br Analysis of binding interface Direct

2. Analysis of binding interface Direct what is doxycycline hyclate to atom contacts between BCMA and the VH and VL of J22.9-xi were identified using the PISA interaction server [9]. Direct and indirect hydrogen bonding interactions involving water were identified and validated (distance and geometry) from the structure using LigPlot [10] and COOT [11].
Acknowledgments The authors wish to thank the Helmholtz Gemeinschaft for financial support.
Data The data presented in this article represent: (a) Ct values of miRNAs expressed in mouse colonic epithelial cells (Table 1), (b) differentially expressed miRNAs in Lgr5high versus Lgr5negative cells (i.e., stem cells vs. differentiated cells) (Table 2), (c) the effect of diet on miRNA expression in Lgr5high sorted cells (Table 3), (d) the effect of carcinogen on miRNA expression in Lgr5 high sorted cells (Table 4) and (e) the effect of diet and carcinogen combination on miRNA expression in GFPnegative sorted cells (Table 5). These data refer to our recently published paper ‘Comparative effects of diet and carcinogen on microRNA expression in the stem cell niche of the mouse colonic crypt’ (Shah et al., 2016) [5].
Experimental design, materials and methods
Specifications Table Value of the data Data
Experimental design, materials and methods Full and detailed methods are described in our recent paper [1]. Here we present a summary for each of the steps.
Acknowledgments We thank the Taplin Biological Mass Spectrometry Facility for information and advice. The research leading to the generation of these data received funding from the European Research Council (FP7/2007-2013 Grant agreement no. 233339). This work was also supported by the Fondation ARC pour la Recherche sur le Cancer, and the Fondation pour la Recherche Médicale en France (FRM). P.C. and J.R.A.H. were supported by post-doctoral fellowships from the FRM. P.C. was also supported by a postdoctoral fellowship from the ARC. D.L. was supported by a studentship from the FRM and the Agence Nationale de Recherches sur le Sida et les Hépatites Virales (ANRS).
Data Flow cytometry analysis was performed on epithelial cell populations from four different individuals across nine different sampling days. The relative abundance of cell events from the fraction containing larger forward scatter values was calculated against the total number of cell events analyzed in each sample. Mean and standard deviation values across all sampling days are tabulated for each individual. Optical data (forward scatter and side scatter plots in supplementary document) is summarized below.
Experimental design, materials and methods Touch epithelial cell samples were collected from volunteers using VCU-IRB approved protocol # ID# HM20000454_CR. Four volunteers (D02, D11, J16 and E14) were asked to rub a sterile conical tube (Cat#: 229421; Celltreat Scientific) in both hands for 5min. Cells were collected from the surface with six sterile, pre-wetted swabs (22037924; Fisher Scientific) followed by two dry swabs. To elute the cells into solution, the swabs were manually stirred then vortexed for 15s in 10mL of Sterile DNAse-Free, Protease-Free Water (BP24701; Fisher Scientific). The cell suspension was passed through a 100µm mesh filter prior to Flow Cytometry Analysis on the BD FACSCanto™ II analyzer (Becton Dickinson) using 488ηm and 633ηm lasers and channel voltages of 150V for FSC, and 200V for SSC. Data acquisition was performed using the FACSDIVA Software (Becton Dickinson) with a stopping gate of 10,000 total events. The data was analyzed in FCSExpress 4.0 (DeNovo) by drawing a gate to include the large cell events in the sample, and exclude the debris population (see Supplementary figure). The relative abundance of large cell events was calculated against the total number of events analyzed in each sample. Mean and standard deviation values were calculated for each donor. The p-values for every donor combination were calculated using a two-sample of unequal variance Student’s t test.