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1. Full Text The International Human Epigenome Consortium: A Blueprint for Scientific Collaboration and Discovery
by Stunnenberg, Hendrik G and Abrignani, Sergio and Adams, David and de Almeida, Melanie and Altucci, Lucia and Amin, Viren and Amit, Ido and Antonarakis, Stylianos E and Aparicio, Samuel and Arima, Takahiro and Arrigoni, Laura and Arts, Rob and Asnafi, Vahid and Esteller, Manel and Bae, Jae-Bum and Bassler, Kevin and Beck, Stephan and Berkman, Benjamin and Bernstein, Bradley E and Bilenky, Mikhail and Bird, Adrian and Bock, Christoph and Boehm, Bernhard and Bourque, Guillaume and Breeze, Charles E and Brors, Benedikt and Bujold, David and Burren, Oliver and Bussemakers, Marion J and Butterworth, Adam and Campo, Elias and Carrillo-de-Santa-Pau, Enrique and Chadwick, Lisa and Chan, Kui Ming and Chen, Wei and Cheung, Tom H and Chiapperino, Luca and Choi, Nak Hyen and Chung, Ho-Ryun and Clarke, Laura and Connors, Joseph M and Cronet, Philippe and Danesh, John and Dermitzakis, Manolis and Drewes, Gerard and Durek, Pawel and Dyke, Stephanie and Dylag, Tomasz and Eaves, Connie J and Ebert, Peter and Eils, Roland and Eils, Jürgen and Ennis, Catherine A and Enver, Tariq and Feingold, Elise A and Felder, Bärbel and Ferguson-Smith, Anne and Fitzgibbon, Jude and Flicek, Paul and Foo, Roger S.-Y and Fraser, Peter and Frontini, Mattia and Furlong, Eileen and Gakkhar, Sitanshu and Gasparoni, Gilles and Gasparoni, Nina and Geschwind, Daniel H and Glažar, Petar and Graf, Thomas and Grosveld, Frank and Guan, Xin-Yuan and Guigo, Roderic and Gut, Ivo G and Hamann, Alf and Han, Bok-Ghee and Harris, R. Alan and Heath, Simon and Helin, Kristian and Hengstler, Jan G and Heravi-Moussavi, Alireza and Herrup, Karl and Hill, Steven and Hilton, Jason A and Hitz, Benjamin C and Horsthemke, Bernhard and Hu, Ming and Hwang, Joo-Yeon and Ip, Nancy Y and Ito, Takashi and Javierre, Biola-Maria and Jenko, Sasa and Jenuwein, Thomas and Joly, Yann and Jones, Steven J.M and Kanai, Yae and Kang, Hee Gyung and Karsan, Aly and Kiemer, Alexandra K and Kim, Song Cheol and Kim, Hyeon-Hoe and ... and Int Human Epigenome Consortium and International Human Epigenome Consortium
Cell, ISSN 0092-8674, 11/2016, Volume 167, Issue 5, pp. 1145 - 1149
The International Human Epigenome Consortium (IHEC) coordinates the generation of a catalog of high-resolution reference epigenomes of major primary human cell... 
LINKS | VARIANTS | REVEAL | BIOCHEMISTRY & MOLECULAR BIOLOGY | EPIGENETIC STATE | CELL BIOLOGY | DNA Methylation | Epigenomics | Disease - genetics | Epigenesis, Genetic | Humans | Databases, Genetic | Histone Code | Genome, Human | Epigenetic inheritance | Cells | Web portals | Index Medicus | Epigenetics | ADN | Human genome | DNA | Genoma humà | Epigenètica
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2. Full Text Epigenomic Profiling of Human CD4+ T Cells Supports a Linear Differentiation Model and Highlights Molecular Regulators of Memory Development
by Durek, Pawel and Nordström, Karl and Gasparoni, Gilles and Gasparoni, Nina and Salhab, Abdulrahman and Kressler, Christopher and de Almeida, Melanie and Bassler, Kevin and Ulas, Thomas and Schmidt, Florian and Xiong, Jieyi and Glažar, Petar and Klironomos, Filippos and Sinha, Anupam and Kinkley, Sarah and Yang, Xinyi and Arrigoni, Laura and Amirabad, Azim Dehghani and Ardakani, Fatemeh Behjati and Feuerbach, Lars and Gorka, Oliver and Ebert, Peter and Müller, Fabian and Li, Na and Frischbutter, Stefan and Schlickeiser, Stephan and Cendon, Carla and Fröhler, Sebastian and Felder, Bärbel and Imbusch, Charles D and Hutter, Barbara and Zipprich, Gideon and Tauchmann, Yvonne and Reinke, Simon and Wassilew, Georgi and Hoffmann, Ute and Richter, Andreas S and Sieverling, Lina and Chang, Hyun-Dong and Syrbe, Uta and Kalus, Ulrich and Eils, Jürgen and Brors, Benedikt and Manke, Thomas and Ruland, Jürgen and Lengauer, Thomas and Rajewsky, Nikolaus and Chen, Wei and Dong, Jun and Sawitzki, Birgit and Chung, Ho-Ryun and Rosenstiel, Philip and Schulz, Marcel H and Schultze, Joachim L and Radbruch, Andreas and Walter, Jörn and Hamann, Alf and Polansky, Julia K and Deep Consortium and DEEP Consortium
Immunity, ISSN 1074-7613, 11/2016, Volume 45, Issue 5, pp. 1148 - 1161
The impact of epigenetics on the differentiation of memory T (Tmem) cells is poorly defined. We generated deep epigenomes comprising genome-wide profiles of... 
EFFECTOR | EPIGENETIC LANDSCAPE | CIRCULAR RNAS | RESIDENT | BONE-MARROW | REGIONS | GENE-EXPRESSION | SUBSETS | GLOBAL DNA METHYLATION | IMMUNOLOGY | SEQ | CD4-Positive T-Lymphocytes - immunology | Cell Differentiation - immunology | Flow Cytometry | Epigenomics - methods | Epigenesis, Genetic - immunology | Humans | Polymerase Chain Reaction | Transcriptome | Female | Gene Expression Profiling - methods | Machine Learning | Immunologic Memory - immunology | Studies | Consortia | Datasets | Cytokines | DNA methylation | Bone marrow | Epigenetics | Genomes | Gene expression | Deoxyribonucleic acid--DNA | Index Medicus
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3. Full Text NMR structure of µ-conotoxin GIIIC: Leucine 18 induces local repacking of the N-terminus resulting in reduced Nav channel potency
by Harvey, Peta J and Kurniawan, Nyoman D and Finol-Urdaneta, Rocio K and McArthur, Jeffrey R and Van Lysebetten, Dorien and Dash, Thomas S and Hill, Justine M and Adams, David J and Durek, Thomas and Craik, David J
Molecules, ISSN 1420-3049, 10/2018, Volume 23, Issue 10, p. 2715
μ-Conotoxins are potent and highly specific peptide blockers of voltage-gated sodium channels. In this study, the solution structure of μ-conotoxin GIIIC was... 
NMR | Voltage-gated sodium channel blocker | Protein structure | Μ-conotoxins | Peptides | Amino acids | Selectivity | Leucine | Crystallography | Channels | Magnetic resonance spectroscopy | Proteins | Spectrum analysis | Simulated annealing | Chemical bonds | Sodium channels (voltage-gated) | Polypeptides | Computer simulation | Muscles | Electrostatic properties | Skeletal muscle | Musculoskeletal system | Sodium | N-Terminus | Software | Toxins | NMR spectroscopy | Binding sites | Conotoxins | Conformation | Index Medicus | protein structure | μ-conotoxins | voltage-gated sodium channel blocker
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4. Full Text High‐resolution microbiota flow cytometry reveals dynamic colitis‐associated changes in fecal bacterial composition
by Zimmermann, Jakob and Hübschmann, Thomas and Schattenberg, Florian and Schumann, Joachim and Durek, Pawel and Riedel, René and Friedrich, Marie and Glauben, Rainer and Siegmund, Britta and Radbruch, Andreas and Müller, Susann and Chang, Hyun‐Dong
European Journal of Immunology, ISSN 0014-2980, 05/2016, Volume 46, Issue 5, pp. 1300 - 1303
Using high‐resolution flow cytometry of bacterial shape (forward scatter) and DNA content (DAPI staining), we detected dramatic differences in the fecal... 
Flow cytometry | Microbiota | IBD | T‐cell transfer colitis | Single‐cell analysis | Single-cell analysis | T-cell transfer colitis | HUMAN GUT MICROBIOME | IMMUNOLOGY | Flow Cytometry - methods | Humans | Gastrointestinal Microbiome | Phylogeny | Bacteria - genetics | Feces - microbiology | Bacteria - isolation & purification | Animals | Colitis - microbiology | Bacteria - cytology | Bacteria - classification | RNA, Ribosomal, 16S - genetics | Inflammatory Bowel Diseases - microbiology | Colitis | Microbiota (Symbiotic organisms) | T cells | Analysis | Inflammatory bowel disease | Index Medicus | Technical Comment
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5. Full Text Nicotiana alata defensin chimeras reveal differences in the mechanism of fungal and tumor cell killing and an enhanced antifungal variant
by Bleackley, Mark R and Payne, Jennifer A. E and Hayes, Brigitte M. E and Durek, Thomas and Craik, David J and Shafee, Thomas M. A and Poon, Ivan K. H and Hulett, Mark D and Van Der Weerden, Nicole L and Anderson, Marilyn A
Antimicrobial Agents and Chemotherapy, ISSN 0066-4804, 10/2016, Volume 60, Issue 10, pp. 6302 - 6312
The plant defensin NaD1 is a potent antifungal molecule that also targets tumor cells with a high efficiency. We examined the features of NaD1 that contribute... 
YEAST | PEPTIDES | NAD1 | PHOSPHATIDYLINOSITOL 4-KINASE | FUSARIUM-OXYSPORUM | PLANT DEFENSIN | MICROBIOLOGY | PHARMACOLOGY & PHARMACY | IDENTIFICATION | SACCHAROMYCES-CEREVISIAE | PLASMA-MEMBRANE | EXPRESSION | Antifungal Agents - pharmacology | Defensins - metabolism | Drug Evaluation, Preclinical - methods | Defensins - genetics | Humans | Antineoplastic Agents, Phytogenic - chemistry | Fusarium - drug effects | Saccharomyces cerevisiae - drug effects | Antifungal Agents - chemistry | Recombinant Proteins - genetics | Defensins - chemistry | Permeability | Recombinant Proteins - pharmacology | Protein Folding | Saccharomyces cerevisiae - metabolism | Phosphatidylinositol 4,5-Diphosphate - metabolism | Defensins - pharmacology | Neomycin - pharmacology | Cell Line, Tumor | Tobacco - chemistry | Liposomes | Antineoplastic Agents, Phytogenic - pharmacology | Cell Membrane - drug effects | Index Medicus
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6. Full Text Preformed selenoesters enable rapid native chemical ligation at intractable sites
by Durek, Thomas and Alewood, Paul F
Angewandte Chemie - International Edition, ISSN 1433-7851, 12/2011, Volume 50, Issue 50, pp. 12042 - 12045
Going pro: The first facile Pro-Cys ligation using a preformed prolyl selenoester is reported (see scheme; P=peptide). In a comparative study of peptide... 
peptides | native chemical ligation | selenium | kinetics | synthetic methods | REACTIVITY | CHEMISTRY | SELENOCYSTEINE | SULFUR | PROTEIN-SYNTHESIS | CHEMISTRY, MULTIDISCIPLINARY | PEPTIDE | Selenium - chemistry | Peptides - chemical synthesis | Peptides - chemistry | Esters - chemistry | Molecular Structure | Kinetics | Organoselenium Compounds - chemistry | Peptides | Index Medicus
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7. Full Text A Centipede Toxin Family Defines an Ancient Class of CSαβ Defensins
by Dash, Thomas S and Shafee, Thomas and Harvey, Peta J and Zhang, Chuchu and Peigneur, Steve and Deuis, Jennifer R and Vetter, Irina and Tytgat, Jan and Anderson, Marilyn A and Craik, David J and Durek, Thomas and Undheim, Eivind A.B
Structure, ISSN 0969-2126, 02/2019, Volume 27, Issue 2, pp. 315 - 326.e7
Disulfide-rich peptides (DRPs) play diverse physiological roles and have emerged as attractive sources of pharmacological tools and drug leads. Here we... 
NMR | toxin | CSαβ fold | defensin | 3D structure | evolution | centipede | disulfide-rich peptide
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8. Full Text A Centipede Toxin Family Defines an Ancient Class of CS[alpha][beta] Defensins
by Dash, Thomas S and Shafee, Thomas and Harvey, Peta J and Zhang, Chuchu and Peigneur, Steve and Deuis, Jennifer R and Vetter, Irina and Tytgat, Jan and Anderson, Marilyn A and Craik, David J and Durek, Thomas and Undheim, Eivind A.B
Structure, ISSN 0969-2126, 02/2019, Volume 27, Issue 2, p. 315
Disulfide-rich peptides (DRPs) play diverse physiological roles and have emerged as attractive sources of pharmacological tools and drug leads. Here we... 
Cysteine | Peptides | Family
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9. Full Text immunoClust—An automated analysis pipeline for the identification of immunophenotypic signatures in high‐dimensional cytometric datasets
by Sörensen, Till and Baumgart, Sabine and Durek, Pawel and Grützkau, Andreas and Häupl, Thomas
Cytometry Part A, ISSN 1552-4922, 07/2015, Volume 87, Issue 7, pp. 603 - 615
Multiparametric fluorescence and mass cytometry offers new perspectives to disclose and to monitor the high diversity of cell populations in the peripheral... 
iterative model‐based clustering | probability based metaclustering | Key terms: automated multivariate clustering | rare population detection | Iterative model-based clustering | Probability based metaclustering | Rare population detection | MIXTURE COMPONENTS | CELL-POPULATION IDENTIFICATION | automated multivariate clustering | BIOCHEMICAL RESEARCH METHODS | iterative model-based clustering | MODEL | CLUSTER | CELL BIOLOGY | Multivariate Analysis | Computational Biology - methods | Flow Cytometry - methods | Algorithms | Automatic Data Processing - methods | Blood Cells - cytology | Humans | Cluster Analysis | Fluorescence | Analysis | Index Medicus
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10. Full Text Efficient backbone cyclization of linear peptides by a recombinant asparaginyl endopeptidase
by Harris, Karen S and Durek, Thomas and Kaas, Quentin and Poth, Aaron G and Gilding, Edward K and Conlan, Brendon F and Saska, Ivana and Daly, Norelle L and Van Der Weerden, Nicole L and Craik, David J and Anderson, Marilyn A
Nature Communications, ISSN 2041-1723, 12/2015, Volume 6, Issue 1, pp. 10199 - 10199
Cyclotides are diverse plant backbone cyclized peptides that have attracted interest as pharmaceutical scaffolds, but fundamentals of their biosynthetic origin... 
CIRCULAR PROTEINS | LEGUMAIN | CYCLOTIDES | ACTIVATION | OLDENLANDIA-AFFINIS | BIOSYNTHESIS | MULTIDISCIPLINARY SCIENCES | VACUOLAR PROCESSING ENZYME | KALATA B1 | CYCLIC-PEPTIDES | MACROCYCLIZATION | Cysteine Endopeptidases - metabolism | Peptides - metabolism | Cyclization | Magnetic Resonance Spectroscopy | Cysteine Endopeptidases - genetics | Mass Spectrometry | Oldenlandia | Gene Expression Profiling | Plant Proteins - metabolism | Recombinant Proteins | RNA, Messenger - metabolism | Index Medicus
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11. Full Text Mapping of voltage sensor positions in resting and inactivated mammalian sodium channels by LRET
by Kubota, Tomoya and Durek, Thomas and Dang, Bobo and Finol-Urdaneta, Rocio K and Craik, David J and Kent, Stephen B. H and French, Robert J and Bezanilla, Francisco and Correa, Ana M
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 03/2017, Volume 114, Issue 10, pp. E1857 - E1865
Voltage-gated sodium channels (Navs) play crucial roles in excitable cells. Although vertebrate Nav function has been extensively studied, the detailed... 
μ-conotoxin | Voltage gating | Relaxed state | Slow inactivation | β-scorpion toxin | Frogs | Toxins | Sodium | Rodents | Cells | Binding sites | Index Medicus | Biological Sciences | voltage gating | PNAS Plus | slow inactivation | relaxed state
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12. Full Text Chemical Synthesis, 3D Structure, and ASIC Binding Site of the Toxin Mambalgin‐2
by Schroeder, Christina I and Rash, Lachlan D and Vila‐Farrés, Xavier and Rosengren, K. Johan and Mobli, Mehdi and King, Glenn F and Alewood, Paul F and Craik, David J and Durek, Thomas
Angewandte Chemie International Edition, ISSN 1433-7851, 01/2014, Volume 53, Issue 4, pp. 1017 - 1020
Mambalgins are a novel class of snake venom components that exert potent analgesic effects mediated through the inhibition of acid‐sensing ion channels... 
peptides | native chemical ligation | NMR spectroscopy | solid‐phase synthesis | ion channels | solid-phase synthesis | 3-FINGER TOXINS | SENSING ION CHANNELS | MAMBA VENOM | SHIFTS | CHEMISTRY, MULTIDISCIPLINARY | PAIN | VENOM PEPTIDES | PROTEINS | Elapid Venoms - chemistry | Peptides - chemistry | Models, Molecular | Rats | Structure-Activity Relationship | Elapid Venoms - pharmacology | Peptides - pharmacology | Dose-Response Relationship, Drug | Animals | Acid Sensing Ion Channels - genetics | Molecular Structure | Binding Sites - drug effects | Acid Sensing Ion Channels - metabolism | Integrated circuits | Peptides | Analgesics | Venom | Nuclear magnetic resonance spectroscopy | Chemical properties | Chemical synthesis | Semiconductor chips | Binding sites | Index Medicus | Synthesis | Pocket | Ion channels | Toxins | Snakes
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13. Full Text Papain-like cysteine proteases prepare plant cyclic peptide precursors for cyclization
by Rehm, FBH and Jackson, MA and De Geyter, E and Yap, K and Gilding, EK and Durek, T and Craik, DJ
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, ISSN 0027-8424, 04/2019, Volume 116, Issue 16, pp. 7831 - 7836
Cyclotides are plant defense peptides that have been extensively investigated for pharmaceutical and agricultural applications, but key details of their... 
plant defensins | CYCLOTIDES | NICOTIANA-BENTHAMIANA | kalata B1 | KNOTTED PROTEINS | BIOSYNTHESIS | MULTIDISCIPLINARY SCIENCES | BIOLOGY | CHEMISTRY | RiPP biosynthesis | cyclotide | papain-like cysteine protease | Protein research | Cysteine | Peptides | Proteases | Physiological aspects | Ring formation (Chemistry) | Research | Enzymes | Fractionation | Precursors | Proteolysis | Medical immunity | Papain | Biosynthesis | Substrates | Index Medicus
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14. Full Text NaV1.6 regulates excitability of mechanosensitive sensory neurons
by Israel, Mathilde R and Tanaka, Brian S and Castro, Joel and Thongyoo, Panumart and Robinson, Samuel D and Zhao, Peng and Deuis, Jennifer R and Craik, David J and Durek, Thomas and Brierley, Stuart M and Waxman, Stephen G and Dib‐Hajj, Sulayman D and Vetter, Irina
The Journal of Physiology, ISSN 0022-3751, 07/2019, Volume 597, Issue 14, pp. 3751 - 3768
Voltage‐gated sodium channels are critical for peripheral sensory neuron transduction and have been implicated in a number of painful and painless disorders.... 
patch clamp | pain | dorsal root ganglia | colon | nociception | Skin | ion channels | Medical research | Neurons | Physiological aspects | Medicine, Experimental | Health aspects | Neurophysiology | Channel opening | Pain perception | Propagation | Therapeutic applications | Excitability | Calcium imaging | Nervous system | Action potential | Dorsal root ganglia | Pain | Viscera | Isoforms | Sensory neurons | Sodium channels (voltage-gated) | Mechanical stimuli | Dorsal roots
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