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Interpreting flow cytometry data: a guide for the perplexed
2006
Nature Immunology
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Some of the light from this fluorochrome, however, may be emitted and detected in the wavelength range assigned to a different fluorochrome. ...
The remaining cells are displayed as dots that, as in all dot plots, increase in number as the number of cells analyzed increases. ...
doi:10.1038/ni0706-681
pmid:16785881
fatcat:vpfsqgx4anb4tdk4kdqcex7f5i
New approaches to fluorescence compensation and visualization of FACS data
2004
Clinical Immunology
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In addition, we introduce a new data visualization method that scales the axes on histograms and two-dimensional contour (or dot) plots to enable visualization of signals from all cells, including those ...
With the advances in FACS methodology, notably intracellular staining for cytokines, transcription factors and phosphoproteins, and with increases in the number of fluorescence detection channels, researchers ...
We would like to acknowledge funding in part from the NIH in the form of Grant number EB000231 from the National Institute of Biomedical Imaging and Engineering. ...
doi:10.1016/j.clim.2003.11.016
pmid:15047205
fatcat:hc6aenwudbhnpblm7tbeja4jxq
Is motion processing unitary?
1999
Optical Society of America. Journal A: Optics, Image Science, and Vision
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When the dot motion was noiseless, the planar surface fitted well except for much higher than expected sensitivity for motion detection. ...
When motion noise was added to the displays, the planar response surface again fitted well, although the residuals showed the presence of a speed energy mechanism. ...
ACKNOWLEDGMENTS This work was supported by a grant from the Natural Sciences and Engineering Research Council of Canada. ...
doi:10.1364/josaa.16.002836
pmid:10621969
fatcat:vlir6vcwwngi5p7abrdxydhafy
Spatial frequency discrimination in cyclopean vision
2002
Vision Research
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The dot density of every cyclopean grating used was chosen bearing in mind our finding that three or more spatial samples per grating cycle are required before sampling effects can be ignored. ...
It is well known that inspecting a cyclopean grating causes threshold for detecting a subsequently presented test cyclopean grating to be elevated, and that the threshold elevation is greatest at the adapting ...
Air Force Office of Scientific Research or of the US Government. ...
doi:10.1016/s0042-6989(02)00104-9
pmid:12128014
fatcat:p3qqisyvgzfnhjlbhew4aivej4
Motion detection in interleaved random dot patterns: Evidence for a rectifying nonlinearity preceding motion analysis
1995
Vision Research
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Subjects could specify shift direction correctly even when eight different patterns were interleaved, provided that the duration of each frame was brief. ...
Computed responses from such detectors successfully predicted psychophysical performance with interleaved random patterns. Implications for models of motion analysis are discussed. ...
Acknowledgements-This work was supported by grants from the MRC and BBSRC. ...
doi:10.1016/0042-6989(94)00301-7
pmid:7667924
fatcat:ipibja6rtfaslizxbvsdlf3xk4
Poor visibility of motion in depth is due to early motion averaging
2003
Vision Research
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Under a variety of conditions, motion in depth from binocular cues is harder to detect than lateral motion in the frontoparallel plane. ...
This suggests that the motion in depth signal is lost due to early motion averaging, rather than due to the presence of noise from the perceived depth patterns in the stimulus. ...
First, the cloud of dots with an independent disparity sample added from a rectangular distribution, as was used in Experiment 1. ...
doi:10.1016/s0042-6989(02)00570-9
pmid:12535995
fatcat:5is27iigvbbjlg62jyevish25a
Maftools: Efficient analysis, visualization and summarization of MAF files from large-scale cohort based cancer studies
[article]
2016
bioRxiv
pre-print
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Mutation Annotation Format (MAF) has become a standard file format for storing somatic/germline variants derived from sequencing of large cohort of cancer samples. ...
MAF files contain a list of all variants detected in a sample along with various annotations associated with the putative variant. ...
D) Density plot of VAFs for two samples with MATH scores. Each dot represents a variant; vertical bar indicates median value of VAF distribution. ...
doi:10.1101/052662
fatcat:wkuo23aecjbw7kkwyyfuvrkhly
Temporal filtering enhances direction discrimination in random-dot patterns
1995
Vision Research
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Motion Random-dot kinematograms Sampling Temporal frequency ...
In conventional presentations of random-dot kinematograms, two frames of random dots are presented in temporal sequence, separated by a blank inter-stimulus interval, and a coherent offset in spatial position ...
Plots differed in terms of the frame-to-frame displacement depicted (expressed as multiples of dot width), and the IS1 (expressed as multiples of timeframes). ...
doi:10.1016/0042-6989(94)00297-5
pmid:7667923
fatcat:sey5hztqzfca5c3kj7u3zbkikq
GIP: An open-source computational pipeline for mapping genomic instability from protists to cancer cells
[article]
2021
bioRxiv
pre-print
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GIP further includes a tool-suite that enables downstream custom comparisons of samples subsets. ...
GIP allows batch processing of whole genome sequencing datasets, including read alignment, normalization, quantification of chromosomes, genes and genomic bins, and detection of single nucleotide and structural ...
(B) Ternary plot showing the 393 relative abundance of genes (green dots) and gene clusters (red dots) in samples LIPA83, ZK43 394
. ...
doi:10.1101/2021.06.15.448580
fatcat:pfl4all6qbd4vkwemddtaccnqy
Sensitivity to synchronicity of biological motion in normal and amblyopic vision
2013
Vision Research
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Our results show that the ability to detect biological motion requires more samples in both eyes of amblyopes than in normal control observers. ...
desynchronized to synchronized detection sensitivities, to determine if there is a difference between normal and amblyopic observers. ...
This project was supported by the grant R01EY01728 from the National Eye Institute, National Institutes of Health, Bethesda, MD. ...
doi:10.1016/j.visres.2013.02.012
pmid:23474301
pmcid:PMC5533591
fatcat:4eiv2ptyhvbwhjxd7g7fxi6e5u
Computer program for determining fluorescence resonance energy transfer efficiency from flow cytometric data on a cell-by-cell basis
2004
International Journal of Forecasting
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This program displays the measured data in standard plots by generating one-and two-parameter histograms on linear or logarithmic scales. ...
We developed a Windows-based program to calculate fluorescence resonance energy transfer efficiency values from list mode flow cytometry standard (FCS) files. ...
Acknowledgements This work was supported in part by grants from the Hungarian Academy of Sciences OTKA TS040773, T042618, T043061, T043087, T043509, ...
doi:10.1016/s0169-2607(04)00046-x
fatcat:yg44wlvtgra6jazhzu2pn2grhi
Computer program for determining fluorescence resonance energy transfer efficiency from flow cytometric data on a cell-by-cell basis
2004
Computer Methods and Programs in Biomedicine
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This program displays the measured data in standard plots by generating one-and two-parameter histograms on linear or logarithmic scales. ...
We developed a Windows-based program to calculate fluorescence resonance energy transfer efficiency values from list mode flow cytometry standard (FCS) files. ...
Acknowledgements This work was supported in part by grants from the Hungarian Academy of Sciences OTKA TS040773, T042618, T043061, T043087, T043509, ...
doi:10.1016/j.cmpb.2004.02.004
pmid:15265619
fatcat:ylh2rou3rbed7hoo5nabxcol6a
Detection of minimal residual disease in B lymphoblastic leukemia using viSNE
2015
Cytometry. Part B, Clinical cytometry
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can facilitate the immunophenotypic detection of MRD in clinical samples has not been evaluated. ...
Methods-We applied viSNE retrospectively to 8-color flow cytometric immunophenotyping data from normal bone marrow samples, and samples from B lymphoblastic leukemia patients with or without suspected ...
In conventional 3D-dot plots, these outlier populations represent clusters of cellular events, whose composite immunophenotypes differ from those of the normal B cells in patterns typical of leukemic B-lymphoblasts ...
doi:10.1002/cyto.b.21252
pmid:25974871
pmcid:PMC5981136
fatcat:5pnbce4xkrbe7kcefw4xqjgvmm
It Takes Two to Tango: Combining Conventional Culture with Molecular Diagnostics Enhances Accuracy of Streptococcus pneumoniae Detection and Pneumococcal Serogroup/Serotype determination in Carriage
[article]
2021
medRxiv
pre-print
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Molecular methods also displayed increased sensitivity of detection for multiple serotype carriage. ...
Among paired samples from adults, the sensitivity of S. pneumoniae detection in primary nasopharyngeal plus oropharyngeal cultures was significantly lower compared with molecular detection in both culture-enriched ...
Bland-Altman plot (D) displaying agreement between piaB and dominant serotype detected by qPCR. ...
doi:10.1101/2021.11.26.21266900
fatcat:454w7f7tbzfc5g2bxuvswyqxhq
Signatures of single-photon interaction between two quantum dots located in different cavities of a weakly coupled double microdisk structure
2018
Physical review B
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2017 pre-print arXiv:1706.05224v1 fatcat:qtltmgluezbfjjvgvs5eo6nm3e
Excitation of one disk of the double cavity structure and detecting photoluminescene from the other yields proof of single photon emission of a QD excited by incoherent energy transfer from one disk to ...
We report on the radiative interaction of two single quantum dots (QDs) each in a separate InP/GaInP-based microdisk cavity via resonant whispering gallery modes. ...
Liu for processing the high quality sample. ...
doi:10.1103/physrevb.97.035302
fatcat:ngdu4v5nqnhnrhgyewhjsoysrq
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