Search Results - "Kall, L."

Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server by Käll, Lukas, Krogh, Anders, Sonnhammer, Erik L.L

“…When using conventional transmembrane topology and signal peptide predictors, such as TMHMM and SignalP, there is a substantial overlap between these two types…”
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Satisfaction with upper limb reconstructive surgery in individuals with tetraplegia: the development and reliability of a Swedish self-reported satisfaction questionnaire by Bunketorp-Käll, L, Wangdell, J, Reinholdt, C, Fridén, J

“…Study design: A questionnaire-based survey. Objectives: To assess satisfaction after upper limb reconstructive surgery in individuals with tetraplegia and to…”
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Paramagnetic Ions Enable Tuning of Nuclear Relaxation Rates and Provide Long-Range Structural Restraints in Solid-State NMR of Proteins by Nadaud, Philippe S, Helmus, Jonathan J, Kall, Stefanie L, Jaroniec, Christopher P

“…Magic-angle-spinning solid-state nuclear magnetic resonance (SSNMR) studies of natively diamagnetic uniformly 13C,15N-enriched proteins, intentionally modified…”
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Essential gains and health after upper-limb tetraplegia surgery identified by the International classification of functioning, disability and health (ICF) by Bunketorp-Käll, L, Reinholdt, C, Fridén, J, Wangdell, J

“…Study Design: A questionnaire-based survey. Objectives: To describe functional gains and health following upper-limb tetraplegia surgery using the…”
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Identification of two distinct peptide-binding pockets in the SH3 domain of human mixed-lineage kinase 3 by Kokoszka, Malgorzata E., Kall, Stefanie L., Khosla, Sehar, McGinnis, Jennifer E., Lavie, Arnon, Kay, Brian K.

“…Mixed-lineage kinase 3 (MLK3; also known as MAP3K11) is a Ser/Thr protein kinase widely expressed in normal and cancerous tissues, including brain, lung,…”
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An HMM posterior decoder for sequence feature prediction that includes homology information by Käll, Lukas, Krogh, Anders, Sonnhammer, Erik L. L.

“…Motivation: When predicting sequence features like transmembrane topology, signal peptides, coil–coil structures, protein secondary structure or genes, extra…”
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Identification of a Unique Inhibitor-Binding Site on Choline Kinase α by Kall, Stefanie L, Delikatny, Edward J, Lavie, Arnon

“…Choline kinase α (ChoKα) is an enzyme that is upregulated in many types of cancer and has been shown to be tumorigenic. As such, it makes a promising target…”
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Molecular basis for the interaction between human choline kinase alpha and the SH3 domain of the c-Src tyrosine kinase by Kall, Stefanie L., Whitlatch, Kindra, Smithgall, Thomas E., Lavie, Arnon

“…Choline kinase alpha is a 457-residue protein that catalyzes the reaction between ATP and choline to yield ADP and phosphocholine. This metabolic action has…”
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Generating a recombinant phosphothreonine-binding domain for a phosphopeptide of the human transcription factor, c-Myc by Venegas, Leon A., Kall, Stefanie L., Bankole, Oluwadamilola, Lavie, Arnon, Kay, Brian K.

“…•The FHA1 library yielded a reagent against a peptide from c-Myc.•The Myc-pTBD’s molecular determinants of specificity were identified.•The Myc-pTBD is…”
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The Significance of Pain Drawing as a Screening Tool for Cervicogenic Headache and Associated Symptoms in Chronic Fatigue by Bernhoff, Gabriella, Huhmar, Helena M, Rasmussen-Barr, Eva, Kall, Lina Bunketorp

“…Purpose: Patients with myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) present with a broad spectrum of symptoms, including headache. A simple, yet…”
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DeMix-Q: Quantification-Centered Data Processing Workflow by Zhang, Bo, Käll, Lukas, Zubarev, Roman A.

“…For historical reasons, most proteomics workflows focus on MS/MS identification but consider quantification as the end point of a comparative study. The…”
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HiRIEF LC-MSMS enables deep proteome coverage and unbiased proteogenomics by Branca, Rui M. M., Orre, Lukas M., Johansson, Henrik J., Granholm, Viktor, Huss, Mikael, Perez-Bercoff, Åsa, Forshed, Jenny, Käll, Lukas, Lehtiö, Janne

“…We present a liquid chromatography-mass spectrometry (LC-MSMS)-based method permitting unbiased (gene prediction-independent) genome-wide discovery of…”
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Spatial multimodal analysis of transcriptomes and metabolomes in tissues by Vicari, Marco, Mirzazadeh, Reza, Nilsson, Anna, Shariatgorji, Reza, Bjärterot, Patrik, Larsson, Ludvig, Lee, Hower, Nilsson, Mats, Foyer, Julia, Ekvall, Markus, Czarnewski, Paulo, Zhang, Xiaoqun, Svenningsson, Per, Käll, Lukas, Andrén, Per E., Lundeberg, Joakim

“…We present a spatial omics approach that combines histology, mass spectrometry imaging and spatial transcriptomics to facilitate precise measurements of mRNA…”
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Covariation of Peptide Abundances Accurately Reflects Protein Concentration Differences by Zhang, Bo, Pirmoradian, Mohammad, Zubarev, Roman, Käll, Lukas

“…Most implementations of mass spectrometry-based proteomics involve enzymatic digestion of proteins, expanding the analysis to multiple proteolytic peptides for…”
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HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics by Branca, Rui M M, Orre, Lukas M, Johansson, Henrik J, Granholm, Viktor, Huss, Mikael, Pérez-Bercoff, Åsa, Forshed, Jenny, Käll, Lukas, Lehtiö, Janne

“…High-resolution isoelectric focusing (HiRIEF) of peptides followed by mass spectrometry analysis, combined with accurate peptide pI prediction, allows a…”
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Multi-omic data analysis using Galaxy by Boekel, Jorrit, Chilton, John M, Cooke, Ira R, Horvatovich, Peter L, Jagtap, Pratik D, Käll, Lukas, Lehtiö, Janne, Lukasse, Pieter, Moerland, Perry D, Griffin, Timothy J

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A Combined Transmembrane Topology and Signal Peptide Prediction Method by Käll, Lukas, Krogh, Anders, Sonnhammer, Erik L.L

“…An inherent problem in transmembrane protein topology prediction and signal peptide prediction is the high similarity between the hydrophobic regions of a…”
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Survival analysis of pathway activity as a prognostic determinant in breast cancer by Jeuken, Gustavo S, Tobin, Nicholas P, Käll, Lukas

“…High throughput biology enables the measurements of relative concentrations of thousands of biomolecules from e.g. tissue samples. The process leaves the…”
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Membrane topology of the Drosophila OR83b odorant receptor by Lundin, Carolina, Käll, Lukas, Kreher, Scott A., Kapp, Katja, Sonnhammer, Erik L., Carlson, John R., von Heijne, Gunnar, Nilsson, IngMarie

“…By analogy to mammals, odorant receptors (ORs) in insects, such as Drosophila melanogaster, have long been thought to belong to the G-protein coupled receptor…”
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A general model of G protein‐coupled receptor sequences and its application to detect remote homologs by Wistrand, Markus, Käll, Lukas, Sonnhammer, Erik L.L.

“…G protein‐coupled receptors (GPCRs) constitute a large superfamily involved in various types of signal transduction pathways triggered by hormones, odorants,…”
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