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References from Systematic data analysis pipeline for quantitative morphological cell phenotyping. Local targets link to admitted publications; unresolved targets remain external evidence.
10.1016/j.cell.2010.04.033
10.1016/j.cell.2010.04.033 · External reference
10.1126/science.1140324
10.1126/science.1140324 · External reference
Reproducibility crisis?
2016 · External reference
Machine learning in rare disease
2023 · External reference
10.1038/nmeth.1534
10.1038/nmeth.1534 · External reference
Essential gene disruptions reveal complex relationships between phenotypic robustness, pleiotropy, and fitness
10.15252/msb.20145264 · 2015 · External reference
10.1038/nbt.3780
10.1038/nbt.3780 · External reference
The complexity of DNA damage by radiation follows a Gamma distribution: insights from the Microdosimetric Gamma Model
10.3389/fonc.2023.1196502 · 2023 · External reference
10.1038/nmeth.1351
10.1038/nmeth.1351 · External reference
Label-free cell cycle analysis for high-throughput imaging flow cytometry
10.1038/ncomms10256 · 2016 · External reference
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias
10.1093/bioinformatics/19.2.185 · 2003 · External reference
10.1002/cyto.a.22909
10.1002/cyto.a.22909 · External reference
10.1016/j.cell.2017.05.038
10.1016/j.cell.2017.05.038 · External reference
Improved statistical methods for hit selection in high-throughput screening
10.1177/1087057103258285 · 2003 · External reference
Unresolved reference
2015 · External reference
10.1038/nmeth.4182
10.1038/nmeth.4182 · External reference
10.1038/nmeth.4397
10.1038/nmeth.4397 · External reference
Nucleus segmentation across imaging experiments: the 2018 Data Science Bowl
10.1038/s41592-019-0612-7 · 2019 · External reference
A Practical Approach to GIT Using Bitbucket, GitHub and SourceTree
10.47992/ijaeml.2581.7000.0156 · 2022 · External reference
10.1038/s41573-020-00117-w
10.1038/s41573-020-00117-w · External reference
Opportunities and obstacles for deep learning in biology and medicine
10.1098/rsif.2017.0387 · 2018 · External reference
Unresolved reference
External reference
Unresolved reference
2021 · External reference
Tales of 1,008 Small Molecules: Phenomic Profiling through Live-cell Imaging in a Panel of Reporter Cell Lines
2020 · External reference
Unresolved reference
External reference
Predicting gene expression using morphological cell responses to nanotopography
10.1038/s41467-020-15114-1 · 2020 · External reference
qvalue: Q-value estimation for false discovery rate control
2010 · External reference
Morphodynamics facilitate cancer cells to navigate 3D extracellular matrix
10.1038/s41598-021-99902-9 · 2021 · External reference
10.1038/nmeth.2084
10.1038/nmeth.2084 · External reference
U-Net: deep learning for cell counting, detection, and morphometry
10.1038/s41592-018-0261-2 · 2019 · External reference
10.1038/s41559-022-01730-1
10.1038/s41559-022-01730-1 · External reference
Reparametrized generalized gamma partially linear regression with application to breast cancer data
2024 · External reference
Cell detection and segmentation in microscopy images with improved mask R-CNN
2020 · External reference
Unresolved reference
External reference
10.1016/b978-0-12-814919-5.00016-6
10.1016/b978-0-12-814919-5.00016-6 · 2019 · External reference
Assignment of unimodal probability distribution models for quantitative morphological phenotyping
10.1186/s12915-022-01283-6 · 2022 · External reference
10.3390/jof7090769
10.3390/jof7090769 · External reference
10.1091/mbc.e17-04-0216
10.1091/mbc.e17-04-0216 · External reference
10.1007/978-981-13-0553-5
10.1007/978-981-13-0553-5 · External reference
Community standards for open cell migration data
10.1093/gigascience/giaa041 · 2020 · External reference
10.1038/s41580-021-00407-0
10.1038/s41580-021-00407-0 · External reference
A novel edge effect detection method for real-time cellular analyzer using functional principal component analysis
2019 · External reference
10.1002/cyto.a.23701
10.1002/cyto.a.23701 · External reference
10.1038/s41585-020-00400-w
10.1038/s41585-020-00400-w · External reference
A survey on feature selection approaches for clustering
2020 · External reference
Making data maximally available, American Association for the Advancement of
10.1126/science.1203354 · 2011 · External reference
An image-based data-driven analysis of cellular architecture in a developing tissue
10.7554/elife.55913 · 2020 · External reference
Multi-omics approaches to disease
10.1186/s13059-017-1215-1 · 2017 · External reference
High‐throughput, microscope‐based sorting to dissect cellular heterogeneity.
10.15252/msb.20209442 · 2020 · External reference
Unresolved reference
External reference
Statistical modeling methods: challenges and strategies
10.1080/24709360.2019.1618653 · 2020 · External reference
10.1038/s41576-023-00586-w
10.1038/s41576-023-00586-w · External reference
Deciphering intratumor heterogeneity and temporal acquisition of driver events to refine precision medicine
10.1186/s13059-014-0453-8 · 2014 · External reference
Evolutionary adaptations to new environments generally reverse plastic phenotypic changes
2018 · External reference
Machine learning improves the precision and robustness of high-content screens: using nonlinear multiparametric methods to analyze screening results
10.1177/1087057111414878 · 2011 · External reference
10.1038/nrg2897
10.1038/nrg2897 · External reference
A study of imputation algorithms
2001 · External reference
Artificial intelligence in cancer diagnosis and prognosis: opportunities and challenges
10.1016/j.canlet.2019.12.007 · 2020 · External reference
Keras R-CNN: library for cell detection in biological images using deep neural networks
10.1186/s12859-020-03635-x · 2020 · External reference
10.1038/nature10836
10.1038/nature10836 · External reference
Automatic quantitative segmentation of myotubes reveals single-cell dynamics of S6 kinase activation
10.1247/csf.18012 · 2018 · External reference
AI-based forecasting of ethanol fermentation using yeast morphological data
10.1093/bbb/zbab188 · 2022 · External reference
10.1007/978-3-031-38747-0
10.1007/978-3-031-38747-0 · External reference
A deep learning-based segmentation pipeline for profiling cellular morphodynamics using multiple types of live cell microscopy
2021 · External reference
10.1080/19768354.2020.1721321
10.1080/19768354.2020.1721321 · External reference
Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software
10.1093/bioinformatics/btr095 · 2011 · External reference
Morphological variation in bumblebees (Bombus terrestris)(Hymenoptera: Apidae) after three decades of an Island invasion.
10.1093/jisesa/iead006 · 2023 · External reference
High-content microscopy reveals a morphological signature of bortezomib resistance
10.7554/elife.91362 · 2023 · External reference
Linear regression links transcriptomic data and cellular raman spectra
2018 · External reference
Unresolved reference
2019 · External reference
10.1007/s00439-016-1679-1
10.1007/s00439-016-1679-1 · External reference
Automated analysis of high‐content microscopy data with deep learning
10.15252/msb.20177551 · 2017 · External reference
Points of significance: power and sample size
2013 · External reference
10.1007/978-1-4614-6849-3
10.1007/978-1-4614-6849-3 · External reference
DoGNet: a deep architecture for synapse detection in multiplexed fluorescence images
10.1371/journal.pcbi.1007012 · 2019 · External reference
10.1073/pnas.1507743112
10.1073/pnas.1507743112 · External reference
Statistical data preparation: management of missing values and outliers
10.4097/kjae.2017.70.4.407 · 2017 · External reference
Evaluation of gene expression and phenotypic profiling data as quantitative descriptors for predicting drug targets and mechanisms of action
2019 · External reference
10.1016/j.pbiomolbio.2011.01.003
10.1016/j.pbiomolbio.2011.01.003 · External reference
Developing open-source software for bioimage analysis: opportunities and challenges
10.12688/f1000research.52531.1 · 2021 · External reference
Network hubs buffer environmental variation in Saccharomyces cerevisiae
2008 · External reference
Cell morphology-based machine learning models for human cell state classification
10.1038/s41540-021-00180-y · 2021 · External reference
10.1038/nrg3920
10.1038/nrg3920 · External reference
10.1038/nrg3768
10.1038/nrg3768 · External reference
Cucurbitacin B exerts antiaging effects in yeast by regulating autophagy and oxidative stress
2019 · External reference
Comparison of methods for image-based profiling of cellular morphological responses to small-molecule treatment
10.1177/1087057113503553 · 2013 · External reference
10.1038/nmeth.1375
10.1038/nmeth.1375 · External reference
A univocal definition of the neuronal soma morphology using Gaussian mixture models
10.3389/fnana.2015.00137 · 2015 · External reference
A simple technique for reducing edge effect in cell-based assays
10.1177/1087057103256465 · 2003 · External reference
10.1038/nmeth.4627
10.1038/nmeth.4627 · External reference
Ten common statistical mistakes to watch out for when writing or reviewing a manuscript
10.7554/elife.48175 · 2019 · External reference
Systems morphodynamics: understanding the development of tissue hardware
2017 · External reference
10.1038/nrc3261
10.1038/nrc3261 · External reference
Systematic genetics and single‐cell imaging reveal widespread morphological pleiotropy and cell‐to‐cell variability
10.15252/msb.20199243 · 2020 · External reference
Differential blood cells associated with parasitism in the wild puffer fish Lagocephalus laevigatus (Tetraodontiformes) of the Campeche Coast, southern Mexico
10.1007/s00436-023-08066-0 · 2024 · External reference
Discovering the hidden messages within cell trajectories using a deep learning approach for in vitro evaluation of cancer drug treatments
10.1038/s41598-020-64246-3 · 2020 · External reference
Dimension reduction techniques for the integrative analysis of multi-omics data
10.1093/bib/bbv108 · 2016 · External reference
10.1530/jme-18-0055
10.1530/jme-18-0055 · External reference
10.1038/s41592-019-0403-1
10.1038/s41592-019-0403-1 · External reference
Accurate morphology preserving segmentation of overlapping cells based on active contours
10.1038/srep32412 · 2016 · External reference
Learning representations for image-based profiling of perturbations
10.1038/s41467-024-45999-1 · 2024 · External reference
Cancer diagnosis using deep learning: a bibliographic review
10.3390/cancers11091235 · 2019 · External reference
10.1038/nchembio.576
10.1038/nchembio.576 · External reference
Repeatability for Gaussian and non‐Gaussian data: a practical guide for biologists
10.1111/j.1469-185x.2010.00141.x · 2010 · External reference
Systematic exploration of cell morphological phenotypes associated with a transcriptomic query
10.1093/nar/gky626 · 2018 · External reference
10.1038/nmeth.3144
10.1038/nmeth.3144 · External reference
10.1038/nature08869
10.1038/nature08869 · External reference
A note on statistical repeatability and study design for high‐throughput assays.
10.1002/sim.7175 · 2017 · External reference
Intelligent image-activated cell sorting
10.1016/j.cell.2018.08.028 · 2018 · External reference
A fitness landscape instability governs the morphological diversity of tip-growing cells
10.1016/j.celrep.2024.113961 · 2024 · External reference
High-dimensional single-cell phenotyping reveals extensive haploinsufficiency
10.1371/journal.pbio.2005130 · 2018 · External reference
Phenotypic diagnosis of lineage and differentiation during sake yeast breeding
10.1534/g3.117.044099 · 2017 · External reference
Application of unimodal probability distribution models for morphological phenotyping of budding yeast
10.1093/femsyr/foad056 · 2024 · External reference
10.1073/pnas.0509436102
10.1073/pnas.0509436102 · External reference
Interpretation of diffusion MR imaging data using a gamma distribution model
10.2463/mrms.2014-0016 · 2014 · External reference
10.1126/science.aan0096
10.1126/science.aan0096 · External reference
10.1038/s41592-018-0111-2
10.1038/s41592-018-0111-2 · External reference
arXiv preprint
2020 · External reference
10.1126/science.1222161
10.1126/science.1222161 · External reference
10.1126/science.1213847
10.1126/science.1213847 · External reference
10.3390/math8050662
10.3390/math8050662 · External reference
10.1126/science.1100709
10.1126/science.1100709 · External reference
10.1111/j.1365-2818.2007.01799.x
10.1111/j.1365-2818.2007.01799.x · External reference
Disentanglement of single-cell data with biolord
2024 · External reference
10.1016/j.cbpa.2021.04.001
10.1016/j.cbpa.2021.04.001 · External reference
Mitochondria in the biology, pathogenesis, and treatment of hepatitis virus infections
2019 · External reference
A genome-wide atlas of human cell morphology
2023 · External reference
Quantitative imaging biomarkers: a review of statistical methods for technical performance assessment
10.1177/0962280214537344 · 2015 · External reference
10.1089/adt.2015.656
10.1089/adt.2015.656 · External reference
Benchmarking of multivariate similarity measures for high-content screening fingerprints in phenotypic drug discovery
10.1177/1087057113501390 · 2013 · External reference
10.1201/9780429298547
10.1201/9780429298547 · External reference
A Monte Carlo-Based Outlier Diagnosis Method for Sensitivity Analysis
10.3390/rs12050860 · 2020 · External reference
Capturing single-cell heterogeneity via data fusion improves image-based profiling
10.1038/s41467-019-10154-8 · 2019 · External reference
Unresolved reference
External reference
Scientific community image forum: a discussion forum for scientific image software
10.1371/journal.pbio.3000340 · 2019 · External reference
A review of feature selection techniques in bioinformatics
10.1093/bioinformatics/btm344 · 2007 · External reference
Cross-talk between Rho and Rac GTPases drives deterministic exploration of cellular shape space and morphological heterogeneity
10.1098/rsob.130132 · 2014 · External reference
Integration of deep learning-based image analysis and genomic data in cancer pathology: A systematic review
10.1016/j.ejca.2021.10.007 · 2022 · External reference
10.1126/science.abj3013
10.1126/science.abj3013 · External reference
mclust 5: clustering, classification and density estimation using Gaussian finite mixture models
10.32614/rj-2016-021 · 2016 · External reference
Insights into drug cardiotoxicity from biological and chemical data: the first public classifiers for FDA drug-induced cardiotoxicity rank
2024 · External reference
Interactive notebooks: Sharing the code
10.1038/515151a · 2014 · External reference
Repurposing high-throughput image assays enables biological activity prediction for drug discovery
10.1016/j.chembiol.2018.01.015 · 2018 · External reference
Patterns of basal signaling heterogeneity can distinguish cellular populations with different drug sensitivities
10.1038/msb.2010.22 · 2010 · External reference
10.1073/pnas.0807038105
10.1073/pnas.0807038105 · External reference
10.1038/nrm3044
10.1038/nrm3044 · External reference
Deep neural network models for computational histopathology: A survey
10.1016/j.media.2020.101813 · 2021 · External reference
Generalized additive models for location scale and shape (GAMLSS) in R
10.18637/jss.v023.i07 · 2007 · External reference
CellProfiler 4: improvements in speed, utility and usability
10.1186/s12859-021-04344-9 · 2021 · External reference
10.1038/s41592-020-01018-x
10.1038/s41592-020-01018-x · External reference
10.1002/cyto.a.23973
10.1002/cyto.a.23973 · External reference
Global study of holistic morphological effectors in the budding yeast Saccharomyces cerevisiae
10.1186/s12864-018-4526-z · 2018 · External reference
10.3390/cells11020285
10.3390/cells11020285 · External reference
Genetic interactions involving five or more genes contribute to a complex trait in yeast
10.1371/journal.pgen.1004324 · 2014 · External reference
High-dimensional phenotyping to define the genetic basis of cellular morphology
10.1038/s41467-023-44045-w · 2024 · External reference
A multi-encoder variational autoencoder controls multiple transformational features in single-cell image analysis
10.1038/s42003-022-03218-x · 2022 · External reference
Automated morphological phenotyping using learned shape descriptors and functional maps: A novel approach to geometric morphometrics
10.1371/journal.pcbi.1009061 · 2023 · External reference
10.1039/d1cb00069a
10.1039/d1cb00069a · External reference
In silico-labeled ghost cytometry
10.7554/elife.67660 · 2021 · External reference
High-content screening for quantitative cell biology
10.1016/j.tcb.2016.03.008 · 2016 · External reference
Unresolved reference
2014 · External reference
Single-cell phenotyping of human induced pluripotent stem cells by high-throughput imaging
2015 · External reference
10.1042/bst20180391
10.1042/bst20180391 · External reference
10.1177/2472555218820805
10.1177/2472555218820805 · External reference
10.1146/annurev.genet.34.1.593
10.1146/annurev.genet.34.1.593 · External reference
10.1016/j.cels.2022.10.001
10.1016/j.cels.2022.10.001 · External reference
Zebra finches have style: nest morphology is repeatable and associated with experience
10.1016/j.isci.2023.108194 · 2023 · External reference
10.1111/jmi.12184
10.1111/jmi.12184 · External reference
The FAIR guiding principles for scientific data management and stewardship
10.1038/sdata.2016.18 · 2016 · External reference
10.1038/nmeth.4326
10.1038/nmeth.4326 · External reference
10.1002/1873-3468.14067
10.1002/1873-3468.14067 · External reference
Single-cell morphology encodes metastatic potential
2020 · External reference
Multi-domain translation between single-cell imaging and sequencing data using autoencoders
10.1038/s41467-020-20249-2 · 2021 · External reference
Unveiling nonessential gene deletions that confer significant morphological phenotypes beyond natural yeast strains
10.1186/1471-2164-15-932 · 2014 · External reference
10.1038/ncb2764
10.1038/ncb2764 · External reference
10.1016/j.tibtech.2015.12.013
10.1016/j.tibtech.2015.12.013 · External reference
Review of statistical learning methods in integrated omics studies (an integrated information science)
2018 · External reference
Perceptual image quality assessment: a survey
10.1007/s11432-019-2757-1 · 2020 · External reference
Crop phenomics: current status and perspectives
10.3389/fpls.2019.00714 · 2019 · External reference
