br Specifications table br Value of the data

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Data, experimental design, materials and methods
Experimental design, materials and methods
Effect of high glucose on beclin-1 expression After isolation 1×106 cardiomyocytes were seeded on a laminin coated T25 flask and allowed to settle for 4h. After 4h cardiomyocytes were exposed to high glucose (HG, 30mM) or Mannitol (NG, 30mM for osmotic control) to simulate diabetic condition in vitro for 48h. After 48h, the effect of HG treatment on beclin-1 was measured by western blotting [7] and cell survival by caspase-3/7 activity as described earlier [2,8].
Acknowledgments This study was supported by the research project grants from Lottery Health Research Grant (234767), Otago School of Medical Sciences Dean’s Bequest Funding, Otago Medical Research Foundation (AG307) and Heart Foundation New Zealand (1560), and British Heart Foundation, United Kingdom.
Experimental design – materials and methods The data presented here uses Rapid Immunoprecipitation Mass spectrometry of Endogenous protein (RIME) [1] to interrogate the interactomes of the (S)-Crizotinib manufacturer Receptor (ER) and progesterone receptor (PR) under either estrogenic conditions (complete media) or with additional progesterone treatment. This proteomics study describes the effect of activating a single nuclear receptor or two receptors with their respective ligands in breast cancer cell lines and is part of a study that identifies the synergistic roles of ER and PR in breast cancer [2]. All experiments were performed in the breast cancer cell lines MCF-7 and T47-D, both of which express sufficient levels of ER and PR.
Acknowledgments We would like to acknowledge the University of Cambridge and Cancer Research UK for funding and support.
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Data, experimental design, materials and methods
Acknowledgments We thank Roman Koerner (MPI for Biochemistry, Martinsried, Germany) for data sharing during the initial LC–MS experiments on Mad1 and all members of the Biozentrum׳s Proteomics Core Facility and the Nigg laboratory for helpful discussions. M.B. and E.A.N. were supported by the Swiss National Science Foundation (31003A_132428 and 310030B_149641) and A.P.B. by the Fellowships for Excellence PhD Program of the Werner Siemens Foundation and the University of Basel.
Experimental design, materials and methods
Acknowledgments This research was funded by the NSF (1149387) (C.P.). The authors would like to thank Gina Kuffel for her assistance in sequencing.
Data The data presented in this article show the plots of the PCR efficiency and Cqs of different miRNA assays. Data was obtained by extracting plasma RNA from 8 patients (4 cancer and 4 healthy) using five commercially available kits (Figs. 1–3).
Experimental design, materials and methods
Competing interests
Acknowledgments This study was supported by grant 1007/C/2013 from the Marató de TV3 (XC ABV MJRL CP; http://www.tv3.cat/marato/en/#), by grant PI12/01802 from Proyectos de Investigación en Salud, Instituto de Salud Carlos III (SL, MJRL; http://www.eng.isciii.es/ISCIII/es/general/index.shtml), and by grant CIR2011040 from the Fundació Parc Taulí (ABV CP, CIR2011040, 〈http://www.tauli.cat/tauli/en/Fpt/fpt.htm〉). María-José Ramírez-Lázaro is a CIBERehd staff researcher. CIBERehd is funded by the Instituto de Salud Carlos III. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Value of the data
Data Quality of molecular dynamics simulations ultimately depends on the accuracy of the force field parameters. Unfortunately derivation and validation of the force field for given classes of molecules is a tedious and lengthy process. Particularly time consuming is the derivation of torsional potential which is also a key factor for quality of molecular structure in classical simulation. Lipid bilayers are essential macromolecules and component of all living cells thus of high scientific interest also in modeling studies. High quality force fields for lipids started to be intensively developed during the last few years (for review see [3]). For example lipids models compatible with CHARMM force field which reproduced well properties of lipids bilayers were derived during last four years [4,5]. The AMBER force field model called Lipid 14 was delivered last year [6]. The third most popular force field, OPLS-AA [7,8] originally did not include lipids molecules. This gap was filled last year by our new model of saturated lipids [1] and now by a model of unsaturated lipids [2]. Data provided with this article consist of whole sets of force field parameters describing unsaturated lipids, compatible with OPLS force field.