Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: bioconductor: EnhancedVolcano
https://packages.ecosyste.ms/registries/bioconductor.org/packages/EnhancedVolcano
Publication-ready volcano plots with enhanced colouring and labeling
2 versions
Latest release: about 1 year ago
223,987 downloads total
Papers Mentioning EnhancedVolcano 123
10.1038/s41598-020-71823-z
Transcriptomic analysis reveals dynamic molecular changes in skin induced by mechanical forces secondary to tissue expansionCited by: 9
Author(s): Joanna K. Ledwon, Lauren Kelsey, Elbert E. Vaca, Arun K. Gosain
Software Mentions: 2
Published: about 4 years ago
10.1128/mSystems.00358-20
A Family of Viral Satellites Manipulates Invading Virus Gene Expression and Can Affect Cholera Toxin MobilizationCited by: 21
Author(s): Zachary K Barth, Zoe Netter, Angus Angermeyer, Pooja Bhardwaj, Kimberley D. Seed
Software Mentions: 2
Published: about 4 years ago
10.1016/j.ymthe.2020.05.023
TGF-β1-Licensed Murine MSCs Show Superior Therapeutic Efficacy in Modulating Corneal Allograft Immune Rejection In VivoCited by: 28
Author(s): Kevin Lynch, Oliver Treacy, Xizhe Chen, Nick Murphy, Paul Lohan, Nahidul Islam, Ellen Donohoe, Matthew D. Griffin, Luke Watson, Steven McLoughlin, Grace O’Malley, Aideen E. Ryan, Thomas Ritter
Software Mentions: 2
Published: about 4 years ago
10.1038/s41375-021-01224-2
Downregulation of MTSS1 in acute myeloid leukemia is associated with a poor prognosis, chemotherapy resistance, and disease aggressivenessCited by: 7
Author(s): Alexander M. Grandits, Chi Huu Nguyen, Angela Schlerka, Hubert Hackl, Heinz Sill, Julia Etzler, Elizabeth Heyes, Dagmar Stoiber, Florian Grebien, Gerwin Heller, Rotraud Wieser
Software Mentions: 2
Published: over 3 years ago
10.1111/1462-2920.15532
<i>Propionibacterium freudenreichii</i> thrives in microaerobic conditions by complete oxidation of lactate to <scp>CO<sub>2</sub></scp>Cited by: 8
Author(s): Alexander Dank, Oscar van Mastrigt, Sjef Boeren, Søren K. Lillevang, Tjakko Abee, Eddy J. Smid
Software Mentions: 2
Published: over 3 years ago
10.3390/brainsci11020203
Ouabain-Induced Gene Expression Changes in Human iPSC-Derived Neuron Culture Expressing Dopamine and cAMP-Regulated Phosphoprotein 32 and GABA ReceptorsCited by: 2
Author(s): А. В. Лопачев, Maria A. Lagarkova, Olga Lebedeva, Margarita A. Ezhova, Rogneda B. Kazanskaya, Y. A. Timoshina, Anastasiya V. Khutorova, Evgeny E. Akkuratov, Т. Н. Федорова, Raul R. Gainetdinov
Software Mentions: 2
Published: almost 4 years ago
10.1038/s41598-021-86888-7
Prognostic and therapeutic implications of extracellular matrix associated gene signature in renal clear cell carcinomaCited by: 14
Author(s): Pankaj Ahluwalia, Meenakshi Ahluwalia, Ashis Mondal, Nikhil Sahajpal, Vamsi Kota, Mumtaz V. Rojiani, Amyn M. Rojiani, Ravindra Kolhe
Software Mentions: 2
Published: over 3 years ago
10.3389/fimmu.2020.607891
MAPKAP Kinase-2 Drives Expression of Angiogenic Factors by Tumor-Associated Macrophages in a Model of Inflammation-Induced Colon CancerCited by: 12
Author(s): Lucia Suárez‐López, Yi Wen Kong, Ganapathy Sriram, Jesse C. Patterson, Samantha G. Rosenberg, Sandra Morandell, Kevin M. Haigis, Michael B. Yaffe
Software Mentions: 2
Published: over 3 years ago
10.3389/fimmu.2020.621222
Persistent Systemic Inflammation in Patients With Severe Burn Injury Is Accompanied by Influx of Immature Neutrophils and Shifts in T Cell Subsets and Cytokine ProfilesCited by: 32
Author(s): Patrick P.G. Mulder, Marcel Vlig, B.K.H.L. Boekema, Matthea M. Stoop, Anouk Pijpe, Paul P. M. van Zuijlen, Evelien de Jong, Bram van Cranenbroek, Irma Joosten, Hans J. P. M. Koenen, Magda M. W. Ulrich
Software Mentions: 2
Published: almost 4 years ago
10.1038/s41598-021-96462-w
Comparative transcriptomic analysis of SARS-CoV-2 infected cell model systems reveals differential innate immune responsesCited by: 18
Author(s): Guihua Sun, Qi Cui, Gustavo García, Cheng Wang, Mingzi Zhang, Vaithilingaraja Arumugaswami, Arthur D. Riggs, Yanhong Shi
Software Mentions: 2
Published: about 3 years ago
10.3389/fgene.2020.605378
Increased Expression of TICRR Predicts Poor Clinical Outcomes: A Potential Therapeutic Target for Papillary Renal Cell CarcinomaCited by: 8
Author(s): Shuang Xia, Ye Lin, Jiaqiong Lin, Xiaoyong Li, Xuexian Tan, Zhemin Huang
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.ppat.1009028
Vesicular trafficking permits evasion of cGAS/STING surveillance during initial human papillomavirus infectionCited by: 31
Author(s): Brittany L. Uhlorn, Robert Jackson, Shuaizhi Li, Shauna M. Bratton, Koenraad Van Doorslaer, Samuel K. Campos
Software Mentions: 2
Published: almost 4 years ago
10.3390/biom11081087
Dnmt3b Deficiency in Myf5+-Brown Fat Precursor Cells Promotes Obesity in Female MiceCited by: 7
Author(s): Shirong Wang, Qiang Cao, Xin Cui, Jing Jia, Fenfen Li, Huidong Shi, Bingzhong Xue, Hang Shi
Software Mentions: 2
Published: over 3 years ago
10.3390/cancers13010155
Immunogenomic Gene Signature of Cell-Death Associated Genes with Prognostic Implications in Lung CancerCited by: 33
Author(s): Pankaj Ahluwalia, Meenakshi Ahluwalia, Ashis Mondal, Nikhil Sahajpal, Vamsi Kota, Mumtaz V. Rojiani, Amyn M. Rojiani, Ravindra Kolhe
Software Mentions: 2
Published: almost 4 years ago
10.1038/s41598-019-55869-2
Multi-omics analysis of multiple missions to space reveal a theme of lipid dysregulation in mouse liverCited by: 43
Author(s): Afshin Beheshti, Kaushik Chakravarty, Homer Fogle, Hossein Fazelinia, Willian A. da Silveira, Valery Boyko, San-Huei Lai Polo, Amanda Saravia-Butler, Gary Hardiman, Deanne Taylor, Jonathan M. Galazka, Sylvain V. Costes
Software Mentions: 2
Published: almost 5 years ago
10.3389/fmicb.2020.592615
Manganese Depletion Leads to Multisystem Changes in the Transcriptome of the Opportunistic Pathogen Streptococcus sanguinisCited by: 12
Author(s): Tanya Puccio, Karina S Kunka, Bin Zhu, Ping Xu, Todd Kitten
Software Mentions: 2
Published: about 4 years ago
10.3390/genes11040448
A Study of Gene Expression Changes in Human Spinal and Oculomotor Neurons; Identifying Potential Links to Sporadic ALSCited by: 2
Author(s): Aayan N Patel, Dennis Mathew
Software Mentions: 1
Published: over 4 years ago
10.1172/jci.insight.140267
TLR2-mediated activation of innate responses in the upper airways confers antiviral protection of the lungsCited by: 12
Author(s): Georgia Deliyannis, Christine Wong, Hayley A McQuilten, Annabell Bachem, Michele V Clarke, Xiaoyun Jia, Kylie J. Horrocks, Weiguang Zeng, Jason Girkin, Nichollas E. Scott, Sarah L. Londrigan, Patrick C. Reading, Nathan W. Bartlett, Katherine Kedzierska, Lorena E. Brown, Francesco Mercuri, Christophe Demaison, David C. Jackson, Brendon Y. Chua
Software Mentions: 1
Published: over 3 years ago
10.3390/cancers12082303
Macrophage-Mediated Antibody Dependent Effector Function in Aggressive B-Cell Lymphoma Treatment is Enhanced by Ibrutinib via Inhibition of JAK2Cited by: 8
Author(s): Verena Barbarino, Sinika Henschke, Stuart Blakemore, Elena Izquierdo, Michael Michalik, Nadine Nickel, Indra Möllenkotte, Daniela Vorholt, Linda Müller, Reinhild Brinker, Oleg Fedorchenko, Nelly Mikhael, Tamina Seeger-Nukpezah, Michael Hallek
Software Mentions: 1
Published: over 4 years ago
10.3390/cancers13143577
Calcitriol Promotes Differentiation of Glioma Stem-Like Cells and Increases Their Susceptibility to TemozolomideCited by: 11
Author(s): Julia Gerstmeier, Anna-Lena Possmayer, Süleyman Bozkurt, Marina E. Hoffmann, Ivan Đikić, Christel Herold‐Mende, Michael C. Burger, Christian Münch, Donat Kögel, Benedikt Linder
Software Mentions: 1
Published: over 3 years ago
10.1038/s41598-020-79874-y
Metagenomic analysis of formalin-fixed paraffin-embedded tumor and normal mucosa reveals differences in the microbiome of colorectal cancer patientsCited by: 21
Author(s): Gabriela Debesa-Tur, Vicente Pérez‐Brocal, Susana Ruiz-Ruiz, Adela Castillejo, Amparo Latorre, José Luis Viruez Soto, Andrés Moya
Software Mentions: 1
Published: almost 4 years ago
10.3389/fmicb.2021.679827
Bacterial Microcompartment-Dependent 1,2-Propanediol Utilization of Propionibacterium freudenreichiiCited by: 8
Author(s): Alexander Dank, Zhe Zeng, Sjef Boeren, Richard A. Notebaart, Eddy J. Smid, Tjakko Abee
Software Mentions: 1
Published: over 3 years ago
10.1038/s41598-020-59256-0
The behavioral, cellular and immune mediators of HIV-1 acquisition: New insights from population geneticsCited by: 7
Author(s): Timothy R. Powell, Rodrigo R.R. Duarte, Matthew Hotopf, Stephani L. Hatch, Miguel de Mulder Rougvie, Gerome Breen, Cathryn M. Lewis, Douglas F. Nixon
Software Mentions: 1
Published: over 4 years ago