Posts tagged ‘zebrafish’

In May 2017, the Leung lab visited several collaborating groups in Asia and shared with them our research vision on using zebrafish to find new drugs for retinal degeneration. In this blog post, we will share some pictures of our visit to the Department of Ophthalmology at the Osaka University School of Medicine. We met our long-term collaborator Dr. Motokazu Tsujikawa. He is a co-mentor of Logan Ganzen, a graduate student in our laboratory. Logan is a recipient of the predoctoral award from the Indiana Clinical and Translational Sciences Institute. During our Osaka trip, he presented a talk entitled “Visual Motor Response of a Transgenic Retinitis Pigmentosa Zebrafish Model” to Dr. Tsujikawa.

 

Logan in front of a new Center for Medical Innovation and Translational Research.

Fai and Dr. Motokazu in his zebrafish facility in the Center of Medical Innovation and Translational Research.

The Center is beautifully designed with lots of open space.

Logan presented his latest findings to Dr. Motokazu, who served as a co-mentor in Logan’s CTSI predoctoral fellowship.

We also visited the daily operation of the ophthalmology clinic and Osaka University Hospital, and participated in the grand rounds of the local ophthalmologists. We experienced firsthand the passion of translational research from our Japanese colleagues.

Entrance hall of the medical building

A panoramic view at the top floor of the hospital.

We joined the grand rounds of the local ophthalmologists. Dr. Kohji Nishida welcomed the group and gave an opening speech.  Even though we did not speak Japanese, we witnessed their passion to improve clinical service through research.

Needless to say, we were also well-fed by Dr. Tsujikawa with the finest Japanese food, and took some time to visit Kyoto, a magnificent ancient city.

Dr. Motokazu fed us with delicious Japanese food!

A torii path at the Fushimi Inari Taisha in Kyoto.

Kinkaku-ji in Kyoto

Genomics

  1. Li X, Xiong X, Yi C. Epitranscriptome sequencing technologies: decoding RNA modifications. Nat Methods. 2016 Dec 29;14(1):23-31. doi: 10.1038/nmeth.4110. PubMed PMID: 28032622.
  2. Adamson B, Norman TM, Jost M, Cho MY, Nuñez JK, Chen Y, Villalta JE, Gilbert LA, Horlbeck MA, Hein MY, Pak RA, Gray AN, Gross CA, Dixit A, Parnas O, Regev A, Weissman JS. A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response. Cell. 2016 Dec 15;167(7):1867-1882.e21. doi: 10.1016/j.cell.2016.11.048. PubMed PMID: 27984733.
  3. Dixit A, Parnas O, Li B, Chen J, Fulco CP, Jerby-Arnon L, Marjanovic ND, Dionne D, Burks T, Raychowdhury R, Adamson B, Norman TM, Lander ES, Weissman JS, Friedman N, Regev A. Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens. Cell. 2016 Dec 15;167(7):1853-1866.e17. doi: 10.1016/j.cell.2016.11.038. PubMed PMID: 27984732; PubMed Central PMCID: PMC5181115.
  4. Jaitin DA, Weiner A, Yofe I, Lara-Astiaso D, Keren-Shaul H, David E, Salame TM, Tanay A, van Oudenaarden A, Amit I. Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq. Cell. 2016 Dec 15;167(7):1883-1896.e15. doi: 10.1016/j.cell.2016.11.039. PubMed PMID: 27984734.

RNA

  1. Rivas E, Clements J, Eddy SR. A statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs. Nat Methods. 2017 Jan;14(1):45-48. doi: 10.1038/nmeth.4066. PubMed PMID: 27819659.

Cell cycle

  1. Swaffer MP, Jones AW, Flynn HR, Snijders AP, Nurse P. CDK Substrate Phosphorylation and Ordering the Cell Cycle. Cell. 2016 Dec 15;167(7):1750-1761.e16. doi: 10.1016/j.cell.2016.11.034. PubMed PMID: 27984725; PubMed Central PMCID: PMC5161751.

Genome Editing

  1. Pawluk A, Amrani N, Zhang Y, Garcia B, Hidalgo-Reyes Y, Lee J, Edraki A, Shah M, Sontheimer EJ, Maxwell KL, Davidson AR. Naturally Occurring Off-Switches for CRISPR-Cas9. Cell. 2016 Dec 15;167(7):1829-1838.e9. doi: 10.1016/j.cell.2016.11.017. PubMed PMID: 27984730.
  2. Adamson B, Norman TM, Jost M, Cho MY, Nuñez JK, Chen Y, Villalta JE, Gilbert LA, Horlbeck MA, Hein MY, Pak RA, Gray AN, Gross CA, Dixit A, Parnas O, Regev A, Weissman JS. A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response. Cell. 2016 Dec 15;167(7):1867-1882.e21. doi: 10.1016/j.cell.2016.11.048. PubMed PMID: 27984733.
  3. Dixit A, Parnas O, Li B, Chen J, Fulco CP, Jerby-Arnon L, Marjanovic ND, Dionne D, Burks T, Raychowdhury R, Adamson B, Norman TM, Lander ES, Weissman JS, Friedman N, Regev A. Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens. Cell. 2016 Dec 15;167(7):1853-1866.e17. doi: 10.1016/j.cell.2016.11.038. PubMed PMID: 27984732; PubMed Central PMCID: PMC5181115.
  4. Jaitin DA, Weiner A, Yofe I, Lara-Astiaso D, Keren-Shaul H, David E, Salame TM, Tanay A, van Oudenaarden A, Amit I. Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq. Cell. 2016 Dec 15;167(7):1883-1896.e15. doi: 10.1016/j.cell.2016.11.039. PubMed PMID: 27984734.
  5. Sheridan C. CRISPR therapeutics push into human testing. Nat Biotechnol. 2017 Jan 10;35(1):3-5. doi: 10.1038/nbt0117-3. PubMed PMID: 28072788.

Zebrafish

  1. Reade A, Motta-Mena LB, Gardner KH, Stainier DY, Weiner OD, Woo S. TAEL: A zebrafish-optimized optogenetic gene expression system with fine spatial and temporal control. Development. 2016 Dec 19. pii: dev.139238. [Epub ahead of print] PubMed PMID: 27993986.

Stem Cells

  1. Mandai M, Fujii M, Hashiguchi T, Sunagawa GA, Ito S, Sun J, Kaneko J, Sho J, Yamada C, Takahashi M. iPSC-Derived Retina Transplants Improve Vision in rd1 End-Stage Retinal-Degeneration Mice. Stem Cell Reports. 2017 Jan 10;8(1):69-83. doi: 10.1016/j.stemcr.2016.12.008. PubMed PMID: 28076757.

				

Development

  1. Baxendale S, Whitfield TT. Methods to study the development, anatomy, and function of the zebrafish inner ear across the life course. Methods Cell Biol. 2016;134:165-209. doi: 10.1016/bs.mcb.2016.02.007. Epub 2016 Mar 9. PubMed PMID: 27312494.
  2. Simoes-Costa M, Bronner ME. Reprogramming of avian neural crest axial identity and cell fate. Science. 2016 Jun 24;352(6293):1570-3. doi: 10.1126/science.aaf2729. PubMed PMID: 27339986.

Genetics

  1. Birney E, Smith GD, Greally JM. Epigenome-wide Association Studies and the Interpretation of Disease -Omics. PLoS Genet. 2016 Jun 23;12(6):e1006105. doi: 10.1371/journal.pgen.1006105. eCollection 2016 Jun. Review. PubMed PMID: 27336614.

Molecular Biology

  1. Ellefson JW, Gollihar J, Shroff R, Shivram H, Iyer VR, Ellington AD. Synthetic evolutionary origin of a proofreading reverse transcriptase. Science. 2016 Jun 24;352(6293):1590-3. doi: 10.1126/science.aaf5409. PubMed PMID: 27339990.

Genome Editing

  1. Feng Y, Chen C, Han Y, Chen Z, Lu X, Liang F, Li S, Qin W, Lin S. Expanding CRISPR/Cas9 Genome Editing Capacity in Zebrafish Using SaCas9. G3 (Bethesda). 2016 Jun 17. pii: g3.116.031914. doi: 10.1534/g3.116.031914. [Epub ahead of print] PubMed PMID: 27317783.

Behaviour

  1. Peeters BW, Moeskops M, Veenvliet AR. Color Preference in Danio rerio: Effects of Age and Anxiolytic Treatments. Zebrafish. 2016 Aug;13(4):330-4. doi: 10.1089/zeb.2015.1150. PubMed PMID: 27333080.

Stem cells

  1. Clevers H. Modeling Development and Disease with Organoids. Cell. 2016 Jun 16;165(7):1586-97. doi: 10.1016/j.cell.2016.05.082. Review. PubMed PMID: 27315476.

Retina

  1. Malicki J, Pooranachandran N, Nikolaev A, Fang X, Avanesov A. Analysis of the retina in the zebrafish model. Methods Cell Biol. 2016;134:257-334. doi: 10.1016/bs.mcb.2016.04.017. Epub 2016 Jun 2. PubMed PMID: 27312496.
  2. Kim JW, Yang HJ, Oel AP, Brooks MJ, Jia L, Plachetzki DC, Li W, Allison WT, Swaroop A. Recruitment of Rod Photoreceptors from Short-Wavelength-Sensitive Cones during the Evolution of Nocturnal Vision in Mammals. Dev Cell. 2016 Jun 20;37(6):520-32. doi: 10.1016/j.devcel.2016.05.023. PubMed PMID: 27326930; PubMed Central PMCID: PMC4918105.


				

Retinal development

  1. Tian C, Zou S, Hu B. Extraocular Source of Oligodendrocytes Contribute to Retinal Myelination and Optokinetic Responses in Zebrafish. Invest Ophthalmol Vis Sci. 2016 Apr 1;57(4):2129-38. doi: 10.1167/iovs.15-17675. PubMed PMID: 27100159.
  2. Riesenberg AN, Brown NL. Cell autonomous and nonautonomous requirements for Delltalike1 during early mouse retinal neurogenesis. Dev Dyn. 2016 Jun;245(6):631-40. doi: 10.1002/dvdy.24402. Epub 2016 Apr 4. PubMed PMID: 26947267; PubMed Central PMCID: PMC4873400.

Scientific Career

  1. Mervis J. BEHIND THE NUMBERS. ‘Employment crisis’ for new Ph.D.s is an illusion. Science. 2016 May 20;352(6288):880. doi: 10.1126/science.352.6288.880. PubMed PMID: 27199396.

Evolution

  1. Karnkowska A, Vacek V, Zubáčová Z, Treitli SC, Petrželková R, Eme L, Novák L, Žárský V, Barlow LD, Herman EK, Soukal P, Hroudová M, Doležal P, Stairs CW, Roger AJ, Eliáš M, Dacks JB, Vlček Č, Hampl V. A Eukaryote without a Mitochondrial Organelle. Curr Biol. 2016 May 23;26(10):1274-84. doi: 10.1016/j.cub.2016.03.053. Epub 2016 May 12. PubMed PMID: 27185558.

Visual behaviour

  1. Orger MB. The Cellular Organization of Zebrafish Visuomotor Circuits. Curr Biol. 2016 May 9;26(9):R377-85. doi: 10.1016/j.cub.2016.03.054. Review. PubMed PMID: 27166700.
  2. Currie SP, Doherty GH, Sillar KT. Deep-brain photoreception links luminance detection to motor output in Xenopus frog tadpoles. Proc Natl Acad Sci U S A. 2016 May 24;113(21):6053-8. doi: 10.1073/pnas.1515516113. Epub 2016 May 10. PubMed PMID: 27166423.

Scientific publishing

  1. Berg JM, Bhalla N, Bourne PE, Chalfie M, Drubin DG, Fraser JS, Greider CW, Hendricks M, Jones C, Kiley R, King S, Kirschner MW, Krumholz HM, Lehmann R, Leptin M, Pulverer B, Rosenzweig B, Spiro JE, Stebbins M, Strasser C, Swaminathan S, Turner P, Vale RD, VijayRaghavan K, Wolberger C. SCIENTIFIC COMMUNITY. Preprints for the life sciences. Science. 2016 May 20;352(6288):899-901. doi: 10.1126/science.aaf9133. PubMed PMID: 27199406.
  2. Sarewitz D. The pressure to publish pushes down quality. Nature. 2016 May 11;533(7602):147. doi: 10.1038/533147a. PubMed PMID: 27172010.

Genome editing

  1. Abudayyeh OO, Gootenberg JS, Konermann S, Joung J, Slaymaker IM, Cox DB, Shmakov S, Makarova KS, Semenova E, Minakhin L, Severinov K, Regev A, Lander ES, Koonin EV, Zhang F. C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector. Science. 2016 Jun 2. pii: aaf5573. [Epub ahead of print] PubMed PMID: 27256883.

Zebrafish

  1. Sotolongo-Lopez M, Alvarez-Delfin K, Saade CJ, Vera DL, Fadool JM. Genetic Dissection of Dual Roles for the Transcription Factor six7 in Photoreceptor Development and Patterning in Zebrafish. PLoS Genet. 2016 Apr 8;12(4):e1005968. doi: 10.1371/journal.pgen.1005968. eCollection 2016 Apr. PubMed PMID: 27058886.

Genome editing

  1. Nelles DA, Fang MY, O’Connell MR, Xu JL, Markmiller SJ, Doudna JA, Yeo GW. Programmable RNA Tracking in Live Cells with CRISPR/Cas9. Cell. 2016 Mar 16. pii: S0092-8674(16)30204-5. doi: 10.1016/j.cell.2016.02.054. [Epub ahead of print] PubMed PMID: 26997482.
  2. Anders C, Bargsten K, Jinek M. Structural Plasticity of PAM Recognition by Engineered Variants of the RNA-Guided Endonuclease Cas9. Mol Cell. 2016 Mar 17;61(6):895-902. doi: 10.1016/j.molcel.2016.02.020. PubMed PMID: 26990992.
  3. Hirano S, Nishimasu H, Ishitani R, Nureki O. Structural Basis for the Altered PAM Specificities of Engineered CRISPR-Cas9. Mol Cell. 2016 Mar 17;61(6):886-94. doi: 10.1016/j.molcel.2016.02.018. PubMed PMID: 26990991.
  4. Kamiyama D, Sekine S, Barsi-Rhyne B, Hu J, Chen B, Gilbert LA, Ishikawa H, Leonetti MD, Marshall WF, Weissman JS, Huang B. Versatile protein tagging in cells with split fluorescent protein. Nat Commun. 2016 Mar 18;7:11046. doi: 10.1038/ncomms11046. PubMed PMID: 26988139; PubMed Central PMCID: PMC4802074.
  5. Horlbeck MA, Witkowsky LB, Guglielmi B, Replogle JM, Gilbert LA, Villalta JE, Torigoe SE, Tijan R, Weissman JS. Nucleosomes impede Cas9 access to DNA in vivo and in vitro. Elife. 2016 Mar 17;5. pii: e12677. doi: 10.7554/eLife.12677. [Epub ahead of print] PubMed PMID: 26987018.
  6. Kang X, He W, Huang Y, Yu Q, Chen Y, Gao X, Sun X, Fan Y. Introducing precise genetic modifications into human 3PN embryos by CRISPR/Cas-mediated genome editing. J Assist Reprod Genet. 2016 Apr 6. [Epub ahead of print] PubMed PMID: 27052831.
  7. Gao F, Shen XZ, Jiang F, Wu Y, Han C. DNA-guided genome editing using the Natronobacterium gregoryi Argonaute. Nat Biotechnol. 2016 May 2. doi: 10.1038/nbt.3547. [Epub ahead of print] PubMed PMID: 27136078.

Genetics

  1. Chen R, Shi L, Hakenberg J, Naughton B, Sklar P, Zhang J, Zhou H, Tian L, Prakash O, Lemire M, Sleiman P, Cheng WY, Chen W, Shah H, Shen Y, Fromer M, Omberg L, Deardorff MA, Zackai E, Bobe JR, Levin E, Hudson TJ, Groop L, Wang J, Hakonarson H, Wojcicki A, Diaz GA, Edelmann L, Schadt EE, Friend SH. Analysis of 589,306 genomes identifies individuals resilient to severe Mendelian childhood diseases. Nat Biotechnol. 2016 Apr 11. doi: 10.1038/nbt.3514. [Epub ahead of print] PubMed PMID: 27065010.

Zebrafish

  1. Adatto I, Krug L, Zon LI. The Red Light District and Its Effects on Zebrafish Reproduction. Zebrafish. 2016 Mar 15. [Epub ahead of print] PubMed PMID: 26978703.
  2. Brocal I, White RJ, Dooley CM, Carruthers SN, Clark R, Hall A, Busch-Nentwich EM, Stemple DL, Kettleborough RN. Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish. BMC Genomics. 2016 Mar 24;17(1):259. doi: 10.1186/s12864-016-2563-z. PubMed PMID: 27009152.
  3. Hoshijima K, Jurynec MJ, Grunwald DJ. Precise Editing of the Zebrafish Genome Made Simple and Efficient. Dev Cell. 2016 Mar 21;36(6):654-67. doi: 10.1016/j.devcel.2016.02.015. PubMed PMID: 27003937.
  4. Varshney GK, Zhang S, Pei W, Adomako-Ankomah A, Fohtung J, Schaffer K, Carrington B, Maskeri A, Slevin C, Wolfsberg T, Ledin J, Sood R, Burgess SM. CRISPRz: a database of zebrafish validated sgRNAs. Nucleic Acids Res. 2016 Jan 4;44(D1):D822-6. doi: 10.1093/nar/gkv998. Epub 2015 Oct 4. PubMed PMID: 26438539; PubMed Central PMCID: PMC4702947.

Retina

  1. Mullally M, Albrecht C, Horton M, Laboissonniere LA, Goetz JJ, Chowdhury R, Manning A, Wester AK, Bose Q, Trimarchi JM. Expression Profiling of Developing Zebrafish Retinal Cells. Zebrafish. 2016 Mar 16. [Epub ahead of print] PubMed PMID: 26982811.

Disease

  1. Roy DS, Arons A, Mitchell TI, Pignatelli M, Ryan TJ, Tonegawa S. Memory retrieval by activating engram cells in mouse models of early Alzheimer’s disease. Nature. 2016 Mar 16. doi: 10.1038/nature17172. [Epub ahead of print] PubMed PMID: 26982728.

Molecular Biology

  1. Louder RK, He Y, López-Blanco JR, Fang J, Chacón P, Nogales E. Structure of promoter-bound TFIID and model of human pre-initiation complex assembly. Nature. 2016 Mar 23. doi: 10.1038/nature17394. [Epub ahead of print] PubMed PMID: 27007846.

Cell Biology

  1. Norris DP, Jackson PK. Cell biology: Calcium contradictions in cilia. Nature. 2016 Mar 23. doi: 10.1038/nature17313. [Epub ahead of print] PubMed PMID: 27007852.

Systems Biology

  1. Hashimoto M, Nozoe T, Nakaoka H, Okura R, Akiyoshi S, Kaneko K, Kussell E, Wakamoto Y. Noise-driven growth rate gain in clonal cellular populations. Proc Natl Acad Sci U S A. 2016 Mar 7. pii: 201519412. [Epub ahead of print] PubMed PMID: 26951676.
  2. Davidi D, Noor E, Liebermeister W, Bar-Even A, Flamholz A, Tummler K, Barenholz U, Goldenfeld M, Shlomi T, Milo R. Global characterization of in vivo enzyme catalytic rates and their correspondence to in vitro kcat measurements. Proc Natl Acad Sci U S A. 2016 Mar 7. pii: 201514240. [Epub ahead of print] PubMed PMID: 26951675.

Genome editing

  1. Hoshijima K, Jurynec MJ, Grunwald DJ. Precise Editing of the Zebrafish Genome Made Simple and Efficient. Dev Cell. 2016 Mar 21;36(6):654-67. doi: 10.1016/j.devcel.2016.02.015. PubMed PMID: 27003937.
  2. Varshney GK, Zhang S, Pei W, Adomako-Ankomah A, Fohtung J, Schaffer K, Carrington B, Maskeri A, Slevin C, Wolfsberg T, Ledin J, Sood R, Burgess SM. CRISPRz: a database of zebrafish validated sgRNAs. Nucleic Acids Res. 2016 Jan 4;44(D1):D822-6. doi: 10.1093/nar/gkv998. Epub 2015 Oct 4. PubMed PMID: 26438539; PubMed Central PMCID: PMC4702947.


				

Molecular Biology

  1. Weingarten-Gabbay S, Elias-Kirma S, Nir R, Gritsenko AA, Stern-Ginossar N, Yakhini Z, Weinberger A, Segal E. Comparative genetics. Systematic discovery of cap-independent translation sequences in human and viral genomes. Science. 2016 Jan 15;351(6270). pii: aad4939. doi: 10.1126/science.aad4939. Epub 2016 Jan 14. PubMed PMID: 26816383.
  2. Bernecky C, Herzog F, Baumeister W, Plitzko JM, Cramer P. Structure of transcribing mammalian RNA polymerase II. Nature. 2016 Jan 20. doi: 10.1038/nature16482. [Epub ahead of print] PubMed PMID: 26789250.

Systems Biology

  1. Bartocci E, Lió P. Computational Modeling, Formal Analysis, and Tools for Systems Biology. PLoS Comput Biol. 2016 Jan 21;12(1):e1004591. doi: 10.1371/journal.pcbi.1004591. eCollection 2016 Jan. Review. PubMed PMID: 26795950.

Neuroscience

  1. Oliveira RF, Simões JM, Teles MC, Oliveira CR, Becker JD, Lopes JS. Assessment of fight outcome is needed to activate socially driven transcriptional changes in the zebrafish brain. Proc Natl Acad Sci U S A. 2016 Jan 19. pii: 201514292. [Epub ahead of print] PubMed PMID: 26787876.
  2. Randlett O, Wee CL, Naumann EA, Nnaemeka O, Schoppik D, Fitzgerald JE, Portugues R, Lacoste AM, Riegler C, Engert F, Schier AF. Whole-brain activity mapping onto a zebrafish brain atlas. Nat Methods. 2015 Nov;12(11):1039-1046. Epub 2015 Sep 14. PubMed PMID: 26778924; PubMed Central PMCID: PMC4710481.
  3. Liu Z, Li X, Zhang JT, Cai YJ, Cheng TL, Cheng C, Wang Y, Zhang CC, Nie YH, Chen ZF, Bian WJ, Zhang L, Xiao J, Lu B, Zhang YF, Zhang XD, Sang X, Wu JJ, Xu X, Xiong ZQ, Zhang F, Yu X, Gong N, Zhou WH, Sun Q, Qiu Z. Autism-like behaviours and germline transmission in transgenic monkeys overexpressing MeCP2. Nature. 2016 Jan 25. doi: 10.1038/nature16533. [Epub ahead of print] PubMed PMID: 26808898.
  4. Dunn TW, Gebhardt C, Naumann EA, Riegler C, Ahrens MB, Engert F, Del Bene F. Neural Circuits Underlying Visually Evoked Escapes in Larval Zebrafish. Neuron. 2016 Jan 19. pii: S0896-6273(15)01123-X. doi: 10.1016/j.neuron.2015.12.021. [Epub ahead of print] PubMed PMID: 26804997.

Genome editing

  1. Where genome editing is needed. Nat Genet. 2016 Jan 27;48(2):103. doi: 10.1038/ng.3505. PubMed PMID: 26813758.
  2. Huang S, Weigel D, Beachy RN, Li J. A proposed regulatory framework for genome-edited crops. Nat Genet. 2016 Jan 27;48(2):109-11. doi: 10.1038/ng.3484. PubMed PMID: 26813761.
  3. Kleinstiver BP, Pattanayak V, Prew MS, Tsai SQ, Nguyen NT, Zheng Z, Joung JK. High-fidelity CRISPR-Cas9 nucleases with no detectable genome-wide off-target effects. Nature. 2016 Jan 6. doi: 10.1038/nature16526. [Epub ahead of print] PubMed PMID: 26735016.
  4.  Slaymaker IM, Gao L, Zetsche B, Scott DA, Yan WX, Zhang F. Rationally engineered Cas9 nucleases with improved specificity. Science. 2016 Jan 1;351(6268):84-8. doi: 10.1126/science.aad5227. Epub 2015 Dec 1. PubMed PMID: 26628643; PubMed Central PMCID: PMC4714946.
  5. Urnov F. Genome editing: The domestication of Cas9. Nature. 2016 Jan 28;529(7587):468-9. doi: 10.1038/529468a. PubMed PMID: 26819037.

Eye diseases

  1. Fritsche LG, et al., A large genome-wide association study of age-related macular degeneration highlights contributions of rare and common variants. Nat Genet. 2015 Dec 21. doi: 10.1038/ng.3448. [Epub ahead of print] PubMed PMID: 26691988.
  2. Saksens NT, Krebs MP, Schoenmaker-Koller FE, Hicks W, Yu M, Shi L, Rowe L, Collin GB, Charette JR, Letteboer SJ, Neveling K, van Moorsel TW, Abu-Ltaif S, De Baere E, Walraedt S, Banfi S, Simonelli F, Cremers FP, Boon CJ, Roepman R, Leroy BP, Peachey NS, Hoyng CB, Nishina PM, den Hollander AI. Mutations in CTNNA1 cause butterfly-shaped pigment dystrophy and perturbed retinal pigment epithelium integrity. Nat Genet. 2015 Dec 21. doi: 10.1038/ng.3474. [Epub ahead of print] PubMed PMID: 26691986.
  3. Bailey JN, et al., Genome-wide association analysis identifies TXNRD2, ATXN2 and FOXC1 as susceptibility loci for primary open-angle glaucoma. Nat Genet. 2016 Jan 11. doi: 10.1038/ng.3482. [Epub ahead of print] PubMed PMID: 26752265.

Development

  1. Rajagopal J, Stanger BZ. Plasticity in the Adult: How Should the Waddington Diagram Be Applied to Regenerating Tissues? Dev Cell. 2016 Jan 25;36(2):133-137. doi: 10.1016/j.devcel.2015.12.021. Review. PubMed PMID: 26812013.
  2. Stegmaier J, Amat F, Lemon WC, McDole K, Wan Y, Teodoro G, Mikut R, Keller PJ. Real-Time Three-Dimensional Cell Segmentation in Large-Scale Microscopy Data of Developing Embryos. Dev Cell. 2016 Jan 25;36(2):225-240. doi: 10.1016/j.devcel.2015.12.028. PubMed PMID: 26812020.
  3. Yamauchi Y, Riel JM, Ruthig VA, Ortega EA, Mitchell MJ, Ward MA. Two genes substitute for the mouse Y chromosome for spermatogenesis and reproduction. Science. 2016 Jan 29;351(6272):514-6. doi: 10.1126/science.aad1795. PubMed PMID: 26823431.
  4. Quan XJ, Yuan L, Tiberi L, Claeys A, De Geest N, Yan J, van der Kant R, Xie WR, Klisch TJ, Shymkowitz J, Rousseau F, Bollen M, Beullens M, Zoghbi HY, Vanderhaeghen P, Hassan BA. Post-translational Control of the Temporal Dynamics of Transcription Factor Activity Regulates Neurogenesis. Cell. 2016 Jan 28;164(3):460-75. doi: 10.1016/j.cell.2015.12.048. PubMed PMID: 26824657.

Disease

  1. Kaufman CK, Mosimann C, Fan ZP, Yang S, Thomas AJ, Ablain J, Tan JL, Fogley RD, van Rooijen E, Hagedorn EJ, Ciarlo C, White RM, Matos DA, Puller AC, Santoriello C, Liao EC, Young RA, Zon LI. A zebrafish melanoma model reveals emergence of neural crest identity during melanoma initiation. Science. 2016 Jan 29;351(6272):aad2197. doi: 10.1126/science.aad2197. Epub 2016 Jan 28. PubMed PMID: 26823433.
 

Development

  1. Eom DS, Bain EJ, Patterson LB, Grout ME, Parichy DM. Long-distance communication by specialized cellular projections during pigment pattern development and evolution. Elife. 2015 Dec 23;4. pii: e12401. doi: 10.7554/eLife.12401. [Epub ahead of print] PubMed PMID: 26701906.

Stem cells

  1. Shirai H, Mandai M, Matsushita K, Kuwahara A, Yonemura S, Nakano T, Assawachananont J, Kimura T, Saito K, Terasaki H, Eiraku M, Sasai Y, Takahashi M. Transplantation of human embryonic stem cell-derived retinal tissue in two primate models of retinal degeneration. Proc Natl Acad Sci U S A. 2015 Dec 22. pii: 201512590. [Epub ahead of print] PubMed PMID: 26699487.

Zebrafish

  1. Stapel LC, Lombardot B, Broaddus C, Kainmueller D, Jug F, Myers EW, Vastenhouw NL. Automated detection and quantification of single RNAs at cellular resolution in zebrafish embryos. Development. 2015 Dec 23. pii: dev.128918. [Epub ahead of print] PubMed PMID: 26700682.

Genome editing

  1. Shmakov S, Abudayyeh OO, Makarova KS, Wolf YI, Gootenberg JS, Semenova E, Minakhin L, Joung J, Konermann S, Severinov K, Zhang F, Koonin EV. Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems. Mol Cell. 2015 Nov 5;60(3):385-97. doi: 10.1016/j.molcel.2015.10.008. Epub 2015 Oct 22. PubMed PMID: 26593719; PubMed Central PMCID: PMC4660269.
  2. Bolukbasi MF, Gupta A, Wolfe SA. Creating and evaluating accurate CRISPR-Cas9 scalpels for genomic surgery. Nat Methods. 2015 Dec 30;13(1):41-50. doi: 10.1038/nmeth.3684. PubMed PMID: 26716561.
  3. Kleinstiver BP, Pattanayak V, Prew MS, Tsai SQ, Nguyen NT, Zheng Z, Keith Joung J. High-fidelity CRISPR-Cas9 nucleases with no detectable genome-wide off-target effects. Nature. 2016 Jan 6. doi: 10.1038/nature16526. [Epub ahead of print] PubMed PMID: 26735016.
  4. Dominguez AA, Lim WA, Qi LS. Beyond editing: repurposing CRISPR-Cas9 for precision genome regulation and interrogation. Nat Rev Mol Cell Biol. 2016 Jan;17(1):5-15. doi: 10.1038/nrm.2015.2. Epub 2015 Dec 16. PubMed PMID: 26670017.
  5. Tabebordbar M, Zhu K, Cheng JK, Chew WL, Widrick JJ, Yan WX, Maesner C, Wu EY, Xiao R, Ran FA, Cong L, Zhang F, Vandenberghe LH, Church GM, Wagers AJ. In vivo gene editing in dystrophic mouse muscle and muscle stem cells. Science. 2015 Dec 31. pii: aad5177. [Epub ahead of print] PubMed PMID: 26721686.
  6. Nelson CE, Hakim CH, Ousterout DG, Thakore PI, Moreb EA, Rivera RM, Madhavan S, Pan X, Ran FA, Yan WX, Asokan A, Zhang F, Duan D, Gersbach CA. In vivo genome editing improves muscle function in a mouse model of Duchenne muscular dystrophy. Science. 2015 Dec 31. pii: aad5143. [Epub ahead of print] PubMed PMID: 26721684.
  7. Long C, Amoasii L, Mireault AA, McAnally JR, Li H, Sanchez-Ortiz E, Bhattacharyya S, Shelton JM, Bassel-Duby R, Olson EN. Postnatal genome editing partially restores dystrophin expression in a mouse model of muscular dystrophy. Science. 2015 Dec 31. pii: aad5725. [Epub ahead of print] PubMed PMID: 26721683.

Neuroscience

  1. Paonessa F, Criscuolo S, Sacchetti S, Amoroso D, Scarongella H, Pecoraro Bisogni F, Carminati E, Pruzzo G, Maragliano L, Cesca F, Benfenati F. Regulation of neural gene transcription by optogenetic inhibition of the RE1-silencing transcription factor. Proc Natl Acad Sci U S A. 2015 Dec 23. pii: 201507355. [Epub ahead of print] PubMed PMID: 26699507.

Imaging

  1. Tomer R, Lovett-Barron M, Kauvar I, Andalman A, Burns VM, Sankaran S, Grosenick L, Broxton M, Yang S, Deisseroth K. SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function. Cell. 2015 Dec 17;163(7):1796-806. doi: 10.1016/j.cell.2015.11.061. PubMed PMID: 26687363.

				

Eye disease

  1. Fritsche LG, et al. A large genome-wide association study of age-related macular degeneration highlights contributions of rare and common variants. Nat Genet. 2015 Dec 21. doi: 10.1038/ng.3448. [Epub ahead of print] PubMed PMID: 26691988.

Zebrafish Behaviour

  1. Prykhozhij SV, Rajan V, Berman JN. A Guide to Computational Tools and Design Strategies for Genome Editing Experiments in Zebrafish Using CRISPR/Cas9. Zebrafish. 2015 Dec 18. [Epub ahead of print] PubMed PMID: 26683213.
  2. Gao Y, Zhang G, Jelfs B, Carmer R, Venkatraman P, Ghadami M, Brown SA, Pang CP, Leung YF, Chan RH, Zhang M. Computational classification of different wild-type zebrafish strains based on their variation in light-induced locomotor response. Comput Biol Med. 2015 Nov 30;69:1-9. doi: 10.1016/j.compbiomed.2015.11.012. [Epub ahead of print] PubMed PMID: 26688204.

Genome Editing

  1. Sakuma T, Nakade S, Sakane Y, Suzuki KT, Yamamoto T. MMEJ-assisted gene knock-in using TALENs and CRISPR-Cas9 with the PITCh systems. Nat Protoc. 2016 Jan;11(1):118-33. doi: 10.1038/nprot.2015.140. Epub 2015 Dec 17. PubMed PMID: 26678082.
  2. Lackner DH, Carré A, Guzzardo PM, Banning C, Mangena R, Henley T, Oberndorfer S, Gapp BV, Nijman SM, Brummelkamp TR, Bürckstümmer T. A generic strategy for CRISPR-Cas9-mediated gene tagging. Nat Commun. 2015 Dec 17;6:10237. doi: 10.1038/ncomms10237. PubMed PMID: 26674669.
  3. Prykhozhij SV, Rajan V, Berman JN. A Guide to Computational Tools and Design Strategies for Genome Editing Experiments in Zebrafish Using CRISPR/Cas9. Zebrafish. 2015 Dec 18. [Epub ahead of print] PubMed PMID: 26683213. Doudna J. Genome-editing revolution: My whirlwind year with CRISPR. Nature. 2015 Dec 24;528(7583):469-71. doi: 10.1038/528469a. PubMed PMID: 26701037.
  4. Gagnon KT, Corey DR. Stepping toward therapeutic CRISPR. Proc Natl Acad Sci U S A. 2015 Dec 22;112(51):15536-7. doi: 10.1073/pnas.1521670112. Epub 2015 Dec 7. PubMed PMID: 26644585.
  5. Rahdar M, McMahon MA, Prakash TP, Swayze EE, Bennett CF, Cleveland DW. Synthetic CRISPR RNA-Cas9-guided genome editing in human cells. Proc Natl Acad Sci U S A. 2015 Dec 22;112(51):E7110-7. doi: 10.1073/pnas.1520883112. Epub 2015 Nov 16. PubMed PMID: 26589814.

Diseases

  1. Pankow S, Bamberger C, Calzolari D, Martínez-Bartolomé S, Lavallée-Adam M, Balch WE, Yates JR 3rd. ∆F508 CFTR interactome remodelling promotes rescue of cystic fibrosis. Nature. 2015 Dec 24;528(7583):510-6. doi: 10.1038/nature15729. Epub 2015 Nov 30. PubMed PMID: 26618866.

Imaging

  1. Barna L, Dudok B, Miczán V, Horváth A, László ZI, Katona I. Correlated confocal and super-resolution imaging by VividSTORM. Nat Protoc. 2016 Jan;11(1):163-183. doi: 10.1038/nprot.2016.002. Epub 2015 Dec 30. PubMed PMID: 26716705.
  2. Murray E, Cho JH, Goodwin D, Ku T, Swaney J, Kim SY, Choi H, Park YG, Park JY, Hubbert A, McCue M, Vassallo S, Bakh N, Frosch MP, Wedeen VJ, Seung HS, Chung K. Simple, Scalable Proteomic Imaging for High-Dimensional Profiling of Intact Systems. Cell. 2015 Dec 3;163(6):1500-14. doi: 10.1016/j.cell.2015.11.025. PubMed PMID: 26638076.
  3. Errico C, Pierre J, Pezet S, Desailly Y, Lenkei Z, Couture O, Tanter M. Ultrafast ultrasound localization microscopy for deep super-resolution vascular imaging. Nature. 2015 Nov 26;527(7579):499-502. doi: 10.1038/nature16066. PubMed PMID: 26607546.

Development

  1. Camp JG, Badsha F, Florio M, Kanton S, Gerber T, Wilsch-Bräuninger M, Lewitus E, Sykes A, Hevers W, Lancaster M, Knoblich JA, Lachmann R, Pääbo S, Huttner WB, Treutlein B. Human cerebral organoids recapitulate gene expression programs of fetal neocortex development. Proc Natl Acad Sci U S A. 2015 Dec 22;112(51):15672-7. doi: 10.1073/pnas.1520760112. Epub 2015 Dec 7. PubMed PMID: 26644564.

				

Genome editing

  1. Knight SC, Xie L, Deng W, Guglielmi B, Witkowsky LB, Bosanac L, Zhang ET, El Beheiry M, Masson JB, Dahan M, Liu Z, Doudna JA, Tjian R. Dynamics of CRISPR-Cas9 genome interrogation in living cells. Science. 2015 Nov 13;350(6262):823-6. doi: 10.1126/science.aac6572. PubMed PMID: 26564855.
  2. Kiani S, Chavez A, Tuttle M, Hall RN, Chari R, Ter-Ovanesyan D, Qian J, Pruitt BW, Beal J, Vora S, Buchthal J, Kowal EJ, Ebrahimkhani MR, Collins JJ, Weiss R, Church G. Cas9 gRNA engineering for genome editing, activation and repression. Nat Methods. 2015 Nov;12(11):1051-4. doi: 10.1038/nmeth.3580. Epub 2015 Sep 7. PubMed PMID: 26344044.
  3. Reardon S. Leukaemia success heralds wave of gene-editing therapies. Nature. 2015 Nov 12;527(7577):146-7. doi: 10.1038/nature.2015.18737. PubMed PMID: 26560278.
  4. Mathews DJ, Lovell-Badge R, Chan S, Donovan PJ, Douglas T, Gyngell C, Harris J, Regenberg A. CRISPR: A path through the thicket. Nature. 2015 Nov 12;527(7577):159-61. doi: 10.1038/527159a. PubMed PMID: 26560284.
  5. Canver MC, Smith EC, Sher F, Pinello L, Sanjana NE, Shalem O, Chen DD, Schupp PG, Vinjamur DS, Garcia SP, Luc S, Kurita R, Nakamura Y, Fujiwara Y, Maeda T, Yuan GC, Zhang F, Orkin SH, Bauer DE. BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis. Nature. 2015 Sep 16.
  6. Weber J, Öllinger R, Friedrich M, Ehmer U, Barenboim M, Steiger K, Heid I, Mueller S, Maresch R, Engleitner T, Gross N, Geumann U, Fu B, Segler A, Yuan D, Lange S, Strong A, de la Rosa J, Esposito I, Liu P, Cadiñanos J, Vassiliou GS, Schmid RM, Schneider G, Unger K, Yang F, Braren R, Heikenwälder M, Varela I, Saur D, Bradley A, Rad R. CRISPR/Cas9 somatic multiplex-mutagenesis for high-throughput functional cancer genomics in mice. Proc Natl Acad Sci U S A. 2015 Oct 27. pii: 201512392. [Epub ahead of print] PubMed PMID: 26508638.
  7. Carroll D, Charo RA. The societal opportunities and challenges of genome editing. Genome Biol. 2015 Nov 5;16(1):242.
  8. Ma E, Harrington LB, O’Connell MR, Zhou K, Doudna JA. Single-Stranded DNA Cleavage by Divergent CRISPR-Cas9 Enzymes. Mol Cell. 2015 Nov 5;60(3):398-407.
  9. Zetsche B, Gootenberg JS, Abudayyeh OO, Slaymaker IM, Makarova KS,
    Essletzbichler P, Volz SE, Joung J, van der Oost J, Regev A, Koonin EV, Zhang F.  Cpf1 Is a Single RNA-Guided Endonuclease of a Class 2 CRISPR-Cas System. Cell. 2015 Sep 23. pii: S0092-8674(15)01200-3. doi: 10.1016/j.cell.2015.09.038. [Epub ahead of print] PubMed PMID: 26422227.
  10. Carrington B, Varshney GK, Burgess SM, Sood R. CRISPR-STAT: an easy and reliable PCR-based method to evaluate target-specific sgRNA activity. Nucleic Acids Res. 2015 Aug 7. pii: gkv802. [Epub ahead of print] PubMed PMID: 26253739.
  11. Varshney GK, Pei W, LaFave MC, Idol J, Xu L, Gallardo V, Carrington B, Bishop K, Jones M, Li M, Harper U, Huang SC, Prakash A, Chen W, Sood R, Ledin J, Burgess SM. High-throughput gene targeting and phenotyping in zebrafish using CRISPR/Cas9. Genome Res. 2015 Jul;25(7):1030-42. doi: 10.1101/gr.186379.114. Epub 2015 Jun 5. PubMed PMID: 26048245; PubMed Central PMCID: PMC4484386.
  12. Bachu R, Bergareche I, Chasin LA. CRISPR-Cas targeted plasmid integration into mammalian cells via non-homologous end joining. Biotechnol Bioeng. 2015 May 5. doi: 10.1002/bit.25629. [Epub ahead of print] PubMed PMID: 25943095.

Genomics

  1. Grün D, van Oudenaarden A. Design and Analysis of Single-Cell Sequencing Experiments. Cell. 2015 Nov 5;163(4):799-810. doi: 10.1016/j.cell.2015.10.039. Review. PubMed PMID: 26544934.
  2. Duttke SH, Lacadie SA, Ibrahim MM, Glass CK, Corcoran DL, Benner C, Heinz S, Kadonaga JT, Ohler U. Human promoters are intrinsically directional. Mol Cell. 2015 Feb 19;57(4):674-84.
  3. Spisák S, Lawrenson K, Fu Y, Csabai I, Cottman RT, Seo JH, Haiman C, Han Y, Lenci R, Li Q, Tisza V, Szállási Z, Herbert ZT, Chabot M, Pomerantz M, Solymosi N; GAME-ON/ELLIPSE Consortium, Gayther SA, Joung JK, Freedman ML. CAUSEL: an epigenome- and genome-editing pipeline for establishing function of noncoding GWAS variants. Nat Med. 2015 Sep 23. doi: 10.1038/nm.3975. [Epub ahead of print] PubMed PMID: 26398868.
  4. Sudmant PH, Rausch T, Gardner EJ, Handsaker RE, Abyzov A, Huddleston J, Zhang Y, Ye K, Jun G, Hsi-Yang Fritz M, Konkel MK, Malhotra A, Stütz AM, Shi X, Paolo Casale F, Chen J, Hormozdiari F, Dayama G, Chen K, Malig M, Chaisson MJ, Walter K, Meiers S, Kashin S, Garrison E, Auton A, Lam HY, Jasmine Mu X, Alkan C, Antaki D, Bae T, Cerveira E, Chines P, Chong Z, Clarke L, Dal E, Ding L, Emery S, Fan X, Gujral M, Kahveci F, Kidd JM, Kong Y, Lameijer EW, McCarthy S, Flicek P, Gibbs RA, Marth G, Mason CE, Menelaou A, Muzny DM, Nelson BJ, Noor A, Parrish NF, Pendleton M, Quitadamo A, Raeder B, Schadt EE, Romanovitch M, Schlattl A, Sebra R, Shabalin AA, Untergasser A, Walker JA, Wang M, Yu F, Zhang C, Zhang J, Zheng-Bradley X, Zhou W, Zichner T, Sebat J, Batzer MA, McCarroll SA; 1000 Genomes Project Consortium, Mills RE, Gerstein MB, Bashir A, Stegle O, Devine SE, Lee C, Eichler EE, Korbel JO. An integrated map of structural variation in 2,504 human genomes. Nature. 2015 Oct 1;526(7571):75-81. doi: 10.1038/nature15394.PubMed PMID: 26432246; PubMed Central PMCID: PMC4617611.
  5. Cho MK. Preventive Genomic Sequencing in the General Population: Do PGS Fly? Am J Bioeth. 2015 Jul;15(7):1-2. doi: 10.1080/15265161.2015.1054160. PubMed PMID: 26147253.

Science Magazine Special Issue—Hunting Mutations, Targeting Disease

Statistics

  1. Lo A, Chernoff H, Zheng T, Lo SH. Why significant variables aren’t automatically good predictors. Proc Natl Acad Sci U S A. 2015 Oct 26. pii:201518285. [Epub ahead of print] PubMed PMID: 26504198.

Development

  1. Barsi JC, Tu Q, Calestani C, Davidson EH. Genome-wide assessment of differential effector gene use in embryogenesis. Development. 2015 Sep 28. pii: dev.127746. [Epub ahead of print] PubMed PMID: 26417044.
  2. Siklenka K, Erkek S, Godmann M, Lambrot R, McGraw S, Lafleur C, Cohen T, Xia J, Suderman M, Hallett M, Trasler J, Peters AH, Kimmins S. Disruption of histone methylation in developing sperm impairs offspring health transgenerationally. Science. 2015 Nov 6;350(6261):aab2006. doi: 10.1126/science.aab2006. Epub 2015 Oct 8. PubMed PMID: 26449473.

Stem cells

  1. Choi J, Lee S, Mallard W, Clement K, Tagliazucchi GM, Lim H, Choi IY, Ferrari F, Tsankov AM, Pop R, Lee G, Rinn JL, Meissner A, Park PJ, Hochedlinger K. A comparison of genetically matched cell lines reveals the equivalence of human iPSCs and ESCs. Nat Biotechnol. 2015 Nov;33(11):1173-1181.
  2. Firth AL, Menon T, Parker GS, Qualls SJ, Lewis BM, Ke E, Dargitz CT, Wright R, Khanna A, Gage FH, Verma IM. Functional Gene Correction for Cystic Fibrosis in Lung Epithelial Cells Generated from Patient iPSCs. Cell Rep. 2015 Aug 19. pii: S2211-1247(15)00852-9. doi: 10.1016/j.celrep.2015.07.062. [Epub ahead of print] PubMed PMID: 26299960.

Regeneration

  1. Ueki Y, Wilken MS, Cox KE, Chipman L, Jorstad N, Sternhagen K, Simic M, Ullom K, Nakafuku M, Reh TA. Transgenic expression of the proneural transcription factor Ascl1 in Müller glia stimulates retinal regeneration in young mice. Proc Natl Acad Sci U S A. 2015 Oct 19. pii: 201510595. [Epub ahead of print] PubMed PMID: 26483457.

Retina/Photoreceptor

  1. Taylor SM, Alvarez-Delfin K, Saade CJ, Thomas JL, Thummel R, Fadool JM, Hitchcock PF. The bHLH Transcription Factor NeuroD Governs  Photoreceptor Genesis and Regeneration Through Delta-Notch Signaling. Invest Ophthalmol Vis Sci. 2015 Nov 1;56(12):7496-7515.
  2. Hernández-Bejarano M, Gestri G, Spawls L, Nieto-López F, Picker A, Tada M, Brand M, Bovolenta P, Wilson SW, Cavodeassi F. Opposing Shh and Fgf signals initiate nasotemporal patterning of the retina. Development. 2015 Oct 1. pii: dev.125120. [Epub ahead of print] PubMed PMID: 26428010.
  3. Tsujimura T, Masuda R, Ashino R, Kawamura S. Spatially differentiated
    expression of quadruplicated green-sensitive RH2 opsin genes in zebrafish is determined by proximal regulatory regions and gene order to the locus control region. BMC Genet. 2015 Nov 4;16(1):130.
  4. Boije H, Rulands S, Dudczig S, Simons BD, Harris WA. The Independent
    Probabilistic Firing of Transcription Factors: A Paradigm for Clonal Variability in the Zebrafish Retina. Dev Cell. 2015 Sep 2. pii: S1534-5807(15)00525-0.
  5. Chow RW, Almeida AD, Randlett O, Norden C, Harris WA. Inhibitory neuron migration and IPL formation in the developing zebrafish retina. Development. 2015 Jun 26. pii: dev.122473. [Epub ahead of print] PubMed PMID: 26116662.
  6. Ogawa Y, Shiraki T, Kojima D, Fukada Y. Homeobox transcription factor Six7 governs expression of green opsin genes in zebrafish. Proc Biol Sci. 2015 Aug 7;282(1812). pii: 20150659. doi: 10.1098/rspb.2015.0659. PubMed PMID: 26180064.

Eye disease

  1. Zhao L, Chen XJ, Zhu J, Xi YB, Yang X, Hu LD, Ouyang H, Patel SH, Jin X, Lin D, Wu F, Flagg K, Cai H, Li G, Cao G, Lin Y, Chen D, Wen C, Chung C, Wang Y, Qiu A, Yeh E, Wang W, Hu X, Grob S, Abagyan R, Su Z, Tjondro HC, Zhao XJ, Luo H, Hou R, Perry JJ, Gao W, Kozak I, Granet D, Li Y, Sun X, Wang J, Zhang L, Liu Y, Yan YB, Zhang K. Lanosterol reverses protein aggregation in cataracts. Nature. 2015 Jul 30;523(7562):607-11. doi: 10.1038/nature14650. Epub 2015 Jul 22. Erratum in:  Nature. 2015 Oct 22;526(7574):595. PubMed PMID: 26200341.
  2. Makley LN, McMenimen KA, DeVree BT, Goldman JW, McGlasson BN, Rajagopal P, Dunyak BM, McQuade TJ, Thompson AD, Sunahara R, Klevit RE, Andley UP, Gestwicki JE. Pharmacological chaperone for α-crystallin partially restores transparency in cataract models. Science. 2015 Nov 6;350(6261):674-7. doi: 10.1126/science.aac9145. PubMed PMID: 26542570.
  3. Commentary: Quinlan RA. DRUG DISCOVERY. A new dawn for cataracts. Science. 2015 Nov 6;350(6261):636-7. doi: 10.1126/science.aad6303. PubMed PMID: 26542559.

Zebrafish

  1. Xu C, Volkery S, Siekmann AF. Intubation-based anesthesia for long-term time-lapse imaging of adult zebrafish. Nat Protoc. 2015 Dec;10(12):2064-2073.
  2. Pauli A, Montague TG, Lennox KA, Behlke MA, Schier AF. Antisense Oligonucleotide-Mediated Transcript Knockdown in Zebrafish. PLoS One. 2015 Oct 5;10(10):e0139504. doi: 10.1371/journal.pone.0139504. eCollection 2015. PubMed PMID: 26436892; PubMed Central PMCID: PMC4593562.

Research Career

  1. Jackson ST. Going where the science matters. Science. 2015 Oct
    30;350(6260):594. doi: 10.1126/science.350.6260.594. PubMed PMID: 26516284.

Medicine

  1. Henao-Restrepo AM, Longini IM, Egger M, Dean NE, Edmunds WJ, Camacho A, Carroll MW, Doumbia M, Draguez B, Duraffour S, Enwere G, Grais R, Gunther S, Hossmann S, Kondé MK, Kone S, Kuisma E, Levine MM, Mandal S, Norheim G, Riveros X, Soumah A, Trelle S, Vicari AS, Watson CH, Kéïta S, Kieny MP, Røttingen JA. Efficacy and effectiveness of an rVSV-vectored vaccine expressing Ebola surface glycoprotein: interim results from the Guinea ring vaccination cluster-randomised trial. Lancet. 2015 Aug 29;386(9996):857-66. doi: 10.1016/S0140-6736(15)61117-5. Epub 2015 Aug 3. PubMed PMID: 26248676.