Publications

From the Nyarko group:

Kwok E, Rodriguez D.J, Kremerskothen J, and Nyarko A. (2019)

Intrinsic disorder and amino acid specificity modulate binding of the WW2 domain in kidney and brain protein (KIBRA) to synaptopodin.

J Biol Chem. Nov 15: 294(46):17383-17394. doi: 10.1074/jbc.RA119.009589. Epub 2019 Oct 9.
From the Gombart group:

Lowry M.B, Guo C, Zhang Y, Fantacone M.L, Logan I.E, Campbell Y, Zhang W, Le M, Indra A.K, Ganguli-Indra G, Xie J, Gallo R.L, Koeffler H.P, and Gombart A.F. (2019)

A mouse model for vitamin D-induced human cathelicidin antimicrobial peptide gene expression.

J Steroid Biochem Mol Biol. Nov 26: 105552. doi: 10.1016/j.jsbmb.2019.105552. [Epub ahead of print]
From the Gombart group:

Zhang Y, Bobe G, Revel JS, Rodrigues R, Sharpton T.J, Fantacone M.L, Miranda C.L, Lowry M.B, Blakemore P.R, Morgun A, Shulzhenko N, Maier C.S, Stevens J.F, and Gombart A.F. (2019)

Improvements in Metabolic Syndrome by Xanthohumol Derivatives are Linked to Altered Gut Microbiota and Bile Acid Metabolism.

Mol Nutr Food Res. Nov 22: e1900789. doi: 10.1002/mnfr.201900789. [Epub ahead of print]
From the Mathews group:

Mathews CK. (2019)

Deoxyribonucleotide salvage falls short in whole animals.

J Biol Chem. Nov 1;294(44):15898-15899. doi: 10.1074/jbc.H119.011335.
From the Barbar group:

Jespersen NE, Leyrat C, Gérard FC, Bourhis JM, Blondel D, Jamin M, Barbar E. (2019)

The LC8-RavP ensemble structure evinces a role for LC8 in regulating Lyssavirus polymerase functionality.

J Mol Biol. Oct 18. pii: S0022-2836(19)30607-2. doi: 10.1016/j.jmb.2019.10.011. [Epub ahead of print]
From the Mehl group:

Tugaeva KV, Kalacheva DI, Cooley RB, Strelkov SV, Sluchanko NN. (2019)

Concatenation of 14-3-3 with partner phosphoproteins as a tool to study their interaction.

Sci Rep. Oct 18;9(1):15007. doi: 10.1038/s41598-019-50941-3.
From the Hendrix group:

Bell J, Larson M, Kutzler M, Bionaz M, Löhr CV, Hendrix D. (2019)

miRWoods: Enhanced precursor detection and stacked random forests for the sensitive detection of microRNAs.

PLoS Comput Biol. Oct 9;15(10):e1007309. doi: 10.1371/journal.pcbi.1007309. eCollection 2019 Oct.
From the Johnson group:

Golbek TW, Padmanarayana M, Roeters SJ, Weidner T, Johnson CP, Baio JE. (2019)

Otoferlin C2F Domain-Induced Changes in Membrane Structure Observed by Sum Frequency Generation.

Biophys J. Sep 17. pii: S0006-3495(19)30784-2. doi: 10.1016/j.bpj.2019.09.010. [Epub ahead of print]
From the Johnson group:

Manchanda A, Chatterjee P, Bonventre JA, Haggard DE, Kindt KS, Tanguay RL, Johnson CP. (2019)

Otoferlin Depletion Results in Abnormal Synaptic Ribbons and Altered Intracellular Calcium Levels in Zebrafish.

Sci Rep. Oct 3;9(1):14273. doi: 10.1038/s41598-019-50710-2.
From the Mehl group:

Bednar RM, Golbek TW, Kean KM, Brown WJ, Jana S, Baio JE, Karplus PA, Mehl RA. (2019)

Immobilization of Proteins with Controlled Load and Orientation.

ACS Appl Mater Interfaces. Sep 26. doi: 10.1021/acsami.9b12746.
From the Hendrix group:

Huang L, Zhang H, Deng D, Zhao K, Liu K, Hendrix DA, Mathews DH. (2019)

LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search.

Bioinformatics. Jul 15;35(14):i295-i304. doi: 10.1093/bioinformatics/btz375.
From the Gombart group:

Kulkarni NN, Takahashi T, Sanford JA, Tong Y, Gombart AF, Hinds B, Cheng JY, Gallo RL. (2019)

Innate immune dysfunction in rosacea promotes photosensitivity and vascular adhesion molecule expression.

J Invest Dermatol. Aug 28. pii: S0022-202X(19)33154-9. doi: 10.1016/j.jid.2019.08.436. [Epub ahead of print]
From the Hendrix group:

Ritter N, Ali T, Kopitchinski N, Schuster P, Beisaw A, Hendrix DA, Schulz MH, Müller-McNicoll M, Dimmeler S, Grote P. (2019)

The lncRNA Locus Handsdown Regulates Cardiac Gene Programs and Is Essential for Early Mouse Development.

Dev Cell. Aug 12. pii: S1534-5807(19)30585-4. doi: 10.1016/j.devcel.2019.07.013. [Epub ahead of print]
From the Beckman group:

Kovacs M, Trias E, Varela V, Ibarburu S, Beckman JS, Moura IC, Hermine O, King PH, Si Y, Kwon Y, Barbeito L. (2019)

CD34 Identifies a Subset of Proliferating Microglial Cells Associated with Degenerating Motor Neurons in ALS.

Int J Mol Sci. Aug 9;20(16). pii: E3880. doi: 10.3390/ijms20163880
From the Gombart group:

Chen S, Ge L, Wang H, Cheng Y, Gorantla S, Poluektova LY, Gombart AF, Xie J. (2019)

Eluted 25-hydroxyvitamin D3 from Radially aligned Nanofiber Scaffolds Enhances Cathelicidin Production While Reducing Inflammatory Response in Human Immune System-Engrafted Mice.

Acta Biomater. Aug 3. pii: S1742-7061(19)30552-5. doi: 10.1016/j.actbio.2019.08.005. [Epub ahead of print]

Biochemistry and Biophysics

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Intrinsic disorder and amino acid specificity modulate binding of the WW2 domain in kidney and brain protein (KIBRA) to synaptopodin.

A mouse model for vitamin D-induced human cathelicidin antimicrobial peptide gene expression.

Improvements in Metabolic Syndrome by Xanthohumol Derivatives are Linked to Altered Gut Microbiota and Bile Acid Metabolism.

Deoxyribonucleotide salvage falls short in whole animals.

The LC8-RavP ensemble structure evinces a role for LC8 in regulating Lyssavirus polymerase functionality.

Concatenation of 14-3-3 with partner phosphoproteins as a tool to study their interaction.

miRWoods: Enhanced precursor detection and stacked random forests for the sensitive detection of microRNAs.

Otoferlin C2F Domain-Induced Changes in Membrane Structure Observed by Sum Frequency Generation.

Otoferlin Depletion Results in Abnormal Synaptic Ribbons and Altered Intracellular Calcium Levels in Zebrafish.

Immobilization of Proteins with Controlled Load and Orientation.

LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search.

Innate immune dysfunction in rosacea promotes photosensitivity and vascular adhesion molecule expression.

The lncRNA Locus Handsdown Regulates Cardiac Gene Programs and Is Essential for Early Mouse Development.

CD34 Identifies a Subset of Proliferating Microglial Cells Associated with Degenerating Motor Neurons in ALS.

Eluted 25-hydroxyvitamin D3 from Radially aligned Nanofiber Scaffolds Enhances Cathelicidin Production While Reducing Inflammatory Response in Human Immune System-Engrafted Mice.

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