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ToppMiR: ranking microRNAs and their mRNA targets based on biological functions and context
2014
Nucleic Acids Research
Identifying functionally significant microRNAs (miRs) and their correspondingly most important messenger RNA targets (mRNAs) in specific biological contexts is a critical task to improve our understanding of molecular mechanisms underlying organismal development, physiology and disease. However, current miR-mRNA target prediction platforms rank miR targets based on estimated strength of physical interactions and lack the ability to rank interactants as a function of their potential to impact a
doi:10.1093/nar/gku409
pmid:24829448
pmcid:PMC4086116
fatcat:xfiekqshmne4roqwleqep3bc6y
more »
... iven biological system. To address this, we have developed ToppMiR (http://toppmir.cchmc.org), a web-based analytical workbench that allows miRs and mRNAs to be co-analyzed via biologically centered approaches in which gene function associated annotations are used to train a machine learning-based analysis engine. ToppMiR learns about biological contexts based on gene associated information from expression data or from a userspecified set of genes that relate to context-relevant knowledge or hypotheses. Within the biological framework established by the genes in the training set, its associated information content is then used to calculate a features association matrix composed of biological functions, protein interactions and other features. This scoring matrix is then used to jointly rank both the test/candidate miRs and mRNAs. Results of these analyses are provided as downloadable tables or network file formats usable in Cytoscape.
Conditional Deletion of Shp2 in the Mammary Gland Leads to Impaired Lobulo-alveolar Outgrowth and Attenuated Stat5 Activation
2006
Journal of Biological Chemistry
Tel.:
858-795-5265; Fax: 858-713-6274; E-mail: gfeng@burnham.org. ...
E, litter size from control and mutant females was determined on the delivery and weaning days. ...
doi:10.1074/jbc.m607325200
pmid:16959766
pmcid:PMC1761121
fatcat:ectexw2pa5gz5d6fgvqvjv75ba
Cross-Platform Validation of Neurotransmitter Release Impairments in Schizophrenia Patient-Derived NRXN1-Mutant Neurons
[article]
2020
bioRxiv
pre-print
E. ...
. ; https://doi.org/10.1101/2020.11.03.366617 doi: bioRxiv preprint E & F. ...
doi:10.1101/2020.11.03.366617
fatcat:g4hmp25winciteikhasuaac254
Clinical Sensitivity and Interpretation of PCR and Serological COVID-19 Diagnostics for Patients Presenting to the Hospital
[article]
2020
medRxiv
pre-print
genes, and the Xpert Xpress SARS-CoV-2 assay run on the 99 GeneXpert Infinity targets regions of the N and E genes. ...
96 the Centers for Disease Control and Prevention primers targeting regions of the N gene of 97 SARS-CoV-22, the cobas SARS-CoV-2 Test performed on the cobas 6800 targets 98 regions of the ORF1a and E ...
doi:10.1101/2020.06.19.20135723
fatcat:4saearb2crghvnet2vswdultye
Clinical sensitivity and interpretation of PCR and serological COVID‐19 diagnostics for patients presenting to the hospital
2020
The FASEB Journal
T A B L E 1 Demographics of cohorts used in analysis F I G U R E 1 Sensitivity by assay modality over time. ...
genes, and the Xpert Xpress SARS-CoV-2 assay run on the GeneXpert Infinity (Cepheid) targets regions of the N and E genes. ...
Bard, T. Gogakos, E.S. Rosenberg, and J.K. Lennerz conceived and designed the study. T.E. Miller, W.F. Garcia Beltran, A.Z. Bard, T. Gogakos, M.N. Anahtar, M.G. Astudillo, D. Yang, J. Thierauf, A.S. ...
doi:10.1096/fj.202001700rr
pmid:32856766
pmcid:PMC7461169
fatcat:dhfkionogfbpfczr7jxkh4n5qe
Page 25 of None Vol. 6, Issue 31
[page]
1828
None
E ...
-—Call Eric—Eric the bard,” he added, as with loud acclamations all drained their goblets to the bottom—‘“ he who made the song of triumph what time I ravaged the wide seas of Britain.” ...
ACCF/AHA Consensus Conference Report on Professionalism and Ethics: Participants/authors
2004
Journal of the American College of Cardiology
E. ...
Eric N. Prystowsky
• Bard Medical
• Guidant
• Guidant
• Guidant
• Bard Medical
• Astra Zeneca
None
• CardioNet
• King
Pharmaceuticals, Inc. ...
doi:10.1016/j.jacc.2004.09.002
fatcat:3xnx7agc2rfdjhkqwjsrdo4moq
GREAT3 results – I. Systematic errors in shear estimation and the impact of real galaxy morphology
2015
Monthly notices of the Royal Astronomical Society
) ) 2 as e 2[1 − (e (s) ) 2 ]g. ...
A PCA decomposition was then performed on a vector with first component | e| = (e 1,out − e 1,in ) 2 + (e 2,out − e 2,in ) 2 . ...
doi:10.1093/mnras/stv781
fatcat:eqavquyi5zfdfb2qmri4zaer7i
Page 551 of British Librarian 1737 Vol. 1, Issue
[page]
1760
British Librarian 1737
4
yo
‘
Farexp
«0 laid it
al E
ng pace, walks o’er the
ks around him feed. 1 cool refrefhing gale, charm is center’d in the
inflation of Eric- an Archb--p.
cool Epictetus
hat doétrine to a maid, to tranflate ...
fup with you : bards fay feldom true,
.
\ bard faid he wou
; naries
5st Answer te theR EB US in our laft. ...
Preface
[chapter]
2020
The Intellectual Origins of the Global Financial Crisis
Th e rise of economic thinking is central to ...
Th e second main section of Arendt's exploration of twentieth-century totalitarianism is called "Imperialism." ...
Th e ensuing conference, "Th e Burden of Our Times: Th e Intellectual Origins of the Global Financial Crisis," took place in October 2009 at Bard College. ...
doi:10.1515/9780823249633-001
fatcat:tptzwh5fufh4rikqoapyeezwdi
Page 350 of Neural Computation Vol. 6, Issue 2
[page]
1994
Neural Computation
Cugliandolo
Letters
Learning of Phase Lags in Coupled Neural Oscillators Bard Ermentrout and Nancy Kopell
A Mechanism for Neuronal Gain Control by Descending Pathways Mark E. ...
Backpropagation Algorithm and Resistance to Local Minima
William Finnoff Relating Real-Time Backpropagation and Backpropagation-Through-Time: An Application of Flow Graph Interreciprocity
Francoise Beaufays and Eric ...
Page 150 of Church History Vol. 12, Issue 2
[page]
1943
Church History
W., Prof. 619 E. Washington St. Greencastle, Ind.
Hirsch, Elizabeth F., Dr. Bard College Annandale-on-Hudson, N. Y.
Hoffman, Milton J., Prof. New Brunswick Theological
Seminary New Brunswick, N. J. ...
Harbison, E. Harris, Prof. 9 Aiken Ave. Princeton, N. J.
Hardy, E. R., Jr., Dr. 175 Ninth Ave. New York, N. Y.
Harkness, R. E. E., Prof. Crozer Theological Seminary Chester, Penna. ...
Page 168 of Church History Vol. 11, Issue 2
[page]
1942
Church History
W., Prof.
619 E. Washington St. Greencastle, Ind.
Hirsch, Elizabeth F., Dr. Bard College Annandale-on-Hudson, N. Y.
Hoffman, Milton J., Prof. New Brunswick Theological Seminary
New Brunswick, N. J. ...
Harbison, E. Harris, Prof. 9 Aiken Ave. Princeton, N. J.
Hardy, E. R., Jr., Dr.
175 Ninth Ave.
New York, N. Y. Harkness, R. E. E., Prof.
Crozer Theological Seminary Chester, Penna. ...
Page 150 of Church History Vol. 13, Issue 2
[page]
1944
Church History
W., Prof.
619 E. Washington St. Greencastle, Ind.
Hirsch, Elizabeth F., Dr. Bard College Annandale-on-Hudson, N. Y.
Hoffman, Milton J., Prof.
New Brunswick Theological Seminary
New Brunswick, N. J. ...
Harbison, E. Harris, Prof. 9 Aiken Ave. Princeton, N. J.
Hardy, E. R., Jr., Dr. 175 Ninth Ave. New York 11, N. Y.
Harkness, R. E. E., Prof. Crozer Theological Seminary Chester, Penna. ...
Page 388 of Overland Monthly and Out West Magazine Vol. 85, Issue 12
[page]
1927
Overland Monthly and Out West Magazine
STERLING, GEORGE STEWART, IRENE TAGGARD, GENEVIEVE TAYLOR, ERIC THOMPSON, JESSE THORSELL, ESTHER TYRELL, DOROTHY ULMAN, DOROTHY VALENTINE, UFFINGTON WAITE, EDGAR WARDEMAN, WATKINS, MARY E WHITE, TOM .. ...
FIELD, SARA BARD FITCH, W. T. FLANNAGAN, DOROTHY GIDLOW, ELSA GORDON, DON .. GROSS, ANTON GROSS, CARL W GREENWOOD, MAY
. HAGEMEYER, JOHAN
HAMPTON, EDGAR LLOYD HANIFIN, ADA.. HARRIS, JOSEPH ... ...
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