Jörg Schultz

Prof. Dr. Jörg Schultz
Group Leader at the CCTB
and
Professor for Bioinformatics
Department of Bioinformatics, Biocenter, University Würzburg
Tel: 0931 - 31 84553
Research
There are just two questions to be asked in evolution:
How are things related - and what makes them differ?
AM Dean EMBO reports (2010) 11, 409
Curriculum Vitae
2015 | - | 2019 | Managing Board | Center for Computational and Theoretical Biology, University Würzburg |
2004 | - | now | Co-opted | Faculty for Mathematics and Informatics, University Würzburg |
2003 | - | now | C3 Professor for Bioinformatics | Faculty of Biology, University Würzburg |
2002 | - | 2003 | Groupleader | Max-Planck-Institut for Molecular Genetics, Department Computational Molecular Biology, Berlin |
2000 | - | 2002 | Groupleader Bioinformatics | cellzome, Heidelberg |
1996 | - | 2000 | PhD student (PreDoc) | EMBL Heidelberg |
1995 | - | 1996 | Diploma thesis | EMBL Heidelberg |
1991 | - | 1996 | Study of biology at the university of Konstanz |
Publications
- [ 2020 ]
- [ 2019 ]
- [ 2018 ]
- [ 2016 ]
- [ 2015 ]
- [ 2014 ]
- [ 2013 ]
- [ 2012 ]
- [ 2010 ]
- [ 2009 ]
- [ 2008 ]
- [ 2007 ]
- [ 2006 ]
- [ 2005 ]
- [ 2004 ]
- [ 2002 ]
- [ 2001 ]
- [ 2000 ]
- [ 1999 ]
- [ 1998 ]
- [ 1997 ]
- [ 1996 ]
2020[ to top ]
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{{T}he {V}enus flytrap trigger hair-specific potassium channel {K}{D}{M}1 can reestablish the {K}+ gradient required for hapto-electric signaling} in PLoS Biol (2020). 18(12) e3000964.
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{{H}ow to {G}row a {T}ree: {P}lant {V}oltage-{D}ependent {C}ation {C}hannels in the {S}potlight of {E}volution} in Trends Plant Sci (2020).
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{{G}enomes of the {V}enus {F}lytrap and {C}lose {R}elatives {U}nveil the {R}oots of {P}lant {C}arnivory} in Curr Biol (2020). 30(12) 2312–2320.
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BCdatabaser: on-the-fly reference database creation for DNA (meta-)barcoding in Bioinformatics (2020). in press.
2019[ to top ]
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{{V}enus flytrap microbiotas withstand harsh conditions during prey digestion} in FEMS Microbiol. Ecol. (2019). 95(3)
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{{A}cquiring {C}ontrol: {T}he {E}volution of {S}tomatal {S}ignalling {P}athways} in Trends Plant Sci. (2019). 24(4) 342–351.
2018[ to top ]
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reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome. in Journal of Open Source Software (2018). 3(22) 527.
2016[ to top ]
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{{W}{H}{A}{M}{Y} is a novel actin polymerase promoting myoblast fusion, macrophage cell motility and sensory organ development in {D}rosophila} in J. Cell. Sci. (2016). 129(3) 604–620.
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{{V}enus flytrap carnivorous lifestyle builds on herbivore defense strategies} in Genome Res. (2016). 26(6) 812–825.
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{{G}enome of a tardigrade: {H}orizontal gene transfer or bacterial contamination?} in Proc. Natl. Acad. Sci. U.S.A. (2016).
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{{G}ating of the two-pore cation channel {A}t{T}{P}{C}1 in the plant vacuole is based on a single voltage-sensing domain} in Plant Biol (Stuttg) (2016). 18(5) 750–760.
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{{A}{L}{V}{I}{S}: interactive non-aggregative visualization and explorative analysis of multiple sequence alignments} in Nucleic Acids Res. (2016). 44(8) e77.
2015[ to top ]
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{{I}{T}{S}2 {D}atabase {V}: {T}wice as {M}uch} in Mol. Biol. Evol. (2015). 32(11) 3030–3032.
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{{I}dentification of divergent {W}{H}2 motifs by {H}{M}{M}-{H}{M}{M} alignments} in BMC Res Notes (2015). 8(1) 18.
2014[ to top ]
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{{W}ord formation is aware of morpheme family size} in PLoS ONE (2014). 9(4) e93978.
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{{I}{S}{A}{A}{C} - {I}nter{S}pecies {A}nalysing {A}pplication using {C}ontainers} in BMC Bioinformatics (2014). 15(1) 18.
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{{F}{H}{O}{D} proteins in actin dynamics-a formin’ class of its own} in Small GTPases (2014). 5(2) 1–6.
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{{E}volutionary and {S}tructural {A}nalyses of the {M}ammalian {H}aloacid {D}ehalogenase-{T}ype {P}hosphatases {A}{U}{M} and {C}hronophin {P}rovide {I}nsight into the {B}asis of their {D}ifferent {S}ubstrate {S}pecificities} in J. Biol. Chem. (2014). 289(6) 3416–31.
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{{C}omputational integration of genomic traits into 16{S} r{D}{N}{A} microbiota sequencing studies} in Gene (2014).
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{proovread: large-scale high-accuracy {P}ac{B}io correction through iterative short read consensus} in Bioinformatics (2014).
2013[ to top ]
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{{T}he bilaterian roots of cordon-bleu} in BMC Res Notes (2013). 6(1) 393.
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{{H}uman {H}{A}{D} phosphatases: structure, mechanism, and roles in health and disease} in FEBS J. (2013). 280(2) 549–571.
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{{C}onnectivity, not frequency, determines the fate of a morpheme} in PLoS ONE (2013). 8(7) e69945.
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Formin’ cellular structures in Communicative & Integrative Biology (2013). 6(6) e27634.
2012[ to top ]
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{{T}he {I}{T}{S}2 {D}atabase} in J Vis Exp (2012). (61)
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{{T}he protein composition of the digestive fluid from the venus flytrap sheds light on prey digestion mechanisms} in Mol. Cell Proteomics (2012). 11(11) 1306–1319.
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{{I}{T}{S}2 database {I}{V}: interactive taxon sampling for internal transcribed spacer 2 based phylogenies} in Mol. Phylogenet. Evol. (2012). 63(3) 585–588.
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Morpheme networks reveal language dynamics in Actes des 11es Journées Internationales d’Analyse Statistique des Données Textuelles / Proceedings of the 11th International Conference on the Statistical Analysis of Textual Data (2012).
2010[ to top ]
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{{T}he {I}{T}{S}2 {D}atabase {I}{I}{I}--sequences and structures for phylogeny} in Nucleic Acids Res. (2010). 38 D275–279.
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{{P}rotein interaction networks--more than mere modules} in PLoS Comput. Biol. (2010). 6 e1000659.
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{{I}ncluding {R}{N}{A} secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees} in Biol. Direct (2010). 5 4.
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{{E}volutionary distances in the twilight zone--a rational kernel approach} in PLoS ONE (2010). 5 e15788.
2009[ to top ]
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{{W}hen one plus one equals three: biochemistry and bioinformatics combine to answer complex questions} in Fly (Austin) (2009). 3 210–212.
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{{P}ositive selection in tick saliva proteins of the {S}alp15 family} in J. Mol. Evol. (2009). 68 186–191.
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{{P}artially-supervised protein subclass discovery with simultaneous annotation of functional residues} in BMC Struct. Biol. (2009). 9 68.
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{{I}{T}{S}2 sequence-structure analysis in phylogenetics: a how-to manual for molecular systematics} in Mol. Phylogenet. Evol. (2009). 52 520–523.
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{{E}volutionary flexibility of protein complexes} in BMC Evol. Biol. (2009). 9 155.
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{{D}etecting species-site dependencies in large multiple sequence alignments} in Nucleic Acids Res. (2009). 37 5959–5968.
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{{A} kinome of 2600 in the ciliate {P}aramecium tetraurelia} in FEBS Lett. (2009). 583 3589–3592.
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{5.8{S}-28{S} r{R}{N}{A} interaction and {H}{M}{M}-based {I}{T}{S}2 annotation} in Gene (2009). 430 50–57.
2008[ to top ]
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{{T}he {I}{T}{S}2 {D}atabase {I}{I}: homology modelling {R}{N}{A} structure for molecular systematics} in Nucleic Acids Res. (2008). 36 D377–380.
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{{P}rof{D}ist{S}: (profile-) distance based phylogeny on sequence--structure alignments} in Bioinformatics (2008). 24 2401–2402.
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{{H}eat shock protein-90-alpha, a prolactin-{S}{T}{A}{T}5 target gene identified in breast cancer cells, is involved in apoptosis regulation} in Breast Cancer Res. (2008). 10 R94.
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{{E}xplorative data analysis of {M}{C}{L} reveals gene expression networks implicated in survival and prognosis supported by explorative {C}{G}{H} analysis} in BMC Cancer (2008). 8 106.
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{{E}volution of an {R}{N}{P} assembly system: a minimal {S}{M}{N} complex facilitates formation of {U}sn{R}{N}{P}s in {D}rosophila melanogaster} in Proc. Natl. Acad. Sci. U.S.A. (2008). 105 10045–10050.
2007[ to top ]
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{{G}erminal center {B} cell-like ({G}{C}{B}) and activated {B} cell-like ({A}{B}{C}) type of diffuse large {B} cell lymphoma ({D}{L}{B}{C}{L}): analysis of molecular predictors, signatures, cell cycle state and patient survival} in Cancer Inform (2007). 3 399–420.
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{{G}enome {E}xpression {P}athway {A}nalysis {T}ool--analysis and visualization of microarray gene expression data under genomic, proteomic and metabolic context} in BMC Bioinformatics (2007). 8 179.
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{{E}xonization of active mouse {L}1s: a driver of transcriptome evolution?} in BMC Genomics (2007). 8 392.
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{{D}istinguishing species} in RNA (2007). 13 1469–1472.
2006[ to top ]
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{{T}he internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses} in Nucleic Acids Res. (2006). 34 W704–707.
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{{S}{M}{A}{R}{T} 5: domains in the context of genomes and networks} in Nucleic Acids Res. (2006). 34 D257–260.
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{{M}odelling interaction sites in protein domains with interaction profile hidden {M}arkov models} in Bioinformatics (2006). 22 2851–2857.
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{{A}nalysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets} in Nat. Genet. (2006). 38 285–293.
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{4{S}{A}{L}{E}--a tool for synchronous {R}{N}{A} sequence and secondary structure alignment and editing} in BMC Bioinformatics (2006). 7 498.
2005[ to top ]
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{{V}ariation in structural location and amino acid conservation of functional sites in protein domain families} in BMC Bioinformatics (2005). 6 210.
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{{S}tructural genomics of human proteins--target selection and generation of a public catalogue of expression clones} in Microb. Cell Fact. (2005). 4 21.
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{{H}omology modeling revealed more than 20,000 r{R}{N}{A} internal transcribed spacer 2 ({I}{T}{S}2) secondary structures} in RNA (2005). 11 1616–1623.
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{{A} common core of secondary structure of the internal transcribed spacer 2 ({I}{T}{S}2) throughout the {E}ukaryota} in RNA (2005). 11 361–364.
2004[ to top ]
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{{S}{M}{A}{R}{T} 4.0: towards genomic data integration} in Nucleic Acids Res. (2004). 32 D142–144.
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{{I}nactive enzyme-homologues find new function in regulatory processes} in J. Mol. Biol. (2004). 340 399–404.
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{{H}{T}{T}{M}, a horizontally transferred transmembrane domain} in Trends Biochem. Sci. (2004). 29 4–7.
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{{H}{M}{M} {L}ogos for visualization of protein families} in BMC Bioinformatics (2004). 5 7.
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{{E}volution of the multifunctional protein tyrosine phosphatase family} in Mol. Biol. Evol. (2004). 21 625–631.
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{{A} novel conserved family of nitric oxide synthase?} in Trends Biochem. Sci. (2004). 29 224–226.
2002[ to top ]
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{{S}ystematic identification of novel protein domain families associated with nuclear functions} in Genome Res. (2002). 12 47–56.
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{{S}equence analysis of multidomain proteins: past perspectives and future directions} in Adv. Protein Chem. (2002). 61 75–98.
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{{R}ecent improvements to the {S}{M}{A}{R}{T} domain-based sequence annotation resource} in Nucleic Acids Res. (2002). 30 242–244.
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{{P}rediction of structure and functional residues for {O}-{G}lc{N}{A}case, a divergent homologue of acetyltransferases} in FEBS Lett. (2002). 529 179–182.
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{{P}redicting protein cellular localization using a domain projection method} in Genome Res. (2002). 12 1168–1174.
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{{I}nitial sequencing and comparative analysis of the mouse genome} in Nature (2002). 420 520–562.
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{{G}enome expression analysis of {A}nopheles gambiae: responses to injury, bacterial challenge, and malaria infection} in Proc. Natl. Acad. Sci. U.S.A. (2002). 99 8814–8819.
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{{F}unctional organization of the yeast proteome by systematic analysis of protein complexes} in Nature (2002). 415 141–147.
2001[ to top ]
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{{M}olecular characterization of a c{D}{N}{A} encoding functional human {C}{L}{K}4 kinase and localization to chromosome 5q35 [correction of 4q35]} in Genomics (2001). 71 368–370.
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{{I}nitial sequencing and analysis of the human genome} in Nature (2001). 409 860–921.
2000[ to top ]
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{{S}{M}{A}{R}{T}: a web-based tool for the study of genetically mobile domains} in Nucleic Acids Res. (2000). 28 231–234.
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{{M}ore than 1,000 putative new human signalling proteins revealed by {E}{S}{T} data mining} in Nat. Genet. (2000). 25 201–204.
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{{E}volution of domain families} in Adv. Protein Chem. (2000). 54 185–244.
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{{A}nopheles gambiae pilot gene discovery project: identification of mosquito innate immunity genes from expressed sequence tags generated from immune-competent cell lines} in Proc. Natl. Acad. Sci. U.S.A. (2000). 97 6619–6624.
1999[ to top ]
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{{S}{M}{A}{R}{T}: identification and annotation of domains from signalling and extracellular protein sequences} in Nucleic Acids Res. (1999). 27 229–232.
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{{P}rotein families in multicellular organisms} in Curr. Opin. Struct. Biol. (1999). 9 408–415.
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{{N}o {S}ec7-homology domain in guanine-nucleotide-exchange factors that act on {R}as and {R}ho} in Trends Biochem. Sci. (1999). 24 177–178.
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{{E}ukaryotic signalling domain homologues in archaea and bacteria. {A}ncient ancestry and horizontal gene transfer} in J. Mol. Biol. (1999). 289 729–745.
1998[ to top ]
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{{S}{M}{A}{R}{T}, a simple modular architecture research tool: identification of signaling domains} in Proc. Natl. Acad. Sci. U.S.A. (1998). 95 5857–5864.
1997[ to top ]
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{{S}{P}{R}{Y} domains in ryanodine receptors ({C}a(2+)-release channels)} in Trends Biochem. Sci. (1997). 22 193–194.
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{{S}{A}{M} as a protein interaction domain involved in developmental regulation} in Protein Sci. (1997). 6 249–253.
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{{S}ecreted fringe-like signaling molecules may be glycosyltransferases} in Cell (1997). 88 9–11.
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{{C}ytoplasmic signalling domains: the next generation} in Trends Biochem. Sci. (1997). 22 296–298.
1996[ to top ]
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{{T}he protein phosphatase 2{C} ({P}{P}2{C}) superfamily: detection of bacterial homologues} in Protein Sci. (1996). 5 1421–1425.