Posts tagged ‘neuroscience’

Neuroscience

  1. Robie AA, Hirokawa J, Edwards AW, Umayam LA, Lee A, Phillips ML, Card GM, Korff W, Rubin GM, Simpson JH, Reiser MB, Branson K. Mapping the Neural Substrates of Behavior. Cell. 2017 Jul 13;170(2):393-406.e28. doi: 10.1016/j.cell.2017.06.032. PubMed PMID: 28709004.
  2. Smith K. How to map the circuits that define us. Nature. 2017 Aug 9;548(7666):150-152. doi: 10.1038/548150a. PubMed PMID: 28796220.

Evolution

  1. Sousa AMM, Meyer KA, Santpere G, Gulden FO, Sestan N. Evolution of the Human Nervous System Function, Structure, and Development. Cell. 2017 Jul 13;170(2):226-247. doi: 10.1016/j.cell.2017.06.036. Review. PubMed PMID: 28708995.

Genetics

  1. New concerns raised over value of genome-wide disease studies

Cell biology

  1. Biology of single cells shines a light on collaboration. Nature. 2017 Jul 5;547(7661):5. doi: 10.1038/547005a. PubMed PMID: 28682351.

Genomics

  1. Nagano T, Lubling Y, Várnai C, Dudley C, Leung W, Baran Y, Mendelson Cohen N, Wingett S, Fraser P, Tanay A. Cell-cycle dynamics of chromosomal organization at single-cell resolution. Nature. 2017 Jul 5;547(7661):61-67. doi: 10.1038/nature23001. PubMed PMID: 28682332.

Molecular Biology

  1. Lin YL, Pasero P. Transcription-Replication Conflicts: Orientation Matters. Cell. 2017 Aug 10;170(4):603-604. doi: 10.1016/j.cell.2017.07.040. PubMed PMID: 28802036.

Genome editing

  1. Ma H, Marti-Gutierrez N, Park SW, Wu J, Lee Y, Suzuki K, Koski A, Ji D, Hayama T, Ahmed R, Darby H, Van Dyken C, Li Y, Kang E, Park AR, Kim D, Kim ST, Gong J, Gu Y, Xu X, Battaglia D, Krieg SA, Lee DM, Wu DH, Wolf DP, Heitner SB, Belmonte JCI, Amato P, Kim JS, Kaul S, Mitalipov S. Correction of a pathogenic gene mutation in human embryos. Nature. 2017 Aug 2. doi: 10.1038/nature23305. [Epub ahead of print] PubMed PMID: 28783728.

Genome editing

  1. Scheufele DA, Xenos MA, Howell EL, Rose KM, Brossard D, Hardy BW. U.S. attitudes on human genome editing. Science. 2017 Aug 11;357(6351):553-554. doi: 10.1126/science.aan3708. PubMed PMID: 28798120.
  2. Amitai G, Sorek R. Intracellular signaling in CRISPR-Cas defense. Science. 2017 Aug 11;357(6351):550-551. doi: 10.1126/science.aao2210. PubMed PMID: 28798118.
  3. Kazlauskiene M, Kostiuk G, Venclovas Č, Tamulaitis G, Siksnys V. A cyclic oligonucleotide signaling pathway in type III CRISPR-Cas systems. Science. 2017 Aug 11;357(6351):605-609. doi: 10.1126/science.aao0100. Epub 2017 Jun 29. PubMed PMID: 28663439.

Eye

  1. Madl T. Patchy proteins form a perfect lens. Science. 2017 Aug 11;357(6351):546-547. doi: 10.1126/science.aao1456. PubMed PMID: 28798115.
  2. Cai J, Townsend JP, Dodson TC, Heiney PA, Sweeney AM. Eye patches: Protein assembly of index-gradient squid lenses. Science. 2017 Aug 11;357(6351):564-569. doi: 10.1126/science.aal2674. PubMed PMID: 28798124.

Funding

  1. Levitt M, Levitt JM. Future of fundamental discovery in US biomedical research. Proc Natl Acad Sci U S A. 2017 Jun 20;114(25):6498-6503. doi: 10.1073/pnas.1609996114. Epub 2017 Jun 5. PubMed PMID: 28584129; PubMed Central PMCID: PMC5488913.

Behaviour

  1. Palmér T, Ek F, Enqvist O, Olsson R, Åström K, Petersson P. Action sequencing in the spontaneous swimming behavior of zebrafish larvae – implications for drug development. Sci Rep. 2017 Jun 9;7(1):3191. doi: 10.1038/s41598-017-03144-7. PubMed PMID: 28600565; PubMed Central PMCID: PMC5466685.
  2. Vliet SM, Ho TC, Volz DC. Behavioral screening of the LOPAC(1280) library in zebrafish embryos. Toxicol Appl Pharmacol. 2017 Jun 13. pii: S0041-008X(17)30267-3. doi: 10.1016/j.taap.2017.06.011. [Epub ahead of print] PubMed PMID: 28623180.

Funding

  1. Kaiser J. NIH abandons grant cap, offers new help to younger scientists. Science. 2017 Jun 16;356(6343):1108. doi: 10.1126/science.356.6343.1108. PubMed PMID: 28619891.
  2. Wahls WP. NIH’s ineffective funding policies. Science. 2017 Jun 16;356(6343):1132-1133. doi: 10.1126/science.aan6504. PubMed PMID: 28619908.

Genetics

  1. Cassels L, Barde YA. Scaling pain threshold with microRNAs. Science. 2017 Jun 16;356(6343):1124-1125. doi: 10.1126/science.aan6784. PubMed PMID: 28619901.
  2. Peng C, Li L, Zhang MD, Bengtsson Gonzales C, Parisien M, Belfer I, Usoskin D, Abdo H, Furlan A, Häring M, Lallemend F, Harkany T, Diatchenko L, Hökfelt T, Hjerling-Leffler J, Ernfors P. miR-183 cluster scales mechanical pain sensitivity by regulating basal and neuropathic pain genes. Science. 2017 Jun 16;356(6343):1168-1171. doi: 10.1126/science.aam7671. Epub 2017 Jun 1. PubMed PMID: 28572455.

Genomics

  1. Shekhar K, Lapan SW, Whitney IE, Tran NM, Macosko EZ, Kowalczyk M, Adiconis X, Levin JZ, Nemesh J, Goldman M, McCarroll SA, Cepko CL, Regev A, Sanes JR. Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics. Cell. 2016 Aug 25;166(5):1308-1323.e30. doi: 10.1016/j.cell.2016.07.054. PubMed PMID: 27565351; PubMed Central PMCID: PMC5003425.

Vision

  1. Sabbah S, Gemmer JA, Bhatia-Lin A, Manoff G, Castro G, Siegel JK, Jeffery N, Berson DM. A retinal code for motion along the gravitational and body axes. Nature. 2017 Jun 7. doi: 10.1038/nature22818. [Epub ahead of print] PubMed PMID: 28607486.
  2. Demb JB, Clark DA. Vision: These retinas are made for walkin’. Nature. 2017 Jun 7. doi: 10.1038/nature22505. [Epub ahead of print] PubMed PMID: 28607483

Genome editing

  1. Stella S, Alcón P, Montoya G. Structure of the Cpf1 endonuclease R-loop complex after target DNA cleavage. Nature. 2017 May 31. doi: 10.1038/nature22398. [Epub ahead of print] PubMed PMID: 28562584.
  2. Palermo G, Miao Y, Walker RC, Jinek M, McCammon JA. CRISPR-Cas9 conformational activation as elucidated from enhanced molecular simulations. Proc Natl Acad Sci U S A. 2017 Jun 26. pii: 201707645. doi: 10.1073/pnas.1707645114. [Epub ahead of print] PubMed PMID: 28652374.
  3. Shipman SL, Nivala J, Macklis JD, Church GM. CRISPR-Cas encoding of a digital movie into the genomes of a population of living bacteria. Nature. 2017 Jul 12. doi: 10.1038/nature23017. [Epub ahead of print] PubMed PMID: 28700573.

Stem cell

  1. Servick K. Stem cell approach for cataracts challenged. Science. 2017 Jun 30;356(6345):1318-1319. doi: 10.1126/science.356.6345.1318. PubMed PMID: 28663449.

Eye disease

  1. Servick K. Stem cell approach for cataracts challenged. Science. 2017 Jun 30;356(6345):1318-1319. doi: 10.1126/science.356.6345.1318. PubMed PMID: 28663449.

Ecology/Evolution

  1. Ceballos G, Ehrlich PR, Dirzo R. Biological annihilation via the ongoing sixth mass extinction signaled by vertebrate population losses and declines. Proc Natl Acad Sci U S A. 2017 Jul 10. pii: 201704949. doi: 10.1073/pnas.1704949114. [Epub ahead of print] PubMed PMID: 28696295.
  2. Castiglione GM, Hauser FE, Liao BS, Lujan NK, Van Nynatten A, Morrow JM, Schott RK, Bhattacharyya N, Dungan SZ, Chang BSW. Evolution of nonspectral rhodopsin function at high altitudes. Proc Natl Acad Sci U S A. 2017 Jun 22. pii: 201705765. doi: 10.1073/pnas.1705765114. [Epub ahead of print] PubMed PMID: 28642345.

Imaging

  1. Hildebrand DGC, Cicconet M, Torres RM, Choi W, Quan TM, Moon J, Wetzel AW, Scott Champion A, Graham BJ, Randlett O, Plummer GS, Portugues R, Bianco IH, Saalfeld S, Baden AD, Lillaney K, Burns R, Vogelstein JT, Schier AF, Lee WA, Jeong WK, Lichtman JW, Engert F. Whole-brain serial-section electron microscopy in larval zebrafish. Nature. 2017 May 18;545(7654):345-349. doi: 10.1038/nature22356. Epub 2017 May 10. PubMed PMID: 28489821.

Neuroscience

  1. Ciabatti E, González-Rueda A, Mariotti L, Morgese F, Tripodi M. Life-Long Genetic and Functional Access to Neural Circuits Using Self-Inactivating Rabies Virus. Cell. 2017 Jul 1. pii: S0092-8674(17)30697-9. doi: 10.1016/j.cell.2017.06.014. [Epub ahead of print] PubMed PMID: 28689641.

Neuroscience

  1. Dresler M, Shirer WR, Konrad BN, Müller NC, Wagner IC, Fernández G, Czisch M, Greicius MD. Mnemonic Training Reshapes Brain Networks to Support Superior Memory. Neuron. 2017 Mar 8;93(5):1227-1235.e6. doi: 10.1016/j.neuron.2017.02.003. PubMed PMID: 28279356.
  2. Burton CE, Zhou Y, Bai Q, Burton EA. Spectral properties of the zebrafish visual motor response. Neurosci Lett. 2017 Mar 3. pii: S0304-3940(17)30204-5. doi: 10.1016/j.neulet.2017.03.002. [Epub ahead of print] PubMed PMID: 28267562.

Genome editing

  1. Tang L, Zeng Y, Du H, Gong M, Peng J, Zhang B, Lei M, Zhao F, Wang W, Li X, Liu J. CRISPR/Cas9-mediated gene editing in human zygotes using Cas9 protein. Mol Genet Genomics. 2017 Mar 1. doi: 10.1007/s00438-017-1299-z. [Epub ahead of print] PubMed PMID: 28251317.
  2. Hohmann S. Editor’s comment on “CRISPR/Cas9-mediated gene editing in human zygotes using Cas9 protein”. Mol Genet Genomics. 2017 Mar 1. doi: 10.1007/s00438-017-1300-x. [Epub ahead of print] PubMed PMID: 28251316.

ELSI

  1. Williams WM, Ceci SJ. National hiring experiments reveal 2:1 faculty preference for women on STEM tenure track. Proc Natl Acad Sci U S A. 2015 Apr 28;112(17):5360-5. doi: 10.1073/pnas.1418878112. PubMed PMID: 25870272; PubMed Central PMCID: PMC4418903.

Genome editing

  1. Why the CRISPR patent verdict isn’t the end of the story
  2. Burstein D, Harrington LB, Strutt SC, Probst AJ, Anantharaman K, Thomas BC, Doudna JA, Banfield JF. New CRISPR-Cas systems from uncultivated microbes. Nature. 2017 Feb 9;542(7640):237-241. doi: 10.1038/nature21059. PubMed PMID: 28005056; PubMed Central PMCID: PMC5300952.

Imaging

  1. Pan C, Cai R, Quacquarelli FP, Ghasemigharagoz A, Lourbopoulos A, Matryba P, Plesnila N, Dichgans M, Hellal F, Ertürk A. Shrinkage-mediated imaging of entire organs and organisms using uDISCO. Nat Methods. 2016 Oct;13(10):859-67. doi: 10.1038/nmeth.3964. PubMed PMID: 27548807.

Neuroscience

  1. Krakauer JW, Ghazanfar AA, Gomez-Marin A, MacIver MA, Poeppel D. Neuroscience Needs Behavior: Correcting a Reductionist Bias. Neuron. 2017 Feb 8;93(3):480-490. doi: 10.1016/j.neuron.2016.12.041. Review. PubMed PMID: 28182904.
  2. Jonas E, Kording KP. Could a Neuroscientist Understand a Microprocessor? PLoS Comput Biol. 2017 Jan 12;13(1):e1005268. doi: 10.1371/journal.pcbi.1005268. PubMed PMID: 28081141; PubMed Central PMCID: PMC5230747.

Medicine

  1. Dowdy SF. Overcoming cellular barriers for RNA therapeutics. Nat Biotechnol. 2017 Feb 27. doi: 10.1038/nbt.3802. [Epub ahead of print] PubMed PMID: 28244992.
  2. Khvorova A, Watts JK. The chemical evolution of oligonucleotide therapies of clinical utility. Nat Biotechnol. 2017 Feb 27. doi: 10.1038/nbt.3765. [Epub ahead of print] PubMed PMID: 28244990.

Genomics

  1. Martelotto LG, Baslan T, Kendall J, Geyer FC, Burke KA, Spraggon L, Piscuoglio S, Chadalavada K, Nanjangud G, Ng CK, Moody P, D’Italia S, Rodgers L, Cox H, da Cruz Paula A, Stepansky A, Schizas M, Wen HY, King TA, Norton L, Weigelt B, Hicks JB, Reis-Filho JS. Whole-genome single-cell copy number profiling from formalin-fixed paraffin-embedded samples. Nat Med. 2017 Feb 6. doi: 10.1038/nm.4279. [Epub ahead of print] PubMed PMID: 28165479.

Genetics

  1. Bilow M, Crespo F, Pan Z, Eskin E, Eyheramendy S. Simultaneous Modeling of Disease Status and Clinical Phenotypes to Increase Power in GWAS. Genetics. 2017 Jan 27. pii: genetics.116.198473. doi: 10.1534/genetics.116.198473. [Epub ahead of print] PubMed PMID: 28132020.

				

Eye diseases

  1. Lin H, Ouyang H, Zhu J, Huang S, Liu Z, Chen S, Cao G, Li G, Signer RA, Xu Y, Chung C, Zhang Y, Lin D, Patel S, Wu F, Cai H, Hou J, Wen C, Jafari M, Liu X, Luo L, Zhu J, Qiu A, Hou R, Chen B, Chen J, Granet D, Heichel C, Shang F, Li X, Krawczyk M, Skowronska-Krawczyk D, Wang Y, Shi W, Chen D, Zhong Z, Zhong S, Zhang L, Chen S, Morrison SJ, Maas RL, Zhang K, Liu Y. Lens regeneration using endogenous stem cells with gain of visual function. Nature. 2016 Mar 9. doi: 10.1038/nature17181. [Epub ahead of print] PubMed PMID: 26958831. News release: Stem Cells Regenerate Human Lens After Cataract Surgery, Restoring Vision
  2. Hayashi R, Ishikawa Y, Sasamoto Y, Katori R, Nomura N, Ichikawa T, Araki S, Soma T, Kawasaki S, Sekiguchi K, Quantock AJ, Tsujikawa M, Nishida K. Co-ordinated ocular development from human iPS cells and recovery of corneal function. Nature. 2016 Mar 9. doi: 10.1038/nature17000. [Epub ahead of print] PubMed PMID: 26958835.

Stem cells

  1. Sridhar A, Ohlemacher SK, Langer KB, Meyer JS. Robust Differentiation of mRNA-Reprogrammed Human Induced Pluripotent Stem Cells Toward a Retinal Lineage. Stem Cells Transl Med. 2016 Mar 1. pii: sctm.2015-0093. [Epub ahead of print] PubMed PMID: 26933039.
  2. Sagi I, Chia G, Golan-Lev T, Peretz M, Weissbein U, Sui L, Sauer MV, Yanuka O, Egli D, Benvenisty N. Derivation and differentiation of haploid human embryonic stem cells. Nature. 2016 Mar 16. doi: 10.1038/nature17408. [Epub ahead of print] PubMed PMID: 26982723.

Development

  1. Pueschel R, Coraggio F, Meister P. From single genes to entire genomes: the search for a function of nuclear organization. Development. 2016 Mar 15;143(6):910-23. doi: 10.1242/dev.129007. Review. PubMed PMID: 26980791.
  2. Salomon DR. A CRISPR Way to Block PERVs – Engineering Organs for Transplantation. N Engl J Med. 2016 Mar 17;374(11):1089-1091. PubMed PMID: 26981939.

Neuroscience

  1. Mullins C, Fishell G, Tsien RW. Unifying Views of Autism Spectrum Disorders: A Consideration of Autoregulatory Feedback Loops. Neuron. 2016 Mar 16;89(6):1131-56. doi: 10.1016/j.neuron.2016.02.017. Review. PubMed PMID: 26985722.
  2. Hazen JL, Faust GG, Rodriguez AR, Ferguson WC, Shumilina S, Clark RA, Boland MJ, Martin G, Chubukov P, Tsunemoto RK, Torkamani A, Kupriyanov S, Hall IM, Baldwin KK. The Complete Genome Sequences, Unique Mutational Spectra, and Developmental Potency of Adult Neurons Revealed by Cloning. Neuron. 2016 Mar 16;89(6):1223-36. doi: 10.1016/j.neuron.2016.02.004. Epub 2016 Mar 3. PubMed PMID: 26948891; PubMed Central PMCID: PMC4795965.

Mathematics

  1. Castelvecchi D. Fermat’s last theorem earns Andrew Wiles the Abel Prize. Nature. 2016 Mar 17;531(7594):287. doi: 10.1038/nature.2016.19552. PubMed PMID: 26983518.

Genetics

  1. Gage SH, Davey Smith G, Ware JJ, Flint J, Munafò MR. G = E: What GWAS Can Tell Us about the Environment. PLoS Genet. 2016 Feb 11;12(2):e1005765. doi: 10.1371/journal.pgen.1005765. eCollection 2016 Feb. PubMed PMID: 26866486.
  2. Murray A. Salvador Luria and Max Delbrück on Random Mutation and Fluctuation Tests. Genetics. 2016 Feb;202(2):367-8. doi: 10.1534/genetics.115.186163. PubMed PMID: 26869479.

Neuroscience

  1. A Zebrafish Genetic Screen Identifies Neuromedin U as a Regulator of Sleep/Wake States Zebrafish Reel in Phenotypic Suppressors of Autism Estrogens Suppress a Behavioral Phenotype in Zebrafish Mutants of the Autism Risk Gene, CNTNAP2
  2. Carr F. Reward: A separate sweet circuit. Nat Rev Neurosci. 2016 Feb 11. doi: 10.1038/nrn.2016.19. [Epub ahead of print] PubMed PMID: 26865014.

Evolution

  1. Fox D. What sparked the Cambrian explosion? Nature. 2016 Feb 18;530(7590):268-70. doi: 10.1038/530268a. PubMed PMID: 26887475.
  2. McGowan KA, Barsh GS. How the zebrafish got its stripes. Elife. 2016 Feb 15;5. pii: e14239. doi: 10.7554/eLife.14239. PubMed PMID: 26880558.

Scientific publication

  1. Callaway E, Powell K. Biologists urged to hug a preprint. Nature. 2016 Feb 18;530(7590):265. doi: 10.1038/530265a. PubMed PMID: 26887471.
  2. Powell K. Does it take too long to publish research? Nature. 2016 Feb 11;530(7589):148-51. doi: 10.1038/530148a. PubMed PMID: 26863966.

Development

  1. Webb AB, Lengyel IM, Jörg DJ, Valentin G, Jülicher F, Morelli LG, Oates AC. Persistence, period and precision of autonomous cellular oscillators from the zebrafish segmentation clock. Elife. 2016 Feb 16;5. pii: e08438. doi: 10.7554/eLife.08438. [Epub ahead of print] PubMed PMID: 26880542.

Genome editing

  1. Nyerges Á, Csörgő B, Nagy I, Bálint B, Bihari P, Lázár V, Apjok G, Umenhoffer K, Bogos B, Pósfai G, Pál C. A highly precise and portable genome engineering method allows comparison of mutational effects across bacterial species. Proc Natl Acad Sci U S A. 2016 Feb 16. pii: 201520040. [Epub ahead of print] PubMed PMID: 26884157.
  2. Wong AS, Choi GC, Cui CH, Pregernig G, Milani P, Adam M, Perli SD, Kazer SW, Gaillard A, Hermann M, Shalek AK, Fraenkel E, Lu TK. Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM. Proc Natl Acad Sci U S A. 2016 Feb 10. pii: 201517883. [Epub ahead of print] PubMed PMID: 26864203.
  3. Hirano H, Gootenberg JS, Horii T, Abudayyeh OO, Kimura M, Hsu PD, Nakane T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O. Structure and Engineering of Francisella novicida Cas9. Cell. 2016 Feb 10. pii: S0092-8674(16)30053-8. doi: 10.1016/j.cell.2016.01.039. [Epub ahead of print] PubMed PMID: 26875867.
  4. Orkin SH. Recent advances in globin research using genome-wide association studies and gene editing. Ann N Y Acad Sci. 2016 Feb 11. doi: 10.1111/nyas.13001. [Epub ahead of print] PubMed PMID: 26866328.

				

Scientific publishing

  1. Gibney E. Open journals that piggyback on arXiv gather momentum. Nature. 2016 Feb 4;530(7588):117-8. PubMed PMID: 26854297.

Genome editing

  1. Wu B, Luo L, Gao XJ. Cas9-triggered chain ablation of cas9 as a gene drive brake. Nat Biotechnol. 2016 Feb 5;34(2):137-8. doi: 10.1038/nbt.3444. PubMed PMID: 26849513.
  2. Alphey L. Can CRISPR-Cas9 gene drives curb malaria? Nat Biotechnol. 2016 Feb 5;34(2):149-50. doi: 10.1038/nbt.3473. PubMed PMID: 26849518.
  3. Rajagopal N, Srinivasan S, Kooshesh K, Guo Y, Edwards MD, Banerjee B, Syed T, Emons BJ, Gifford DK, Sherwood RI. High-throughput mapping of regulatory DNA. Nat Biotechnol. 2016 Feb;34(2):167-74. doi: 10.1038/nbt.3468. Epub 2016 Jan 25. PubMed PMID: 26807528.
  4. Korkmaz G, Lopes R, Ugalde AP, Nevedomskaya E, Han R, Myacheva K, Zwart W, Elkon R, Agami R. Functional genetic screens for enhancer elements in the human genome using CRISPR-Cas9. Nat Biotechnol. 2016 Feb;34(2):192-8. doi: 10.1038/nbt.3450. Epub 2016 Jan 11. PubMed PMID: 26751173.
  5. Zhou Y, Wei W. Mapping regulatory elements. Nat Biotechnol. 2016 Feb 5;34(2):151-2. doi: 10.1038/nbt.3477. PubMed PMID: 26849519.
  6. Doench JG, Fusi N, Sullender M, Hegde M, Vaimberg EW, Donovan KF, Smith I, Tothova Z, Wilen C, Orchard R, Virgin HW, Listgarten J, Root DE. Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9. Nat Biotechnol. 2016 Feb;34(2):184-91. doi: 10.1038/nbt.3437. Epub 2016 Jan 18. PubMed PMID: 26780180; PubMed Central PMCID: PMC4744125.
  7. Farasat I, Salis HM. A Biophysical Model of CRISPR/Cas9 Activity for Rational Design of Genome Editing and Gene Regulation. PLoS Comput Biol. 2016 Jan 29;12(1):e1004724. doi: 10.1371/journal.pcbi.1004724. eCollection 2016 Jan. PubMed PMID: 26824432; PubMed Central PMCID: PMC4732943.

Neuroscience

  1. Fuzik J, Zeisel A, Máté Z, Calvigioni D, Yanagawa Y, Szabó G, Linnarsson S, Harkany T. Integration of electrophysiological recordings with single-cell RNA-seq data identifies neuronal subtypes. Nat Biotechnol. 2016 Feb;34(2):175-83. doi: 10.1038/nbt.3443. Epub 2015 Dec 21. PubMed PMID: 26689544.
  2. Cadwell CR, Palasantza A, Jiang X, Berens P, Deng Q, Yilmaz M, Reimer J, Shen S, Bethge M, Tolias KF, Sandberg R, Tolias AS. Electrophysiological, transcriptomic and morphologic profiling of single neurons using Patch-seq. Nat Biotechnol. 2016 Feb;34(2):199-203. doi: 10.1038/nbt.3445. Epub 2015 Dec 21. PubMed PMID: 26689543.

Disease

  1. Mlakar J, Korva M, Tul N, Popović M, Poljšak-Prijatelj M, Mraz J, Kolenc M, Resman Rus K, Vesnaver Vipotnik T, Fabjan Vodušek V, Vizjak A, Pižem J, Petrovec M, Avšič Županc T. Zika Virus Associated with Microcephaly. N Engl J Med. 2016 Feb 10. [Epub ahead of print] PubMed PMID: 26862926.

ESLI

  1. Baker M. Biotech giant publishes failures to confirm high-profile science. Nature. 2016 Feb 11;530(7589):141. doi: 10.1038/nature.2016.19269. PubMed PMID: 26863961.

Stem cells

  1. Chakradhar S. An eye to the future: Researchers debate best path for stem cell-derived therapies. Nat Med. 2016 Feb 4;22(2):116-9. doi: 10.1038/nm0216-116. PubMed PMID: 26845400.
  2. Scognamiglio R, Cabezas-Wallscheid N, Thier MC, Altamura S, Reyes A, Prendergast ÁM, Baumgärtner D, Carnevalli LS, Atzberger A, Haas S, von Paleske L, Boroviak T, Wörsdörfer P, Essers MA, Kloz U, Eisenman RN, Edenhofer F, Bertone P, Huber W, van der Hoeven F, Smith A, Trumpp A. Myc Depletion Induces a Pluripotent Dormant State Mimicking Diapause. Cell. 2016 Feb 11;164(4):668-80. doi: 10.1016/j.cell.2015.12.033. PubMed PMID: 26871632.

Systems Biology

  1. Yang X, Coulombe-Huntington J, Kang S, Sheynkman GM, Hao T, Richardson A, Sun S, Yang F, Shen YA, Murray RR, Spirohn K, Begg BE, Duran-Frigola M, MacWilliams A, Pevzner SJ, Zhong Q, Trigg SA, Tam S, Ghamsari L, Sahni N, Yi S, Rodriguez MD, Balcha D, Tan G, Costanzo M, Andrews B, Boone C, Zhou XJ, Salehi-Ashtiani K, Charloteaux B, Chen AA, Calderwood MA, Aloy P, Roth FP, Hill DE, Iakoucheva LM, Xia Y, Vidal M. Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing. Cell. 2016 Feb 11;164(4):805-17. doi: 10.1016/j.cell.2016.01.029. PubMed PMID: 26871637.
  2. Morsut L, Roybal KT, Xiong X, Gordley RM, Coyle SM, Thomson M, Lim WA. Engineering Customized Cell Sensing and Response Behaviors Using Synthetic Notch Receptors. Cell. 2016 Feb 11;164(4):780-91. doi: 10.1016/j.cell.2016.01.012. Epub 2016 Jan 28. PubMed PMID: 26830878; PubMed Central PMCID: PMC4752866.
  3. Tsiairis CD, Aulehla A. Self-Organization of Embryonic Genetic Oscillators into Spatiotemporal Wave Patterns. Cell. 2016 Feb 11;164(4):656-67. doi: 10.1016/j.cell.2016.01.028. PubMed PMID: 26871631.
  4. Sylwestrak EL, Rajasethupathy P, Wright MA, Jaffe A, Deisseroth K. Multiplexed Intact-Tissue Transcriptional Analysis at Cellular Resolution. Cell. 2016 Feb 11;164(4):792-804. doi: 10.1016/j.cell.2016.01.038. PubMed PMID: 26871636.

Development

  1. Tsiairis CD, Aulehla A. Self-Organization of Embryonic Genetic Oscillators into Spatiotemporal Wave Patterns. Cell. 2016 Feb 11;164(4):656-67. doi: 10.1016/j.cell.2016.01.028. PubMed PMID: 26871631.

Genomics

  1. Shen SQ, Myers CA, Hughes AE, Byrne LC, Flannery JG, Corbo JC. Massively parallel cis-regulatory analysis in the mammalian central nervous system. Genome Res. 2016 Feb;26(2):238-55. doi: 10.1101/gr.193789.115. Epub 2015 Nov 17. PubMed PMID: 26576614.
  2. Quick J, et al., . Real-time, portable genome sequencing for Ebola surveillance. Nature. 2016 Feb 3. doi: 10.1038/nature16996. [Epub ahead of print] PubMed PMID: 26840485.

Neuroscience

  1. Ishiko N, Huberman AD. Life goes by: a visual circuit signals perceptual-motor mismatch. Nat Neurosci. 2016 Jan 27;19(2):177-9. doi: 10.1038/nn.4233. PubMed PMID: 26814584.
  2. Tasic B, Menon V, Nguyen TN, Kim TK, Jarsky T, Yao Z, Levi B, Gray LT, Sorensen SA, Dolbeare T, Bertagnolli D, Goldy J, Shapovalova N, Parry S, Lee C, Smith K, Bernard A, Madisen L, Sunkin SM, Hawrylycz M, Koch C, Zeng H. Adult mouse cortical cell taxonomy revealed by single cell transcriptomics. Nat Neurosci. 2016 Feb;19(2):335-46. doi: 10.1038/nn.4216. Epub 2016 Jan 4. PubMed PMID: 26727548.
  3. Chen HH, Arlotta P. Seq-ing the cortex one neuron at a time. Nat Neurosci. 2016 Jan 27;19(2):179-81. doi: 10.1038/nn.4230. PubMed PMID: 26814585.
  4. Johnson MR, Shkura K, Langley SR, Delahaye-Duriez A, Srivastava P, Hill WD, Rackham OJ, Davies G, Harris SE, Moreno-Moral A, Rotival M, Speed D, Petrovski S, Katz A, Hayward C, Porteous DJ, Smith BH, Padmanabhan S, Hocking LJ, Starr JM, Liewald DC, Visconti A, Falchi M, Bottolo L, Rossetti T, Danis B, Mazzuferi M, Foerch P, Grote A, Helmstaedter C, Becker AJ, Kaminski RM, Deary IJ, Petretto E. Systems genetics identifies a convergent gene network for cognition and neurodevelopmental disease. Nat Neurosci. 2016 Feb;19(2):223-32. doi: 10.1038/nn.4205. Epub 2015 Dec 21. PubMed PMID: 26691832.
  5. Yoshimatsu T, D’Orazi FD, Gamlin CR, Suzuki SC, Suli A, Kimelman D, Raible DW, Wong RO. Presynaptic partner selection during retinal circuit reassembly varies with timing of neuronal regeneration in vivo. Nat Commun. 2016 Feb 3;7:10590. doi: 10.1038/ncomms10590. PubMed PMID: 26838932.
  6. Hoffman EJ, Turner KJ, Fernandez JM, Cifuentes D, Ghosh M, Ijaz S, Jain RA, Kubo F, Bill BR, Baier H, Granato M, Barresi MJ, Wilson SW, Rihel J, State MW, Giraldez AJ. Estrogens Suppress a Behavioral Phenotype in Zebrafish Mutants of the Autism Risk Gene, CNTNAP2. Neuron. 2016 Jan 27. pii: S0896-6273(15)01167-8. doi: 10.1016/j.neuron.2015.12.039. [Epub ahead of print] PubMed PMID: 26833134.

Development

  1. Rister J, Razzaq A, Boodram P, Desai N, Tsanis C, Chen H, Jukam D, Desplan C. Single-base pair differences in a shared motif determine differential Rhodopsin expression. Science. 2015 Dec 4;350(6265):1258-61. doi: 10.1126/science.aab3417. PubMed PMID: 26785491.

Genome editing

  1. Farasat I, Salis HM. A Biophysical Model of CRISPR/Cas9 Activity for Rational Design of Genome Editing and Gene Regulation. PLoS Comput Biol. 2016 Jan 29;12(1):e1004724. doi: 10.1371/journal.pcbi.1004724. eCollection 2016 Jan. PubMed PMID: 26824432.
  2.  Song J, Yang D, Xu J, Zhu T, Chen YE, Zhang J. RS-1 enhances CRISPR/Cas9- and TALEN-mediated knock-in efficiency. Nat Commun. 2016 Jan 28;7:10548. doi: 10.1038/ncomms10548. PubMed PMID: 26817820.
  3. Jiang F, Taylor DW, Chen JS, Kornfeld JE, Zhou K, Thompson AJ, Nogales E, Doudna JA. Structures of a CRISPR-Cas9 R-loop complex primed for DNA cleavage. Science. 2016 Jan 14. pii: aad8282. [Epub ahead of print] PubMed PMID: 26841432.
  4.  Jusiak B, Cleto S, Perez-Piñera P, Lu TK. Engineering Synthetic Gene Circuits in Living Cells with CRISPR Technology. Trends Biotechnol. 2016 Jan 22. pii: S0167-7799(15)00274-7. doi: 10.1016/j.tibtech.2015.12.014. [Epub ahead of print] Review. PubMed PMID: 26809780.

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.