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Information


Unique identifier OMICS_18312
Name OWW
Alternative name OpenWetWare
Restrictions to use None
Community driven Yes
Data access Browse
User data submission Allowed
Content license Other
Maintained Yes

Documentation


OWW citations

 (17)
library_books

PCH1 and PCHL promote photomorphogenesis in plants by controlling phytochrome B dark reversion

2017
Nat Commun
PMCID: 5738371
PMID: 29263319
DOI: 10.1038/s41467-017-02311-8

[…] che Diagnostics) and a camera detection system (Fusion SL, Vilber-Lourmat, Germany). Quantification of immunblot signals in Supplementary Figs.  and was done as previously described (Nicole Smalley; OpenWetWare—Protein Quantification Using ImageJ; http://www.openwetware.org/index.php?title=Protein_Quantification_Using_ImageJ&oldid=700558; 2017). […]

library_books

Cystatin SN inhibits auranofin induced cell death by autophagic induction and ROS regulation via glutathione reductase activity in colorectal cancer

2017
PMCID: 5386512
PMID: 28300829
DOI: 10.1038/cddis.2017.100

[…] d CST1 expression in CRC tissues compared with that in normal surrounding tissues (). When we analyzed a series of 59 patient samples of colon cancer tissues at various stages using by ImageJ (http://openwetware.org/wiki/Sean_Lauber:ImageJ-Threshold_Analysis), CST1 expression was higher in all stages of CRC tissues (14–26%) than in normal tissues (~5%), particularly in tumor stages I, III, and IV. […]

library_books

Comparative Analysis of Vertebrate Diurnal/Circadian Transcriptomes

2017
PLoS One
PMCID: 5226840
PMID: 28076377
DOI: 10.1371/journal.pone.0169923

[…] ent the HAYSTACK results, we also performed a rhythmic gene search using JTK_CYCLE [] (p < 0.05, 20 ≤ period (τ) ≥ 28hr). The R version of JTK_CYCLE was downloaded from the Hughes lab website (http://openwetware.org/wiki/HughesLab). The data used to run JTK_CYCLE was the Zv10-trimmed dataset making the results compatible with the HAYSTACK data. […]

library_books

Inhibition of Pterygium Fibroblast Migration and Outgrowth by Bevacizumab and Cyclosporine A Involves Down Regulation of Matrix Metalloproteinases 3 and 13

2017
PLoS One
PMCID: 5221804
PMID: 28068383
DOI: 10.1371/journal.pone.0169675

[…] s microscope (Axio Vision 4; Carl Zeiss, Jena, Germany). Quantification of the immunohistochemical signal was performed by calculating the percentage of the stained area using ImageJ software (http://openwetware.org/wiki/Sean_Lauber:ImageJ_-_Threshold_Analysis). […]

library_books

Switches in Genomic GC Content Drive Shifts of Optimal Codons under Sustained Selection on Synonymous Sites

2016
Genome Biol Evol
PMCID: 5629928
PMID: 27540085
DOI: 10.1093/gbe/evw201

[…] variable sites as codon sites in the alignment that code for different amino acids. For the implementation of the Akashi’s test (1994), we used the procedure described on the website “http://drummond.openwetware.org/Akashi’s_Test.html”. It is suggested that the Akahi’s test is implemented using the Mantel–Haenszel test in the open-source statistical package R. However, we realized that the test in […]

library_books

Cell freezing protocol suitable for ATAC Seq on motor neurons derived from human induced pluripotent stem cells

2016
Sci Rep
PMCID: 4857123
PMID: 27146274
DOI: 10.1038/srep25474

[…] We aligned sequencing reads to the hg19 genome build using BWA v.0.7.10. We assessed the quality of the sequences using FastQC (more details on how the data was processed can be found at http://openwetware.org/wiki/BioMicroCenter:Software#BMC-BCC_Pipeline). Given the large percentage of mitochondrial reads found in some samples, we removed mitochondrial reads from the analysis using custom U […]

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OWW institution(s)
BioBricks Foundation, San Francisco, CA, USA

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