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Items: 27

1.

Body size-dependent energy storage causes Kleiber's law scaling of the metabolic rate in planarians.

Thommen A, Werner S, Frank O, Philipp J, Knittelfelder O, Quek Y, Fahmy K, Shevchenko A, Friedrich BM, Jülicher F, Rink JC.

Elife. 2019 Jan 4;8. pii: e38187. doi: 10.7554/eLife.38187.

2.

PlanMine 3.0-improvements to a mineable resource of flatworm biology and biodiversity.

Rozanski A, Moon H, Brandl H, Martín-Durán JM, Grohme MA, Hüttner K, Bartscherer K, Henry I, Rink JC.

Nucleic Acids Res. 2019 Jan 8;47(D1):D812-D820. doi: 10.1093/nar/gky1070.

3.

Small- and Large-Scale High Molecular Weight Genomic DNA Extraction from Planarians.

Grohme MA, Vila-Farré M, Rink JC.

Methods Mol Biol. 2018;1774:267-275. doi: 10.1007/978-1-4939-7802-1_7.

PMID:
29916160
4.

Total RNA Isolation from Planarian Tissues.

Liu SY, Rink JC.

Methods Mol Biol. 2018;1774:259-265. doi: 10.1007/978-1-4939-7802-1_6.

PMID:
29916159
5.

Stem Cells, Patterning and Regeneration in Planarians: Self-Organization at the Organismal Scale.

Rink JC.

Methods Mol Biol. 2018;1774:57-172. doi: 10.1007/978-1-4939-7802-1_2. Review.

PMID:
29916155
6.

A software tool 'CroCo' detects pervasive cross-species contamination in next generation sequencing data.

Simion P, Belkhir K, François C, Veyssier J, Rink JC, Manuel M, Philippe H, Telford MJ.

BMC Biol. 2018 Mar 5;16(1):28. doi: 10.1186/s12915-018-0486-7.

7.

The genome of Schmidtea mediterranea and the evolution of core cellular mechanisms.

Grohme MA, Schloissnig S, Rozanski A, Pippel M, Young GR, Winkler S, Brandl H, Henry I, Dahl A, Powell S, Hiller M, Myers E, Rink JC.

Nature. 2018 Feb 1;554(7690):56-61. doi: 10.1038/nature25473. Epub 2018 Jan 24.

8.

A dynamically diluted alignment model reveals the impact of cell turnover on the plasticity of tissue polarity patterns.

Hoffmann KB, Voss-Böhme A, Rink JC, Brusch L.

J R Soc Interface. 2017 Oct;14(135). pii: 20170466. doi: 10.1098/rsif.2017.0466.

9.

A tunable refractive index matching medium for live imaging cells, tissues and model organisms.

Boothe T, Hilbert L, Heide M, Berninger L, Huttner WB, Zaburdaev V, Vastenhouw NL, Myers EW, Drechsel DN, Rink JC.

Elife. 2017 Jul 14;6. pii: e27240. doi: 10.7554/eLife.27240.

10.

Antagonistic Self-Organizing Patterning Systems Control Maintenance and Regeneration of the Anteroposterior Axis in Planarians.

Stückemann T, Cleland JP, Werner S, Thi-Kim Vu H, Bayersdorf R, Liu SY, Friedrich B, Jülicher F, Rink JC.

Dev Cell. 2017 Feb 6;40(3):248-263.e4. doi: 10.1016/j.devcel.2016.12.024.

11.

Self-organization in development, regeneration and organoids.

Werner S, Vu HT, Rink JC.

Curr Opin Cell Biol. 2017 Feb;44:102-109. doi: 10.1016/j.ceb.2016.09.002. Epub 2016 Oct 5. Review.

PMID:
27720307
12.

The mid-developmental transition and the evolution of animal body plans.

Levin M, Anavy L, Cole AG, Winter E, Mostov N, Khair S, Senderovich N, Kovalev E, Silver DH, Feder M, Fernandez-Valverde SL, Nakanishi N, Simmons D, Simakov O, Larsson T, Liu SY, Jerafi-Vider A, Yaniv K, Ryan JF, Martindale MQ, Rink JC, Arendt D, Degnan SM, Degnan BM, Hashimshony T, Yanai I.

Nature. 2016 Mar 31;531(7596):637-641. doi: 10.1038/nature16994. Epub 2016 Feb 17.

13.

PlanMine--a mineable resource of planarian biology and biodiversity.

Brandl H, Moon H, Vila-Farré M, Liu SY, Henry I, Rink JC.

Nucleic Acids Res. 2016 Jan 4;44(D1):D764-73. doi: 10.1093/nar/gkv1148. Epub 2015 Nov 17.

14.

Stem cells and fluid flow drive cyst formation in an invertebrate excretory organ.

Thi-Kim Vu H, Rink JC, McKinney SA, McClain M, Lakshmanaperumal N, Alexander R, Sánchez Alvarado A.

Elife. 2015 Jun 9;4. doi: 10.7554/eLife.07405.

15.

Scaling and regeneration of self-organized patterns.

Werner S, Stückemann T, Beirán Amigo M, Rink JC, Jülicher F, Friedrich BM.

Phys Rev Lett. 2015 Apr 3;114(13):138101. Epub 2015 Apr 1.

PMID:
25884138
16.

Shape mode analysis exposes movement patterns in biology: flagella and flatworms as case studies.

Werner S, Rink JC, Riedel-Kruse IH, Friedrich BM.

PLoS One. 2014 Nov 26;9(11):e113083. doi: 10.1371/journal.pone.0113083. eCollection 2014.

17.

Reactivating head regrowth in a regeneration-deficient planarian species.

Liu SY, Selck C, Friedrich B, Lutz R, Vila-Farré M, Dahl A, Brandl H, Lakshmanaperumal N, Henry I, Rink JC.

Nature. 2013 Aug 1;500(7460):81-4. doi: 10.1038/nature12414. Epub 2013 Jul 24.

PMID:
23883932
18.

Evolutionarily ancient association of the FoxJ1 transcription factor with the motile ciliogenic program.

Vij S, Rink JC, Ho HK, Babu D, Eitel M, Narasimhan V, Tiku V, Westbrook J, Schierwater B, Roy S.

PLoS Genet. 2012;8(11):e1003019. doi: 10.1371/journal.pgen.1003019. Epub 2012 Nov 8.

19.

Stem cell systems and regeneration in planaria.

Rink JC.

Dev Genes Evol. 2013 Mar;223(1-2):67-84. doi: 10.1007/s00427-012-0426-4. Epub 2012 Nov 9. Review.

20.

The maintenance and regeneration of the planarian excretory system are regulated by EGFR signaling.

Rink JC, Vu HT, Sánchez Alvarado A.

Development. 2011 Sep;138(17):3769-80. doi: 10.1242/dev.066852.

21.

Systems survey of endocytosis by multiparametric image analysis.

Collinet C, Stöter M, Bradshaw CR, Samusik N, Rink JC, Kenski D, Habermann B, Buchholz F, Henschel R, Mueller MS, Nagel WE, Fava E, Kalaidzidis Y, Zerial M.

Nature. 2010 Mar 11;464(7286):243-9. doi: 10.1038/nature08779. Epub 2010 Feb 28. Erratum in: Nature. 2014 Sep 18;513(7518):444.

PMID:
20190736
22.

Planarian Hh signaling regulates regeneration polarity and links Hh pathway evolution to cilia.

Rink JC, Gurley KA, Elliott SA, Sánchez Alvarado A.

Science. 2009 Dec 4;326(5958):1406-10. doi: 10.1126/science.1178712. Epub 2009 Oct 22.

23.

Formaldehyde-based whole-mount in situ hybridization method for planarians.

Pearson BJ, Eisenhoffer GT, Gurley KA, Rink JC, Miller DE, Sánchez Alvarado A.

Dev Dyn. 2009 Feb;238(2):443-50. doi: 10.1002/dvdy.21849.

24.

Membrane identity and GTPase cascades regulated by toggle and cut-out switches.

Del Conte-Zerial P, Brusch L, Rink JC, Collinet C, Kalaidzidis Y, Zerial M, Deutsch A.

Mol Syst Biol. 2008;4:206. doi: 10.1038/msb.2008.45. Epub 2008 Jul 15.

25.

Beta-catenin defines head versus tail identity during planarian regeneration and homeostasis.

Gurley KA, Rink JC, Sánchez Alvarado A.

Science. 2008 Jan 18;319(5861):323-7. Epub 2007 Dec 6.

26.

Cytoplasmic pH dynamics in maize pulvinal cells induced by gravity vector changes.

Johannes E, Collings DA, Rink JC, Allen NS.

Plant Physiol. 2001 Sep;127(1):119-30.

27.

Plant nuclei can contain extensive grooves and invaginations.

Collings DA, Carter CN, Rink JC, Scott AC, Wyatt SE, Allen NS.

Plant Cell. 2000 Dec;12(12):2425-2440.

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