Using phosphoproteomics data to understand cellular signaling: a comprehensive guide to bioinformatics resources

SR Savage, B Zhang - Clinical Proteomics, 2020 - Springer
Mass spectrometry-based phosphoproteomics is becoming an essential methodology for the
study of global cellular signaling. Numerous bioinformatics resources are available to …

Rapid aldosterone-mediated signaling in the DCT increases activity of the thiazide-sensitive NaCl cotransporter

L Cheng, SB Poulsen, Q Wu… - Journal of the …, 2019 - journals.lww.com
Background The NaCl cotransporter NCC in the kidney distal convoluted tubule (DCT)
regulates urinary NaCl excretion and BP. Aldosterone increases NaCl reabsorption via NCC …

De novo variants of CSNK2B cause a new intellectual disability-craniodigital syndrome by disrupting the canonical Wnt signaling pathway

M Asif, E Kaygusuz, M Shinawi, A Nickelsen… - Human Genetics and …, 2022 - cell.com
CSNK2B encodes for casein kinase II subunit beta (CK2β), the regulatory subunit of casein
kinase II (CK2), which is known to mediate diverse cellular pathways. Variants in this gene …

Deubiquitylation of protein cargo is not an essential step in exosome formation

AR Huebner, L Cheng, P Somparn, MA Knepper… - Molecular & Cellular …, 2016 - ASBMB
Exosomes, derived from multivesicular bodies (MVBs), contain proteins and genetic
materials from their cell of origin and are secreted from various cells types, including kidney …

Proteomic analysis of the kidney filtration barrier—problems and perspectives

MM Rinschen, T Benzing, K Limbutara… - PROTEOMICS …, 2015 - Wiley Online Library
Diseases of the glomerular filter of the kidney are a leading cause of end‐stage renal failure.
The kidney filter is localized within the renal glomeruli, small microvascular units that are …

N-degradomic analysis reveals a proteolytic network processing the podocyte cytoskeleton

MM Rinschen, AK Hoppe, F Grahammer… - Journal of the …, 2017 - journals.lww.com
Regulated intracellular proteostasis, controlled in part by proteolysis, is essential in
maintaining the integrity of podocytes and the glomerular filtration barrier of the kidney. We …

Phosphorylation of residues inside the SNARE complex suppresses secretory vesicle fusion

S Malmersjö, S Di Palma, J Diao, Y Lai… - The EMBO …, 2016 - embopress.org
Membrane fusion is essential for eukaryotic life, requiring SNARE proteins to zipper up in an
α‐helical bundle to pull two membranes together. Here, we show that vesicle fusion can be …

[HTML][HTML] Early targets of lithium in rat kidney inner medullary collecting duct include p38 and ERK1/2

F Trepiccione, T Pisitkun, JD Hoffert, SB Poulsen… - Kidney International, 2014 - Elsevier
Almost half of patients receiving lithium salts have nephrogenic diabetes insipidus. Chronic
lithium exposure induces AQP2 downregulation and changes in the cellular composition of …

Phosphoproteomic analysis reveals regulatory mechanisms at the kidney filtration barrier

MM Rinschen, X Wu, T König, T Pisitkun… - Journal of the …, 2014 - journals.lww.com
Diseases of the kidney filtration barrier are a leading cause of ESRD. Most disorders affect
the podocytes, polarized cells with a limited capacity for self-renewal that require tightly …

MS-REDUCE: an ultrafast technique for reduction of big mass spectrometry data for high-throughput processing

MG Awan, F Saeed - Bioinformatics, 2016 - academic.oup.com
Motivation: Modern proteomics studies utilize high-throughput mass spectrometers which
can produce data at an astonishing rate. These big mass spectrometry (MS) datasets can …