cran: tsne | Projects | Ecosyste.ms: Papers

10.3389/fgene.2021.667936

Bioinformatic Analysis of Temporal and Spatial Proteome Alternations During Infections
Cited by: 9
Author(s): Matineh Rahmatbakhsh, Alla Gagarinova, Mohan Babu
Software Mentions: 21
Published: over 3 years ago

10.1186/s12920-019-0578-4

Deconvolution of transcriptomes and miRNomes by independent component analysis provides insights into biological processes and clinical outcomes of melanoma patients
Cited by: 21
Author(s): Petr V. Nazarov, Anke Wienecke-Baldacchino, Andreï Zinovyev, Urszula Czerwińska, Arnaud Muller, Dorothée Nashan, Gunnar Dittmar, Francisco Azuaje, Stephanie Kreis
Software Mentions: 14
Published: about 5 years ago

10.1038/s42003-019-0554-8

Single-cell landscape in mammary epithelium reveals bipotent-like cells associated with breast cancer risk and outcome
Cited by: 37
Author(s): Weiyan Chen, Samuel Morabito, Kai Kessenbrock, Tariq Enver, Kerstin B. Meyer, Andrew E. Teschendorff
Software Mentions: 14
Published: over 5 years ago

10.4049/immunohorizons.1900097

Mass Cytometry Defines Virus-Specific CD4+ T Cells in Influenza Vaccination
Cited by: 3
Author(s): Priyanka B. Subrahmanyam, Tyson H. Holmes, Derek Lin, Laura F. Su, Gerlinde Obermoser, Jacques Banchereau, Virginia Pascual, Adolfo Garcı́a-Sastre, Randy A. Albrecht, Karolina Palucka, Mark M. Davis, Holden T. Maecker
Software Mentions: 13
Published: almost 4 years ago

10.1111/jcmm.15939

Prognostic value and immune cell infiltration of hypoxic phenotype‐related gene signatures in glioblastoma microenvironment
Cited by: 10
Author(s): Kai Xiao, Jun Tan, Jian Yuan, Gang Peng, Wenyong Long, Jun Su, Yao Xiao, Qian Xiao, Changwu Wu, Chaoying Qin, Lili Hu, Kaili Liu, Shunlian Liu, Hao Zhou, Yichong Ning, Xiaojuan Ding, Qing Liu
Software Mentions: 11
Published: about 4 years ago

10.3389/fimmu.2018.02191

Single Cell RNA Sequencing Identifies HSPG2 and APLNR as Markers of Endothelial Cell Injury in Systemic Sclerosis Skin
Cited by: 48
Author(s): Sokratis A. Apostolidis, Giuseppina Stifano, Tracy Tabib, Lisa Rice, Christina Morse, Bashar Kahaleh, Robert Lafyatis
Software Mentions: 11
Published: about 6 years ago

10.1371/journal.pone.0158259

Extensive Transcriptomic and Genomic Analysis Provides New Insights about Luminal Breast Cancers
Cited by: 15
Author(s): Inna Tishchenko, Heloisa Helena Milioli, Carlos Riveros, Pablo Moscato
Software Mentions: 9
Published: over 8 years ago

10.1371/journal.pcbi.1006076

Cox-nnet: An artificial neural network method for prognosis prediction of high-throughput omics data
Cited by: 211
Author(s): Travers Ching, Xun Zhu, Lana X. Garmire
Software Mentions: 8
Published: over 6 years ago

10.1038/s41598-021-96160-7

Wolves, dogs and humans in regular contact can mutually impact each other’s skin microbiota
Cited by: 6
Author(s): Stefanie U. Wetzels, Cameron Strachan, Beate Conrady, Martin Wagner, Iwan Burgener, Zsófia Virányi, Evelyne Selberherr
Software Mentions: 8
Published: about 3 years ago

10.1093/g3journal/jkaa036

Visualizing population structure with variational autoencoders
Cited by: 44
Author(s): C. J. Battey, Gabrielle C. Coffing, Andrew D. Kern
Software Mentions: 7
Published: almost 4 years ago

10.1186/s13073-019-0657-3

A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases
Cited by: 67
Author(s): Danuta R. Gawel, Jordi Serra-Musach, Sandra Lilja, Jesper Aagesen, Àlex Arenas, B. Asking, Malin Bengnér, Janne Björkander, Sophie Biggs, Jan Ernerudh, Henrik Hjortswang, Jan‐Erik Karlsson, Mattias Köpsén, Eun Jung Lee, Antonio Lentini, Xinxiu Li, Mattias Magnusson, David Martínez-Enguita, Andreas Matussek, Colm E. Nestor, Samuel Schäfer, Oliver Seifert, Ceylan Sonmez, Henrik Stjernman, Andreas Tjärnberg, Simon Wu, Karin Åkesson, Alexander K Shalek, Margaretha Stenmarker, Huan Zhang, Mika Gustafsson, Mikael Benson
Software Mentions: 7
Published: over 5 years ago

10.1038/s41598-019-46761-0

Lower Attentional Skills predict increased exploratory foraging patterns
Cited by: 16
Author(s): Charlotte Van den Driessche, Françoise Chevrier, Axel Cleeremans, Jérôme Sackur
Software Mentions: 7
Published: over 5 years ago

10.3390/ijms21010079

Current Projection Methods-Induced Biases at Subgroup Detection for Machine-Learning Based Data-Analysis of Biomedical Data
Cited by: 10
Author(s): Jörn Lötsch, Alfred Ultsch
Software Mentions: 6
Published: almost 5 years ago

10.1186/s12920-021-01036-4

Multi-factor regulatory network and different clusters in hypertrophic obstructive cardiomyopathy
Cited by: 3
Author(s): Xianyu Qin, Lei Huang, Sicheng Chen, Shaoxian Chen, Pengju Wen, Yueheng Wu, Jian Zhuang
Software Mentions: 6
Published: over 3 years ago

10.7717/peerj.9478

Cellular heterogeneity map of diverse immune and stromal phenotypes within breast tumor microenvironment
Cited by: 5
Author(s): Yuan Li, Zuhua Chen, Long Wu, Junjie Ye, Wenjing Tao
Software Mentions: 6
Published: over 4 years ago

10.1186/s13148-018-0463-6

Epigenetic regulation of placental gene expression in transcriptional subtypes of preeclampsia
Cited by: 60
Author(s): Katherine Leavey, Samantha L. Wilson, Shannon Bainbridge, Wendy P. Robinson, Brian Cox
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pbio.3000799

5-Formylcytosine landscapes of human preimplantation embryos at single-cell resolution
Cited by: 5
Author(s): Yun Gao, Lin Li, Peng Yuan, Fan Zhai, Yixuan Ren, Liying Yan, Rong Li, Ying Lian, Xiaohui Zhu, Xinglong Wu, Kehkooi Kee, Lu Wen, Jie Qiao, Fuchou Tang
Software Mentions: 5
Published: over 4 years ago

10.1002/jev2.12047

Single‐vesicle imaging and co‐localization analysis for tetraspanin profiling of individual extracellular vesicles
Cited by: 38
Author(s): Chul‐Hi Han, Hyejin Kang, Johan Yi, Minsu Kang, Hyunjin Lee, Yongmin Kwon, Jae-Hun Jung, Jingeol Lee, Jaesung Park
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pcbi.1005335

Representing high throughput expression profiles via perturbation barcodes reveals compound targets
Cited by: 22
Author(s): Tracey Filzen, Peter S. Kutchukian, Jeffrey D. Hermes, Jing Li, Matthew Tudor
Software Mentions: 3
Published: almost 8 years ago

10.1186/s13059-019-1892-z

Whole genome DNA sequencing provides an atlas of somatic mutagenesis in healthy human cells and identifies a tumor-prone cell type
Cited by: 39
Author(s): Irene Franco, Hafdís T. Helgadottir, Aldo Moggio, Malin Larsson, Peter Vrtačnik, Ada Johansson, Nina Norgren, Per Lundin, David Mas-Ponte, Jan Nordström, Torbjörn Lundgren, Peter Stenvinkel, Lars Wennberg, Fran Supek, Maria Eriksson
Software Mentions: 3
Published: almost 5 years ago

10.3389/fmolb.2021.710623

Inter-Subunit Dynamics Controls Tunnel Formation During the Oxygenation Process in Hemocyanin Hexamers
Cited by: 3
Author(s): Khair Bux, Xiayu Shen, Muhammad Tariq, Junqi Yin, Syed Tarique Moin, Debsindhu Bhowmik, Shozeb Haider
Software Mentions: 3
Published: about 3 years ago

10.1186/s40478-019-0689-3

Genomic analysis demonstrates that histologically-defined astroblastomas are molecularly heterogeneous and that tumors with MN1 rearrangement exhibit the most favorable prognosis
Cited by: 50
Author(s): Norman L. Lehman, Aisulu Usubalieva, Tong Lin, Sariah J. Allen, Quynh Tran, Bret Mobley, Roger E. McLendon, Matthew Schniederjan, Maria Magdalena Georgescu, Marta Couce, Mohanpal S. Dulai, Jack M. Raisanen, Mousa Al Abbadi, Cheryl A. Palmer, Eyas M. Hattab, Brent A. Orr
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-018-4512-5

High fidelity hypothermic preservation of primary tissues in organ transplant preservative for single cell transcriptome analysis
Cited by: 17
Author(s): Wanxin Wang, Lolita Penland, Özgün Gökçe, Derek Croote, Stephen R. Quake
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41396-020-0665-8

Combining whole-genome shotgun sequencing and rRNA gene amplicon analyses to improve detection of microbe–microbe interaction networks in plant leaves
Cited by: 47
Author(s): Julián Regalado, Derek S. Lundberg, Oliver Deusch, Sonja Kersten, Talia L. Karasov, Karin Poersch, Gautam Shirsekar, Detlef Weigel
Software Mentions: 2
Published: over 4 years ago

10.3389/fbioe.2015.00035

Learning to Classify Organic and Conventional Wheat â€“ A Machine Learning Driven Approach Using the MeltDB 2.0 Metabolomics Analysis Platform
Cited by: 21
Author(s): Nikolas Kessler, Anja Bonte, Stefan P. Albaum, Paul Mäder, Monika Messmer, Alexander Goesmann, Karsten Niehaus, Georg Langenkämper, Tim Wilhelm Nattkemper
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-020-57903-0

Adaptive Landscape Shaped by Core Endogenous Network Coordinates Complex Early Progenitor Fate Commitments in Embryonic Pancreas
Cited by: 7
Author(s): Junqiang Wang, Ruoshi Yuan, Xiaomei Zhu, Ping Ao
Software Mentions: 2
Published: almost 5 years ago

Ecosyste.ms: Papers

Projects: cran: tsne

Papers Mentioning tsne 26