Agenda for Kidney Content Meeting: Difference between revisions
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[[Category:Reference Genome]] | |||
Please suggest agenda items, relevant papers and other information relating to kidney development GO terms that you would like discussed at this workshop, to enable us to form an agenda. | Please suggest agenda items, relevant papers and other information relating to kidney development GO terms that you would like discussed at this workshop, to enable us to form an agenda. | ||
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== Participants == | == Participants == | ||
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== Location == | == Location == | ||
EMBL-EBI | EMBL-EBI, Room C202/203 - shared facilities, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD. | ||
Date: Monday 25th January 2010, 9:30am to 5pm | Date: Monday 25th January 2010, 9:30am to 5pm | ||
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|'''9:45am''' | |'''9:45am''' | ||
| Kidney precursor cells and tissues (segmentation)<br/>* Development of kidney field <br/>* Nephrogenic stem cell differentiation. | | Kidney precursor cells and tissues (segmentation)<br/>* Development of kidney field <br/>* Nephrogenic stem cell differentiation.<br/>* Sensing a quorum of cells / control of the number of cells in a cell group <br/>* (Mesonephric/metanephric) mesenchyme-epithelial transition <br/>* Epithelial patterning of the nephron epithelium <br/>* proximal/distal nephron tubule patterning/ specification/ identity; <br/>* Formation of tight junctions/ adherens junctions/ basement membrane, <br/>* specification of distal tubule identity; pronephros proximal/distal patterning and development <br/>*SF -[https://sourceforge.net/tracker/?func=detail&aid=2859892&group_id=36855&atid=440764 SF 2859892: specification of kidney anlage] *PMID 18715948 <br/>* SF -[https://sourceforge.net/tracker/?func=detail&aid=2860000&group_id=36855&atid=440764 SF 2860000: proximodistal kidney segmentation] *PMID 17875669 *PMID 18715948 *PMID 12925600'' | ||
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|'''11: | |'''11:20am''' | ||
|Kidney morphogenesis - Kidney structure formation <br/>* | |Kidney morphogenesis - Kidney structure formation <br/>*Cell morphogenesis <br/>*Formation of renal vesicle, <br/>*Formation of comma-shaped body/ S-shaped body/ glomerulus <br/>*Formation of mesangium, <br/>* Oriented mitosis <br/>* new children of GO:0002070 epithelial cell maturation: Podocyte/ Proximal tubule/ Loop of Henle/ Distal tubule/ Connecting tubule cell differentiation (and other nephron cell types) <br/>* SF -[https://sourceforge.net/tracker/?func=detail&aid=2903833&group_id=36855&atid=440764 SF 2903833: kidney glomus development] *PMID 10572058 <br/>* SF -[https://sourceforge.net/tracker/?func=detail&aid=2860000&group_id=36855&atid=440764 SF 2860000: proximodistal kidney segmentation] *PMID 17875669 *PMID 18715948 *PMID 12925600'' | ||
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|''' | |'''1:30pm''' | ||
|Anatomical structure development | |Anatomical structure development/ Formation <br/>*Macula densa development <br/>* Regulation of epithelial tubule diameter (is_a GO:0035296 regulation of tube diameter) <br/>* Morphogenesis of epithelial tubules <br/>*mesonephric tubule (anterior and posterior in mouse) <br/>*nephric duct/ tubule specification/differentiation/morphogenesis <br/>*Collecting duct system development/formation/differentiation <br/>*Connecting tubule development <br/>*kidney proximal tubule development; <br/>* SF -[https://sourceforge.net/tracker/?func=detail&atid=440764&aid=2902547&group_id=36855 SF 2902547: various kidney development terms] *PMID 16790474 *PMID 18835385 <br/>* SF -[https://sourceforge.net/tracker/?func=detail&aid=2860000&group_id=36855&atid=440764 SF 2860000: proximodistal kidney segmentation] *PMID 17875669 *PMID 18715948 *PMID 12925600 <br/>* SF -[https://sourceforge.net/tracker/?func=detail&aid=2903833&group_id=36855&atid=440764 SF 2903833: kidney glomus development] *PMID 10572058'' | ||
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|''' | |'''3pm''' | ||
|Coffee break | |Coffee break | ||
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|''' | |'''3:20pm''' | ||
| | |Continue with Anatomical structure development/ Formation <br/>* Connection of nephron tubule to collecting duct <br/>* proximal convoluted tubule development/ specification; <br/>*kidney intermediate tubule development/ identity specification:- thin descending limb development; thin ascending limb development; thick ascending limb development; <br/>*kidney distal tubule development:- distal convoluted tubule development/ specification <br/>*Signalling to blood vessel-forming cells (GO:0060684 epithelial-mesenchymal cell signaling?) <br/>*renal smooth muscle cell differentiation <br/>* SF -[https://sourceforge.net/tracker/?func=detail&atid=440764&aid=2902547&group_id=36855 SF 2902547: various kidney development terms] *PMID 16790474 *PMID 18835385<br/>* SF -[https://sourceforge.net/tracker/?func=detail&aid=2860000&group_id=36855&atid=440764 SF 2860000: proximodistal kidney segmentation] *PMID 17875669 *PMID 18715948 *PMID 12925600 <br/>* SF -[https://sourceforge.net/tracker/?func=detail&aid=2903833&group_id=36855&atid=440764 SF 2903833: kidney glomus development] *PMID 10572058'' | ||
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[[http://amigo.geneontology.org/cgi-bin/amigo/term-details.cgi?term=GO:0001822&session_id=5603amigo1258994462]] | [[http://amigo.geneontology.org/cgi-bin/amigo/term-details.cgi?term=GO:0001822&session_id=5603amigo1258994462]] | ||
<br/>*GO:0001656 GO:0001657 GO:0001658 GO:0001822 GO:0001823 GO:0032835 GO:0032836 GO:0034671 GO:0034672 GO:0048793 GO:0060675 GO:0060676 GO:0060677 GO:0060678 GO:0060679 GO:0060680 GO:0060681 GO:0060682 | <br/>*GO:0001656 GO:0001657 GO:0001658 GO:0001822 GO:0001823 GO:0032835 GO:0032836 GO:0034671 GO:0034672 GO:0048793 GO:0060675 GO:0060676 GO:0060677 GO:0060678 GO:0060679 GO:0060680 GO:0060681 GO:0060682 | ||
*chart [http://upload.wikimedia.org/wikipedia/commons/1/12/Kidneydevtermschart.png] | |||
== Relevant papers and other resources == | == Relevant papers and other resources == |
Latest revision as of 14:23, 9 April 2014
Please suggest agenda items, relevant papers and other information relating to kidney development GO terms that you would like discussed at this workshop, to enable us to form an agenda.
Participants
GO annotators | GO Editors | Kidney Development Experts |
---|---|---|
Dr Yasmin Alam-Faruque (GOA) Dr Emily Dimmer (GOA) Dr Rebecca Foulger (UniProt/Xenopus) Dr Susan Tweedie (Flybase) Dr Rachael Huntley (GOA) |
Dr Midori Harris Dr David Hill |
Professor Adrian Woolf Professor Jamie Davies Dr Duncan Davidson |
Location
EMBL-EBI, Room C202/203 - shared facilities, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD. Date: Monday 25th January 2010, 9:30am to 5pm
Programme
9:15am | Tea/ Coffee and biscuits | ||
9:30am | Welcome and introduction | Yasmin | |
9:35am | Introduction to GO | David Hill | |
9:45am | Kidney precursor cells and tissues (segmentation) * Development of kidney field * Nephrogenic stem cell differentiation. * Sensing a quorum of cells / control of the number of cells in a cell group * (Mesonephric/metanephric) mesenchyme-epithelial transition * Epithelial patterning of the nephron epithelium * proximal/distal nephron tubule patterning/ specification/ identity; * Formation of tight junctions/ adherens junctions/ basement membrane, * specification of distal tubule identity; pronephros proximal/distal patterning and development *SF -SF 2859892: specification of kidney anlage *PMID 18715948 * SF -SF 2860000: proximodistal kidney segmentation *PMID 17875669 *PMID 18715948 *PMID 12925600 |
||
11am | Coffee break | ||
11:20am | Kidney morphogenesis - Kidney structure formation *Cell morphogenesis *Formation of renal vesicle, *Formation of comma-shaped body/ S-shaped body/ glomerulus *Formation of mesangium, * Oriented mitosis * new children of GO:0002070 epithelial cell maturation: Podocyte/ Proximal tubule/ Loop of Henle/ Distal tubule/ Connecting tubule cell differentiation (and other nephron cell types) * SF -SF 2903833: kidney glomus development *PMID 10572058 * SF -SF 2860000: proximodistal kidney segmentation *PMID 17875669 *PMID 18715948 *PMID 12925600 |
||
12:30pm | Lunch | ||
1:30pm | Anatomical structure development/ Formation *Macula densa development * Regulation of epithelial tubule diameter (is_a GO:0035296 regulation of tube diameter) * Morphogenesis of epithelial tubules *mesonephric tubule (anterior and posterior in mouse) *nephric duct/ tubule specification/differentiation/morphogenesis *Collecting duct system development/formation/differentiation *Connecting tubule development *kidney proximal tubule development; * SF -SF 2902547: various kidney development terms *PMID 16790474 *PMID 18835385 * SF -SF 2860000: proximodistal kidney segmentation *PMID 17875669 *PMID 18715948 *PMID 12925600 * SF -SF 2903833: kidney glomus development *PMID 10572058 |
||
3pm | Coffee break | ||
3:20pm | Continue with Anatomical structure development/ Formation * Connection of nephron tubule to collecting duct * proximal convoluted tubule development/ specification; *kidney intermediate tubule development/ identity specification:- thin descending limb development; thin ascending limb development; thick ascending limb development; *kidney distal tubule development:- distal convoluted tubule development/ specification *Signalling to blood vessel-forming cells (GO:0060684 epithelial-mesenchymal cell signaling?) *renal smooth muscle cell differentiation * SF -SF 2902547: various kidney development terms *PMID 16790474 *PMID 18835385 * SF -SF 2860000: proximodistal kidney segmentation *PMID 17875669 *PMID 18715948 *PMID 12925600 * SF -SF 2903833: kidney glomus development *PMID 10572058 |
||
5pm | Close |
Minutes
Current Kidney Development Ontology Terms
The currently available kidney development process ontology (November 2009)
[[1]]
*GO:0001656 GO:0001657 GO:0001658 GO:0001822 GO:0001823 GO:0032835 GO:0032836 GO:0034671 GO:0034672 GO:0048793 GO:0060675 GO:0060676 GO:0060677 GO:0060678 GO:0060679 GO:0060680 GO:0060681 GO:0060682
- chart [2]
Relevant papers and other resources
- Kidney Development Review Papers:
- PMID 15554941 Transcriptional control of kidney development. Bouchard M. 2004. Talks about genes involved in nephric lineage specification (Pax2/Pax8/Lim1/Bmp4/Wt1/GDNF1/Eya1/Foxc1); metanephros development - UB positioning, induction, nephron induction, ureter branching, Stromal cell differentiation(Gdnf1/Eya1/Foxc1/2/Slit2/Robo2/Bmp4/Pax2/Hox11(HoxA11/C11/D11)/ Sall1/Wt1/Six1/Wnt4/Emx2/Gata3/BF2/Pod1/Pbx21.
- PMID 15380247 Recent genetic studies of mouse kidney development. Yu J, McMahon AP, Valerius MT. 2004. Has a nice diagram of the stages of nephron formation on p.551. Also lists genes investigated with particular molecular regulation of outgrowth of the uteric bud and regulation of tubulogenesis (Table 1; p552 - Gdf1, Six1, Slit2/Robo2, Wnt1, Fras1+Grip1, Pod1, Pbx1, Brn1, Psen1/2).
- PMID 16760375 Role of transcriptional networks in coordinating early events during kidney development. Boyle S, de Caestecker Mark. 2006. Has nice diagrams of stages of early mammalian kidney development. Reviews transcription factors in mesenephric mesenchyme: Eya1/ Foxc1/2/ Hoxa/c/d11/ Pax2/ Pbx1/ Rar-alpha/beta2/ Sall1/ Six1/ Wt1.
- PMID 12094231 Coordinating early kidney development: lessons from gene targeting. Vainio S, Lin Y. 2002. Nice diagrams of kidney development. List of genes essential for early kidney development (Transcription Factors: Emx2/Eya1/Foxc1/Foxd1/Pax2/Rara,Rarb/Sall1/Wt1; Growth factors: Bmp4/Bmp7/Fgf7/Gdnf/Wnt4; Growth factors/receptors: Gfra1/Notch2/Ret; Proteoglycans and their biosynthetic enzymes: Hs2st/Gpc3.
- Kidney Development Websites:
- Mouse Anatomy Browser - [3]
- FMA human anatomy browser- [4]
Other reviews