Publications

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]
From the Merrill group:

Shearn CT, Fennimore B, Orlicky DJ, Gao YR, Saba LM, Battista KD, Aivazidis S, Assiri M, Harris PS, Michel C, Merrill GF, Schmidt EE, Colgan SP, Petersen DR. (2019)

Cholestatic liver disease results increased production of reactive aldehydes and an atypical periportal hepatic antioxidant response.

Free Radic Biol Med. Aug 1;143:101-114. doi: 10.1016/j.freeradbiomed.2019.07.036. [Epub ahead of print]
From the Franco group:

Robinson MM, Sather BK, Burney ER, Ehrlicher SE, Stierwalt HD, Franco MC, Newsom SA. (2019)

Robust intrinsic differences in mitochondrial respiration and H2O2 emission between L6 and C2C12 cells.

Am J Physiol Cell Physiol. Aug 1. 317(2):C339-C347. doi: 10.1152/ajpcell.00343.2018. Epub May 15.
From the Hendrix group:

Sall K, Dekkers BJW, Nonogaki M, Katsuragawa Y, Koyari R, Hendrix D, Willems LAJ, Bentsink L, Nonogaki H. (2019)

DELAY OF GERMINATION1-LIKE4 acts as an inducer of seed reserve accumulation.

Plant J. Jul 29. doi: 10.1111/tpj.14485. [Epub ahead of print]
From the Barbar & Hendrix group:

Jespersen N, Estelle A, Waugh N, Davey NE, Blikstad C, Ammon YC, Akhmanova A, Ivarsson Y, Hendrix DA, Barbar E. (2019)

Systematic identification of recognition motifs for the hub protein LC8.

Life Sci Alliance. Jul 2;2(4). pii: e201900366. doi: 10.26508/lsa.201900366. Print 2019 Aug.
From the Franco group:

Pestoni JC, Klingeman Plati S, Valdivia Camacho OD, Fuse MA, Onatunde M, Sparrow NA, Karajannis MA, Fernández-Valle C, Franco MC. (2019)

Peroxynitrite supports a metabolic reprogramming in merlin-deficient Schwann cells and promotes cell survival.

J Biol Chem. Jul 26;294(30):11354-11368. doi: 10.1074/jbc.RA118.007152. Epub 2019 Jun 6.
From the Mehl group:

Van Fossen EM, Bednar RM, Mehl RA. (2019)

Engineering Spatial Orthogonality into Protein Translation.

Biochemistry. Jul 25. doi: 10.1021/acs.biochem.9b00569. [Epub ahead of print]
From the Mehl & Cooley group:

Zhu P, Gafken PR, Mehl RA, Cooley RB. (2019)

A Highly Versatile Expression System for the Production of Multiply Phosphorylated Proteins.

ACS Chem Biol. Jul 19;14(7):1564-1572. doi: 10.1021/acschembio.9b00307. Epub 2019 Jun 17.
From the Mehl group:

Randall LM, Dalla Rizza J, Parsonage D, Santos J, Mehl RA, Lowther WT, Poole LB, Denicola A. (2019)

Unraveling the effects of peroxiredoxin 2 nitration; role of C-terminal tyrosine 193.

Free Radic Biol Med. Jul 16;141:492-501. doi: 10.1016/j.freeradbiomed.2019.07.016. [Epub ahead of print]
From the Freitag group:

Adpressa DA, Connolly LR, Konkel ZM, Neuhaus GF, Chang XL, Pierce BR, Smith KM, Freitag M, Loesgen S. (2019)

A metabolomics-guided approach to discover Fusarium graminearum metabolites after removal of a repressive histone modification.

Fungal Genet Biol. Jul 22;132:103256. doi: 10.1016/j.fgb.2019.103256. [Epub ahead of print]
From the Johnson group:

Bonventre JA, Holman C, Manchanda A, Codding SJ, Chau T, Huegel J, Barton C, Tanguay R, Johnson CP. (2019)

Fer1l6 is essential for the development of vertebrate muscle tissue in zebrafish.

Mol Biol Cell. Feb 1;30(3):293-301. doi: 10.1091/mbc.E18-06-0401.
From the Hendrix group:

Hill ST, Kuintzle R, Teegarden A, Merrill E 3rd, Danaee P, Hendrix DA. (2018)

A deep recurrent neural network discovers complex biological rules to decipher RNA protein-coding potential.

Nucleic Acids Res. Jul 9. doi: 10.1093/nar/gky567. [Epub ahead of print]
From the Hendrix group:

Danaee P, Rouches M, Wiley M, Deng D, Huang L, Hendrix D. (2018)

bpRNA: large-scale automated annotation and analysis of RNA secondary structure.

Nucleic Acids Res. Jun 20;46(11):5381-5394. doi: 10.1093/nar/gky285.

Biochemistry and Biophysics

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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.

Cholestatic liver disease results increased production of reactive aldehydes and an atypical periportal hepatic antioxidant response.

Robust intrinsic differences in mitochondrial respiration and H2O2 emission between L6 and C2C12 cells.

DELAY OF GERMINATION1-LIKE4 acts as an inducer of seed reserve accumulation.

Systematic identification of recognition motifs for the hub protein LC8.

Peroxynitrite supports a metabolic reprogramming in merlin-deficient Schwann cells and promotes cell survival.

Engineering Spatial Orthogonality into Protein Translation.

A Highly Versatile Expression System for the Production of Multiply Phosphorylated Proteins.

Unraveling the effects of peroxiredoxin 2 nitration; role of C-terminal tyrosine 193.

A metabolomics-guided approach to discover Fusarium graminearum metabolites after removal of a repressive histone modification.

Fer1l6 is essential for the development of vertebrate muscle tissue in zebrafish.

A deep recurrent neural network discovers complex biological rules to decipher RNA protein-coding potential.

bpRNA: large-scale automated annotation and analysis of RNA secondary structure.

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