#
|
Count
|
Resource
|
Example
|
1
|
3038
|
ImageJ
|
AFM stiffness nanotomography of normal, metaplastic and dysplastic human esophageal cells
|
2
|
1311
|
limma
|
Prenatal exposure to maternal depression and anxiety on imprinted gene expression in placenta and infant neurodevelopment and growth.
|
3
|
1038
|
Cytoscape
|
Methylation-to-Expression Feature Models of Breast Cancer Accurately Predict Overall Survival, Distant-Recurrence Free Survival, and Pathologic Complete Response in Multiple Cohorts.
|
4
|
750
|
ggplot2
|
Placental lncRNA expression associated with placental cadmium concentrations and birth weight
|
5
|
596
|
genome-wide association study
|
Genome-wide association study in alopecia areata implicates both innate and adaptive immunity
|
6
|
525
|
ArcGIS
|
High Zika Virus Seroprevalence in Salvador, Northeastern Brazil Limits the Potential for Further Outbreaks
|
7
|
463
|
DESeq2
|
Deep Transcriptomic Profiling of M1 Macrophages Lacking Trpc3.
|
8
|
448
|
Bayes' theorem
|
An EM algorithm to improve the estimation of the probability of clonal relatedness of pairs of tumors in cancer patients
|
9
|
372
|
RStudio
|
A scalable workflow to characterize the human exposome
|
10
|
334
|
scikit-learn
|
pySPACE-a signal processing and classification environment in Python
|
11
|
319
|
machine learning
|
Modeling and measurement of signaling outcomes affecting decision making in noisy intracellular networks using machine learning methods
|
12
|
318
|
edgeR
|
Genome-wide association study identifies shared risk loci common to two malignancies in golden retrievers
|
13
|
299
|
Jupyter notebook file
|
A compiler for biological networks on silicon chips
|
14
|
288
|
artificial neural network
|
Search for supersymmetry in events with opposite-sign dileptons and missing transverse energy using an artificial neural network
|
15
|
275
|
SQL
|
Visual barcodes for clonal-multiplexing of live microscopy-based assays
|
16
|
255
|
ImageQuant
|
Activin controls skin morphogenesis and wound repair predominantly via stromal cells and in a concentration-dependent manner via keratinocytes
|
17
|
182
|
Neuron
|
Computational neurobiology is a useful tool in translational neurology: the example of ataxia
|
18
|
151
|
Large Hadron Collider
|
Measurement of Higgs boson production in the diphoton decay channel in pp collisions at center-of-mass energies of 7 and 8 TeV with the ATLAS detector
|
19
|
151
|
R package
|
medflex: An R Package for Flexible Mediation Analysis using Natural Effect Models
|
20
|
148
|
deep learning
|
Discrimination of Breast Cancer with Microcalcifications on Mammography by Deep Learning
|
21
|
147
|
Reynolds number
|
Life at low Reynolds number
|
22
|
134
|
scikit-image
|
Cohesin Loss Eliminates All Loop Domains
|
23
|
133
|
Neutron Star Interior Composition Explorer
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Searches for Gravitational Waves from Known Pulsars at Two Harmonics in 2015–2017 LIGO Data
|
24
|
115
|
affy
|
AGA: Interactive pipeline for reproducible gene expression and DNA methylation data analyses.
|
25
|
113
|
WGCNA
|
Whole-transcriptome analysis delineates the human placenta gene network and its associations with fetal growth.
|
26
|
109
|
support vector machine
|
Prediction of protein solvent accessibility using support vector machines.
|
27
|
99
|
magnetic resonance imaging
|
Carotid artery hemodynamics: observing patient-specific changes with amlodipine and lisinopril by using MR imaging computation fluid dynamics
|
28
|
98
|
field experiment
|
Targeting the Poor: Evidence from a Field Experiment in Indonesia
|
29
|
88
|
crowdsourcing
|
Modelling Influence and Opinion Evolution in Online Collective Behaviour
|
30
|
85
|
MUMmer
|
Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote
|
31
|
81
|
NumPy
|
pySPACE-a signal processing and classification environment in Python
|
32
|
76
|
CellProfiler
|
Digital signaling decouples activation probability and population heterogeneity.
|
33
|
75
|
Python
|
pySPACE-a signal processing and classification environment in Python
|
34
|
74
|
molecular dynamics simulation
|
Second inflection point of water surface tension in the deeply supercooled regime revealed by entropy anomaly and surface structure using molecular dynamics simulations
|
35
|
67
|
Alpha Magnetic Spectrometer
|
First Result from the Alpha Magnetic Spectrometer on the International Space Station: Precision Measurement of the Positron Fraction in Primary Cosmic Rays of 0.5–350 GeV
|
36
|
64
|
atomic force microscopy
|
The proximity between C-termini of dimeric vacuolar H+-pyrophosphatase determined using atomic force microscopy and a gold nanoparticle technique.
|
37
|
61
|
mass spectrometry
|
Navigating the Chemical Space of HCN Polymerization and Hydrolysis: Guiding Graph Grammars by Mass Spectrometry Data
|
38
|
60
|
phyloseq
|
Genetic determinants of gut microbiota composition and bile acid profiles in mice
|
39
|
56
|
microfluidics
|
High-Throughput and Sensitive Quantification of Circulating Tumor DNA by Microfluidic-Based Multiplex PCR and Next-Generation Sequencing.
|
40
|
55
|
minfi
|
Methylation-to-Expression Feature Models of Breast Cancer Accurately Predict Overall Survival, Distant-Recurrence Free Survival, and Pathologic Complete Response in Multiple Cohorts.
|
41
|
54
|
massive parallel sequencing
|
geno2pheno[ngs-freq]: a genotypic interpretation system for identifying viral drug resistance using next-generation sequencing data.
|
42
|
49
|
NMR spectroscopy
|
ANNALS EXPRESS: Establishing reference intervals for triglyceride containing lipoprotein sub-fraction metabolites measured using Nuclear Magnetic Resonance Spectroscopy in a UK population
|
43
|
45
|
dplyr
|
Accuracy and Calibration of Computational Approaches for Inpatient Mortality Predictive Modeling
|
44
|
45
|
10x Genomics Chromium
|
Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification
|
45
|
39
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functional magnetic resonance imaging
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Sparse network-based models for patient classification using fMRI.
|
46
|
37
|
OpenSim
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Similar muscles contribute to horizontal and vertical acceleration of center of mass in forward and backward walking: implications for neural control
|
47
|
36
|
Raman spectroscopy
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Peak window correlation method for drug screening using Raman spectroscopy
|
48
|
33
|
MIRA
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Draft Genome Sequence of FT9, a Novel Bacillus cereus Strain Isolated from a Brazilian Thermal Spring.
|
49
|
33
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positron emission tomography
|
High frequency of capsular knee involvement in polymyalgia rheumatica/giant cell arteritis patients studied by positron emission tomography.
|
50
|
32
|
RNA-Seq
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Integrated analysis of dysregulated lncRNA expression in breast cancer cell identified by RNA-seq study
|
51
|
31
|
synchrotron radiation
|
Investigation of bone with synchrotron radiation imaging: from micro to nano.
|
52
|
31
|
Amazon Mechanical Turk
|
Gaining perspective on what we've lost: the reliability of encoded anecdotes in historical ecology
|
53
|
30
|
SMART-Seq
|
Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification
|
54
|
30
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computed tomography
|
Global longitudinal strain assessment by computed tomography in severe aortic stenosis patients - Feasibility using feature tracking analysis
|
55
|
29
|
Wikidata
|
A cross-verified database of notable people, 3500BC-2018AD
|
56
|
26
|
electronic health records
|
Community Health Worker Impact on Chronic Disease Outcomes Within Primary Care Examined Using Electronic Health Records.
|
57
|
24
|
tximport
|
Integrated single-cell and bulk gene expression and ATAC-seq reveals heterogeneity and early changes in pathways associated with resistance to cetuximab in HNSCC-sensitive cell lines
|
58
|
22
|
ComplexHeatmap
|
Genomic characterization of a diazotrophic microbiota associated with maize aerial root mucilage
|
59
|
22
|
cell culture
|
Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming
|
60
|
21
|
R
|
The LOTUS Initiative for Open Natural Products Research: Knowledge Management through Wikidata
|
61
|
21
|
ggtree
|
Description of strongly heat-inducible heat shock protein 70 transcripts from Baikal endemic amphipods
|
62
|
20
|
brain
|
Adult mouse cortical cell taxonomy revealed by single cell transcriptomics
|
63
|
19
|
PyMOL
|
Specific residues of the cytoplasmic domains of cardiac inward rectifier potassium channels are effective antifibrillatory targets
|
64
|
19
|
CALorimetric Electron Telescope
|
Energy Spectrum of Cosmic-Ray Electron and Positron from 10 GeV to 3 TeV Observed with the Calorimetric Electron Telescope on the International Space Station.
|
65
|
18
|
flow cytometry
|
New method to detect histone acetylation levels by flow cytometry
|
66
|
18
|
accelerometer
|
Classifying human motion quality for knee osteoarthritis using accelerometers.
|
67
|
17
|
microarray
|
Transcriptional profiling of Mycoplasma hyopneumoniae during heat shock using microarrays.
|
68
|
15
|
Wikipedia
|
A cross-verified database of notable people, 3500BC-2018AD
|
69
|
15
|
Praat
|
Can Birds Perceive Rhythmic Patterns? A Review and Experiments on a Songbird and a Parrot Species
|
70
|
14
|
RTCA
|
Prevention of dsRNA-induced interferon signaling by AGO1x is linked to breast cancer cell proliferation
|
71
|
14
|
SODI-DCMIX
|
Isothermal molecular diffusion in mixtures containing toluene, cyclohexane and methanol.
|
72
|
14
|
optical coherence tomography
|
Visualization of micro-capillaries using optical coherence tomography angiography with and without adaptive optics.
|
73
|
14
|
remote sensing
|
Early recognition of glacial lake hazards in the Himalaya using remote sensing datasets
|
74
|
13
|
liquid chromatography-tandem mass spectrometry
|
Analysis of N7-(benzo[a]pyrene-6-yl)guanine in urine using two-step solid-phase extraction and isotope dilution with liquid chromatography/tandem mass spectrometry.
|
75
|
13
|
GEOquery
|
Integrating multi-omic features exploiting Chromosome Conformation Capture data.
|
76
|
13
|
fluorescence in situ hybridization
|
Morphological spot counting from stacked images for automated analysis of gene copy numbers by fluorescence in situ hybridization
|
77
|
12
|
HCT 116
|
A comprehensive transcriptional portrait of human cancer cell lines
|
78
|
12
|
lung
|
SARS-CoV-2 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cells
|
79
|
12
|
HDF5
|
Standardizing the next generation of bioinformatics software development with BioHDF (HDF5).
|
80
|
12
|
Drop-seq
|
A cellular census of human lungs identifies novel cell states in health and in asthma
|
81
|
11
|
ImageNet
|
WSABIE: scaling up to large vocabulary image annotation
|
82
|
11
|
molecular modelling
|
Shear Piezoelectricity in Poly(vinylidenefluoride-co-trifluoroethylene): Full Piezotensor Coefficients by Molecular Modeling, Biaxial Transverse Response, and Use in Suspended Energy-Harvesting Nanostructures.
|
83
|
11
|
spectral domain optical coherence tomography
|
An automated approach for early detection of diabetic retinopathy using SD-OCT images.
|
84
|
11
|
HT-29
|
A comprehensive transcriptional portrait of human cancer cell lines
|
85
|
11
|
DBpedia
|
RDF Graph Embeddings for Content-based Recommender Systems
|
86
|
11
|
liquid chromatography–mass spectrometry
|
Solid-phase extraction of organic compounds in atmospheric aerosol particles collected with the particle-into-liquid sampler and analysis by liquid chromatography-mass spectrometry
|
87
|
11
|
common garden experiment
|
The signature of fine scale local adaptation in Atlantic salmon revealed from common garden experiments in nature.
|
88
|
11
|
WordSim-353
|
Placing search in context: the concept revisited
|
89
|
10
|
high-performance liquid chromatography
|
Improving global feature detectabilities through scan range splitting for untargeted metabolomics by high-performance liquid chromatography-Orbitrap mass spectrometry.
|
90
|
10
|
Matplotlib
|
The LOTUS Initiative for Open Natural Products Research: Knowledge Management through Wikidata
|
91
|
10
|
pyrosequencing
|
Absolute quantitation of DNA methylation of 28 candidate genes in prostate cancer using pyrosequencing.
|
92
|
10
|
SW403
|
A comprehensive transcriptional portrait of human cancer cell lines
|
93
|
10
|
SW1417
|
A comprehensive transcriptional portrait of human cancer cell lines
|
94
|
10
|
LS174T
|
A comprehensive transcriptional portrait of human cancer cell lines
|
95
|
10
|
LoVo
|
A comprehensive transcriptional portrait of human cancer cell lines
|
96
|
10
|
HCA7
|
A comprehensive transcriptional portrait of human cancer cell lines
|
97
|
10
|
GP2d
|
A comprehensive transcriptional portrait of human cancer cell lines
|
98
|
10
|
SW620
|
A comprehensive transcriptional portrait of human cancer cell lines
|
99
|
10
|
CIFAR-10
|
SurVAE Flows: Surjections to Bridge the Gap between VAEs and Flows
|
100
|
10
|
stable isotope
|
Probing the metabolic network in bloodstream-form Trypanosoma brucei using untargeted metabolomics with stable isotope labelled glucose
|