List of works by Shabaz Mohammed

A PP2A-B55 recognition signal controls substrate dephosphorylation kinetics during mitotic exit.

scientific article published on 22 August 2016

A large synthetic peptide and phosphopeptide reference library for mass spectrometry-based proteomics

scientific article

A receptor for the complement regulator factor H increases transmission of trypanosomes to tsetse flies

scientific article published on 12 March 2020

A role for PtdIns(4,5)P2 and PIP5Kalpha in regulating stress-induced apoptosis

scientific article

A systematic approach to modeling, capturing, and disseminating proteomics experimental data

scientific article

A systems-wide screen identifies substrates of the SCF TrCP ubiquitin ligase

scientific article published on 16 December 2014

A three-way proteomics strategy allows differential analysis of yeast mitochondrial membrane protein complexes under anaerobic and aerobic conditions

scientific article published in October 2009

A unique residue in rab3c determines the interaction with novel binding protein Zwint-1.

scientific article

Activation of FoxM1 during G2 requires cyclin A/Cdk-dependent relief of autorepression by the FoxM1 N-terminal domain

scientific article

An optimized protocol for metabolome analysis in yeast using direct infusion electrospray mass spectrometry

scientific article published in March 2003

Applications of stable isotope dimethyl labeling in quantitative proteomics

scientific article published on 27 May 2012

Assessing biological variation and protein processing in primary human leukocytes by automated multiplex stable isotope labeling coupled to 2 dimensional peptide separation

scientific article published on 06 May 2009

Atorvastatin modulates the profile of proteins released by human atherosclerotic plaques

scientific article published on 8 February 2007

Automated online sequential isotope labeling for protein quantitation applied to proteasome tissue-specific diversity

scientific article published on 4 June 2008

Benchmarking stable isotope labeling based quantitative proteomics

scientific article published on 22 October 2012

Characterization and usage of the EASY-spray technology as part of an online 2D SCX-RP ultra-high pressure system

scientific article published in December 2014

Characterization of biases in phosphopeptide enrichment by Ti(4+)-immobilized metal affinity chromatography and TiO2 using a massive synthetic library and human cell digests

scientific article

Characterization of electron transfer dissociation in the Orbitrap Velos HCD cell

scientific article published on 20 April 2013

Chemical Proteomics and Phenotypic Profiling Identifies the Aryl Hydrocarbon Receptor as a Molecular Target of the Utrophin Modulator Ezutromid

scientific article published on 03 January 2020

Chip-Based Enrichment and NanoLC-MS/MS Analysis of Phosphopeptides from Whole Lysates.

scientific article

Cleavage specificities of the brother and sister proteases Lys-C and Lys-N.

scientific article published on 18 October 2010

Collaboration of AMPK and PKC to induce phosphorylation of Ser413 on PIP5K1B resulting in decreased kinase activity and reduced PtdIns(4,5)P2 synthesis in response to oxidative stress and energy restriction

scientific article published in November 2013

Combining Deep Sequencing, Proteomics, Phosphoproteomics, and Functional Screens To Discover Novel Regulators of Sphingolipid Homeostasis

scientific article published on 29 November 2016

Comparative phosphoproteomic analysis of checkpoint recovery identifies new regulators of the DNA damage response.

scientific article published on 23 April 2013

Comparative phosphoproteomics of zebrafish Fyn/Yes morpholino knockdown embryos

scientific article published on 11 June 2008

Coupled activation and degradation of eEF2K regulates protein synthesis in response to genotoxic stress

scientific article published on 05 June 2012

Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium.

scientific article published on 28 February 2012

Database independent proteomics analysis of the ostrich and human proteome.

scientific article published on 22 December 2011

Datasets from an interaction proteomics screen for substrates of the SCF(βTrCP) ubiquitin ligase

scientific article published on 10 June 2015

Deconvolution of overlapping isotopic clusters improves quantification of stable isotope-labeled peptides.

scientific article published on 15 May 2011

Dimer interface of bovine cytochrome c oxidase is influenced by local posttranslational modifications and lipid binding

scientific article published on 30 June 2016

Dimethyl isotope labeling assisted de novo peptide sequencing ⬇️

scientific article published on August 21, 2010

Doxorubicin-induced DNA damage causes extensive ubiquitination of ribosomal proteins associated with a decrease in protein translation.

scientific article published on 8 February 2018

Effect of chemical modifications on peptide fragmentation behavior upon electron transfer induced dissociation.

scientific article

Enhancing the identification of phosphopeptides from putative basophilic kinase substrates using Ti (IV) based IMAC enrichment

scientific article

Evaluation and Optimization of ZIC-HILIC-RP as an Alternative MudPIT Strategy

article by Paul J. Boersema et al published March 2007 in Journal of Proteome Research

Evaluation of metalloendopeptidase Lys-N protease performance under different sample handling conditions

scientific article published in August 2010

Evaluation of the Deuterium Isotope Effect in Zwitterionic Hydrophilic Interaction Liquid Chromatography Separations for Implementation in a Quantitative Proteomic Approach

scientific article published on 30 September 2011

Exploring new proteome space: combining Lys-N proteolytic digestion and strong cation exchange (SCX) separation in peptide-centric MS-driven proteomics

scientific article published in January 2011

Exploring the human leukocyte phosphoproteome using a microfluidic reversed-phase-TiO2-reversed-phase high-performance liquid chromatography phosphochip coupled to a quadrupole time-of-flight mass spectrometer

scientific article

Fully automated isotopic dimethyl labeling and phosphopeptide enrichment using a microfluidic HPLC phosphochip.

scientific article published on 14 September 2012

Generation of a synthetic GlcNAcylated nucleosome reveals regulation of stability by H2A-Thr101 GlcNAcylation

scientific article

Genetic Incorporation of Olefin Cross-Metathesis Reaction Tags for Protein Modification

scientific article published on 29 October 2018

Global analysis of RNA-binding protein dynamics by comparative and enhanced RNA interactome capture

scientific article published on 18 November 2020

Guanidination chemistry for qualitative and quantitative proteomics

scientific article

HGF signaling regulates Claudin-3 dynamics through its C-terminal tyrosine residues

scientific article published on October 2013

Highly Efficient Depletion Strategy for the Two Most Abundant Erythrocyte Soluble Proteins Improves Proteome Coverage Dramatically

scientific article published on 22 May 2008

Highly robust, automated, and sensitive online TiO2-based phosphoproteomics applied to study endogenous phosphorylation in Drosophila melanogaster.

scientific article published on 23 November 2007

Highly sensitive proteome analysis of FACS-sorted adult colon stem cells

scientific article

Hydrophilic interaction liquid chromatography (HILIC) in proteomics.

scientific article published on 09 February 2008

Identification of ischemia-regulated phosphorylation sites in connexin43: A possible target for the antiarrhythmic peptide analogue rotigaptide (ZP123).

scientific article published on 5 May 2006

Identification of salt-tolerant Sinorhizobium sp. strain BL3 membrane proteins based on proteomics

scientific article

Improved identification of endogenous peptides from murine nervous tissue by multiplexed peptide extraction methods and multiplexed mass spectrometric analysis

scientific article published in February 2009

Improved peptide identification by targeted fragmentation using CID, HCD and ETD on an LTQ-Orbitrap Velos.

scientific article published on April 2011

Improving SRM assay development: a global comparison between triple quadrupole, ion trap, and higher energy CID peptide fragmentation spectra.

scientific article

Improving depth in phosphoproteomics by using a strong cation exchange-weak anion exchange-reversed phase multidimensional separation approach

scientific article

In-depth quantitative cardiac proteomics combining electron transfer dissociation and the metalloendopeptidase Lys-N with the SILAC mouse

scientific article

In-house construction of a UHPLC system enabling the identification of over 4000 protein groups in a single analysis

scientific article published on 25 June 2012

Lgr5 homologues associate with Wnt receptors and mediate R-spondin signalling

scientific article

Ligand binding to a G protein-coupled receptor captured in a mass spectrometer

scientific article published on 16 June 2017

Light-driven post-translational installation of reactive protein side chains

scientific article published on 23 September 2020

Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach

scientific article

LysNDeNovo: an algorithm enabling de novo sequencing of Lys-N generated peptides fragmented by electron transfer dissociation

scientific article published in March 2010

MAP3K1 functionally interacts with Axin1 in the canonical Wnt signalling pathway.

scientific article

Modification-specific proteomics of plasma membrane proteins: identification and characterization of glycosylphosphatidylinositol-anchored proteins released upon phospholipase D treatment.

scientific article published in April 2006

Monitoring the Disassembly of Virus-like Particles by 19F-NMR.

scientific article published on 28 March 2017

Multiplex peptide stable isotope dimethyl labeling for quantitative proteomics.

scientific article published in January 2009

Multiplexed proteomics mapping of yeast RNA polymerase II and III allows near-complete sequence coverage and reveals several novel phosphorylation sites

scientific article published on 17 April 2008

Novel protein phosphorylation site identification in spinach stroma membranes by titanium dioxide microcolumns and tandem mass spectrometry

scientific article

Nuclear PtdIns5P as a transducer of stress signaling: an in vivo role for PIP4Kbeta

scientific article

Nuclear phosphorylated Dicer processes double-stranded RNA in response to DNA damage

scientific article published on 22 June 2017

On the Statistical Significance of Compressed Ratios in Isobaric Labeling: A Cross-Platform Comparison

scientific article published on 25 July 2016

Online automated in vivo zebrafish phosphoproteomics: from large-scale analysis down to a single embryo

scientific article

Optimal Synthetic Glycosylation of a Therapeutic Antibody

scientific article published on 12 February 2016

Peptide orientation affects selectivity in ion-exchange chromatography

scientific article

Personalized Proteome Profiles of Healthy and Tumor Human Colon Organoids Reveal Both Individual Diversity and Basic Features of Colorectal Cancer

scientific article published on January 2017

Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels

scientific article

Phosphopeptide fragmentation and analysis by mass spectrometry

scientific article published on June 2009

Phosphoproteomics

scientific article published on 15 January 2014

Phosphorylation of Not4p functions parallel to BUR2 to regulate resistance to cellular stresses in Saccharomyces cerevisiae

scientific article

Posttranslational mutagenesis: A chemical strategy for exploring protein side-chain diversity.

scientific article published on 22 September 2016

Probing genuine strong interactions and post-translational modifications in the heterogeneous yeast exosome protein complex.

scientific article

Profiling of N-acetylated protein termini provides in-depth insights into the N-terminal nature of the proteome

scientific article

Profiling of diet-induced neuropeptide changes in rat brain by quantitative mass spectrometry

scientific article published on 26 April 2013

Protease bias in absolute protein quantitation.

scientific article published on 30 May 2012

Proteasome-dependent degradation of transcription factor activating enhancer-binding protein 4 (TFAP4) controls mitotic division

scientific article

Protein phosphatase 2A (B55α) prevents premature activation of forkhead transcription factor FoxM1 by antagonizing cyclin A/cyclin-dependent kinase-mediated phosphorylation.

scientific article published on 03 August 2011

Proteome Adaptation of Saccharomyces cerevisiae to Severe Calorie Restriction in Retentostat Cultures

article

Quantitative Map of Proteome Dynamics during Neuronal Differentiation.

scientific article published on February 2017

Quantitative Phosphoproteomics of Early Elicitor Signaling inArabidopsis

scientific article published on 21 February 2007

Quantitative and qualitative proteome characteristics extracted from in-depth integrated genomics and proteomics analysis.

scientific article published on 27 November 2013

Quantitative global phosphoproteomics of human umbilical vein endothelial cells after activation of the Rap signaling pathway

scientific article published in April 2013

Quantitative phosphoproteomics after auxin-stimulated lateral root induction identifies an SNX1 protein phosphorylation site required for growth

scientific article published on 17 January 2013

Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway

scientific article published on 22 January 2005

Quantitative proteomics identifies Gemin5, a scaffolding protein involved in ribonucleoprotein assembly, as a novel partner for eukaryotic initiation factor 4E

scientific article

Rapid analyses of proteomes and interactomes using an integrated solid-phase extraction-liquid chromatography-MS/MS system.

scientific article published on 8 December 2014

Recent advances in peptide separation by multidimensional liquid chromatography for proteome analysis.

scientific article published on 04 May 2012

Recovery from a DNA-damage-induced G2 arrest requires Cdk-dependent activation of FoxM1.

scientific article published on 9 April 2010

Regulation of retromer recruitment to endosomes by sequential action of Rab5 and Rab7.

scientific article

Robust phosphoproteome enrichment using monodisperse microsphere-based immobilized titanium (IV) ion affinity chromatography

scientific article

RockerBox: analysis and filtering of massive proteomics search results.

scientific article

Selective Metal-Site-Guided Arylation of Proteins.

scientific article published on 23 June 2016

Selectivity in enrichment of cAMP-dependent protein kinase regulatory subunits type I and type II and their interactors using modified cAMP affinity resins.

scientific article published on 31 December 2008

Serum protein profiling by miniaturized solid-phase extraction and matrix-assisted laser desorption/ionization mass spectrometry

scientific article published in January 2005

Signal Transduction Reaction Monitoring Deciphers Site-Specific PI3K-mTOR/MAPK Pathway Dynamics in Oncogene-Induced Senescence.

scientific article published on 2 June 2015

Straightforward and de novo peptide sequencing by MALDI-MS/MS using a Lys-N metalloendopeptidase.

scientific article

Straightforward ladder sequencing of peptides using a Lys-N metalloendopeptidase.

scientific article

Strong cation exchange (SCX) based analytical methods for the targeted analysis of protein post-translational modifications ⬇️

scientific article published on October 12, 2010

Strong cation exchange-based fractionation of Lys-N-generated peptides facilitates the targeted analysis of post-translational modifications

scientific article published on 29 September 2008

Structural characterization of KKT4, an unconventional microtubule-binding kinetochore protein

scientific article published on 28 April 2021

Synthetic Nucleosomes Reveal that GlcNAcylation Modulates Direct Interaction with the FACT Complex

scientific article (publication date: 25 July 2016)

Synthetic phosphorylation of p38α recapitulates protein kinase activity

scientific article published on 27 January 2014

Synthetic post-translational modification of histones.

scientific article published on 28 February 2018

System-wide analyses of the fission yeast poly(A)+ RNA interactome reveal insights into organization and function of RNA-protein complexes

scientific article published on 18 June 2020

Targeted analysis of protein termini.

scientific article

The CRAPome: a contaminant repository for affinity purification-mass spectrometry data

scientific article

The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent '+4' cell markers

scientific article published on 12 June 2012

The Tyrosine Phosphatase Shp2 Interacts with NPM-ALK and Regulates Anaplastic Lymphoma Cell Growth and Migration

scientific article published on 01 May 2007

The anti-sigma factor RsrA responds to oxidative stress by reburying its hydrophobic core

scientific article published on 19 July 2016

The generating function of CID, ETD, and CID/ETD pairs of tandem mass spectra: applications to database search

scientific article

The kinase TNIK is an essential activator of Wnt target genes

scientific article

The leukemia-associated Mllt10/Af10-Dot1l are Tcf4/β-catenin coactivators essential for intestinal homeostasis

scientific article

The role of the Xist 5' m6A region and RBM15 in X chromosome inactivation

scientific article published on 17 February 2020

Threonine Phosphorylation of IκBζ Mediates Inhibition of Selective Proinflammatory Target Genes

scientific article published on 06 February 2020

Toward a comprehensive characterization of a human cancer cell phosphoproteome.

scientific article published on 18 December 2012

Toward an Optimized Workflow for Middle-Down Proteomics

scientific article published on 24 February 2017

Toward full peptide sequence coverage by dual fragmentation combining electron-transfer and higher-energy collision dissociation tandem mass spectrometry.

scientific article published on 31 October 2012

Triplex protein quantification based on stable isotope labeling by peptide dimethylation applied to cell and tissue lysates

scientific article

Tumour suppressor RNF43 is a stem-cell E3 ligase that induces endocytosis of Wnt receptors

scientific article published on 30 August 2012

USP17- and SCFβTrCP--regulated degradation of DEC1 controls the DNA damage response

scientific article

Ultra acidic strong cation exchange enabling the efficient enrichment of basic phosphopeptides.

scientific article

Unambiguous phosphosite localization using electron-transfer/higher-energy collision dissociation (EThcD)

scientific article

Universal quantitative kinase assay based on diagonal SCX chromatography and stable isotope dimethyl labeling provides high-definition kinase consensus motifs for PKA and human Mps1.

scientific article

Wnt signaling through inhibition of β-catenin degradation in an intact Axin1 complex

scientific article

ZIC-cHILIC as a fractionation method for sensitive and powerful shotgun proteomics

scientific article published on 25 October 2012

Zwitterionic hydrophilic interaction liquid chromatography (ZIC-HILIC and ZIC-cHILIC) provide high resolution separation and increase sensitivity in proteome analysis

scientific article published on 28 March 2011

eIF2 interactions with initiator tRNA and eIF2B are regulated by post-translational modifications and conformational dynamics

scientific article (publication date: 2015)

p130Cas mediates the transforming properties of the anaplastic lymphoma kinase

scientific article

β2-Syntrophin is a Cdk5 substrate that restrains the motility of insulin secretory granules

scientific article

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