Studies

HSD11B1 was inhibited in human subcutaneous and omental adipose tissue, and the effect on oxygenated adrogen metabolism was studied.

Surface plots showing the computational analysis of combined HSD11B1/AKR1C3 ratios and HSD11B1 inhibition.

HSD11B1 was inhibited by CBX and the effect of the inhibition on Cortisone and 11KA4 conversion by HSD11B1/AKR1C3 incubations were measured.

PFK-1 and PFK-2 were cloned and expressed in E. coli, purified, and kinetically characterised in terms of substrates and allosteric regulators.

HSD11B1 and AKR1C3 transfected cells were mixed at difefrent ratios and effects on cortisone conversion (Fig. 2B) and 11KT production (Fig. 2C) were measured and simulated.

Emmanouil Angelidakis, Sophia Chen, Shun Zhang, Zhengpeng Wan, Roger D. Kamm, Sarah E. Shelton

Link to Paper: https://doi.org/10.1002/adhm.202202984

A bidirectional association exists between metastatic dissemination and the hypercoagulable state associated with many types of cancer. As such, clinical studies have provided evidence that markers associated with elevated levels of coagulation and fibrinolysis correlate with decreased patient survival. However, ...

Sequence data for European Nucleotide Archive (ENA ) https://www.ebi.ac.uk/ena/

Metabolomics data a for Metabolight DB

Proteomics data for PRIDE, UniProt and others

Lauren Baugh, Brittany A. Goods, Juan S. Gnecco, Yunbeen Bae, Michael Retchin, Constantine N. Tzouanas, Megan Loring, Keith Isaacson, Alex K. Shalek, Douglas Lauffenburger, Linda Griffith

https://www.medrxiv.org/content/10.1101/2022.01.29.22269829v1

Endometriosis is a debilitating gynecological disorder affecting approximately 10% of the female population. Despite its prevalence, robust methods to classify and treat endometriosis remain elusive. Changes ...

Juan S. Gnecco, Alexander Brown, Kira Buttrey, Clara Ives, Brittany A. Goods, Lauren Baugh, Victor Hernandez-Gordillo, Megan Loring, Keith Isaacson, Linda G. Griffith

https://doi.org/10.1101/2021.09.30.462577

The human endometrium undergoes recurring cycles of growth, differentiation, and breakdown in response to sex hormones. Dysregulation of epithelial-stromal communication during hormone cycles is linked to myriad gynecological disorders for which treatments ...

Chemical named entity recognition (NER) is a significant pre-processing task in natural language processing. Identification and extraction of chemical entities from biomedical literature and entities linking to the knowledge base are essential steps for the chemical text-mining pipeline. However, the identification of chemical entities in a biomedical text is a challenging task due to the diverse morphology of chemical entities and the different types of chemical nomenclature. In this work, we ...

Biomedical pre-trained language models (BioPLMs) have been achieving state-of-the-art results for various biomedical text mining tasks. However, prevailing fine-tuning approaches naively train BioPLMs on targeted datasets without considering the class distributions. This is problematic, especially with dealing with imbalanced biomedical gold-standard datasets for named entity recognition (NER). Regardless of the high-performing SOTA fine-tuned NER models, they are biased towards other (O) tags ...

Hannah P.Gideon, Travis K.Hughes, Constantine N.Tzouanas, Marc H.WadsworthII, Ang AndyTu, Todd M.Gierahn, Joshua M.Peters, Forrest F.Hopkins, Jun-RongWei, Conner Kummerlowe, Nicole L.Grant, Kievershen Nargan, Jia YaoPhuah, H. JacobBorish, Pauline Maiello, Alexander G.White, Caylin G.Winchell, Sarah K.Nyquist, Sharie Keanne C.Ganchua, Amy Myers, Kush V.Patel, Cassaundra L.Ameel, Catherine T.Cochran, Samira Ibrahim, Jaime A.Tomko, Lonnie JamesFrye, Jacob ...

Irene Hu and Harold Hemond

https://doi.org/10.3390/

Aquatic eddy covariance (AEC) is an in situ technique for measuring fluxes in marine and freshwater systems based on the covariance of velocity and concentration measurements. Here, development of a fast multiple-channel sensor (FACT) enables the use of AEC for measurement of benthic fluxes of fluorescent dissolved organic material, salt, and heat at three distinct sites in Massachusetts, USA, including the ...

Jennifer E. Kay, Joshua J. Corrigan, Amanda L. Armijo, Ilana S. Nazari, Ishwar N. Kohale, Dorothea K. Torous, Svetlana L. Avlasevich, Robert G. Croy, Dushan N. Wadduwage, Sebastian E. Carrasco, Stephen D. Dertinger, Forest M. White, John M. Essigmann, Leona D. Samson, Bevin P. Engelward

doi: https://doi.org/10.1101/2021.01.12.426356

Link to all of the Imaging done in this study: https://omero.mit.edu/webclient/?show=project-153 ...

Thiel BA, Worodria W, Nalukwago S, Nsereko M, Sanyu I, Rejani L, Zawedde J, Canaday DH, Stein CM, Chervenak KA, Malone LL, Kiyemba R, Silver RF, Johnson JL, Mayanja-Kizza H, Boom WH. Immune cells in bronchoalveolar lavage fluid of Ugandan adults who resist versus those who develop latent Mycobacterium tuberculosis infection. PLoS One. 2021 Apr 9;16(4):e0249477. doi: 10.1371/journal.pone.0249477. PMID: 33836031; PMCID: PMC8034721.

Abstract: ...

Induced fit docking studies of the dinitroaniline parent trifluraline and the newly designed dinitroaniline-etherphospholipid hybrids against different potential binding sites in monomeric and multimeric kinetoplastid tubulin receptors.

This study includes the experimental data for model validation and the model predictions of that data set.

This study includes the experimental data for model validation and the model predictions of that data set.

Haosheng Feng, Shao-Xiong Lennon Luo, Robert G Croy, John M. Essigmann, Timothy M. Swager

https://doi.org/10.1039/D2DT03848J

Cu(I) from tetrakis(acetonitrile)copper(I) hexafluorophosphate ([Cu(MeCN)4]PF6) was complexed with five structurally related phosphines containing N-heterocycles. The interactions between the resulting complexes and some N-nitrosamines were studied using X-ray crystallography as well as emission spectroscopy. Upon complexation, three ...