, Michał M. Masternak
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1004068

Prioritizing Therapeutics for Lung Cancer: An Integrative Meta-analysis of Cancer Gene Signatures and Chemogenomic Data
Cited by: 34
Author(s): Kristen Fortney, Joshua Griesman, Max Kotlyar, Chiara Pastrello, Marc Angeli, Ming‐Sound Tsao, Igor Jurišica
Software Mentions: 3
Published: over 11 years ago

10.1093/gbe/evu272

Evolutionary Dynamics of GLD-1–mRNA Complexes in Caenorhabditis Nematodes
Cited by: 7
Author(s): Alana V. Beadell, Eric S. Haag
Software Mentions: 3
Published: over 11 years ago

10.1002/mbo3.694

Selective chemoattraction of the benthic diatom <i>Seminavis robusta</i> to phosphate but not to inorganic nitrogen sources contributes to biofilm structuring
Cited by: 11
Author(s): Karen Grace V. Bondoc, Christine Lembke, Wim Vyverman, Georg Pohnert
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0129711

The Discovery of Novel Biomarkers Improves Breast Cancer Intrinsic Subtype Prediction and Reconciles the Labels in the METABRIC Data Set
Cited by: 28
Author(s): Heloisa Helena Milioli, Renato Vimieiro, Carlos Riveros, Inna Tishchenko, Regina Berretta, Pablo Moscato
Software Mentions: 3
Published: about 11 years ago

10.18632/aging.102544

Prognostic implications of autophagy-associated gene signatures in non-small cell lung cancer
Cited by: 106
Author(s): Yang Liu, Ligao Wu, Haijiao Ao, Meng Zhao, Xue Leng, Mingdong Liu, Jianqun Ma, Jinhong Zhu
Software Mentions: 3
Published: over 6 years ago

10.1186/s12916-015-0416-2

Constitutive phosphorylated STAT3-associated gene signature is predictive for trastuzumab resistance in primary HER2-positive breast cancer
Cited by: 44
Author(s): Amir Sonnenblick, Sylvain Brohée, Debora Fumagalli, Delphine Vincent, David Venet, Michail Ignatiadis, Roberto Salgado, Gert Van den Eynden, Françoise Rothé, Christine Desmedt, Patrick Neven, Sibylle Loibl, Carsten Denkert, Heikki Joensuu, Sherene Loi, Nicolas Sirtaine, Pirkko–Liisa Kellokumpu-Lehtinen, Martine Piccart, Christos Sotiriou
Software Mentions: 3
Published: about 11 years ago

10.1111/acel.12795

Differential aging-related changes in neurophysiology and gene expression in IB4-positive and IB4-negative nociceptive neurons
Cited by: 5
Author(s): Malgorzata A. Mis, Mark F. Rogers, Aaron R. Jeffries, Anna Wilbrey, Lubin Chen, Yang Yang, Sulayman D. Dib‐Hajj, Stephen G. Waxman, Edward B. Stevens, Andrew D. Randall
Software Mentions: 3
Published: about 8 years ago

10.1186/s12885-019-6363-0

The impact of RNA extraction method on accurate RNA sequencing from formalin-fixed paraffin-embedded tissues
Cited by: 26
Author(s): Michał Marczyk, Chunxiao Fu, Rosanna Lau, Lili Du, Alexander J. Trevarton, Bruno Valentin Sinn, Rebekah E. Gould, Lajos Pusztai, Christos Hatzis, W. Fraser Symmans
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-015-1254-5

Global transcriptomic profiling demonstrates induction of oxidative stress and of compensatory cellular stress responses in brown trout exposed to glyphosate and Roundup
Cited by: 85
Author(s): Tamsyn M. Uren Webster, Eduarda M. Santos
Software Mentions: 3
Published: over 11 years ago

10.1002/2211-5463.13046

Development of an activity assay for characterizing deoxyhypusine synthase and its diverse reaction products
Cited by: 4
Author(s): Elisabeth Kaltenegger, Arunraj Saranya Prakashrao, Serhat Sezai Çiçek, Dietrich Ober
Software Mentions: 3
Published: over 5 years ago

10.1186/1471-2105-11-378

Graph-based clustering and characterization of repetitive sequences in next-generation sequencing data
Cited by: 366
Author(s): Petr Novák, Pavel Neumann, Jiří Macas
Software Mentions: 3
Published: about 16 years ago

10.1371/journal.pone.0106052

Dimensionality of Social Networks Using Motifs and Eigenvalues
Cited by: 30
Author(s): Anthony Bonato, David F. Gleich, Myung‐Hwan Kim, Dieter Mitsche, Paweł Prałat, Yanhua Tian, Stephen J. Young
Software Mentions: 3
Published: almost 12 years ago