October: 366 papers in 2016

Oct 1:

Mallon, John, and Scott Bailey. “A molecular arms race: new insights into anti-CRISPR mechanisms.Nature Structural & Molecular Biology 23, no. 9 (2016): 765-766.

Oct 2:

Lagarde, Julien, Barbara Uszczynska-Ratajczak, Javier Santoyo-Lopez, Jose Manuel Gonzalez, Electra Tapanari, Jonathan M. Mudge, Charles A. Steward et al. “Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq).Nature communications 7 (2016).

Oct 3:

Fan, Chenguang, Kevan Ip, and Dieter Söll. “Expanding the genetic code of Escherichia coli with phosphotyrosine.FEBS letters 590, no. 17 (2016): 3040-3047.

Oct 4:

Lajoie, M. J., D. Söll, and G. M. Church. “Overcoming challenges in engineering the genetic code.Journal of molecular biology 428, no. 5 (2016): 1004-1021.

Oct 5:

Jewett, Michael C., and Vincent Noireaux. “Synthetic biology: Tailor-made genetic codes.” Nature chemistry 8, no. 4 (2016): 291-292.

Oct 6:

Qiu, Jing, Jamie McQueen, Bilada Bilican, Owen Dando, Dario Magnani, Karolina Punovuori, Bhuvaneish T. Selvaraj et al. “Evidence for evolutionary divergence of activity-dependent gene expression in developing neurons.” eLife 5 (2016): e20337.

Oct 7:

Venter, J. Craig, Mark D. Adams, Eugene W. Myers, Peter W. Li, Richard J. Mural, Granger G. Sutton, Hamilton O. Smith et al. “The sequence of the human genome.science 291, no. 5507 (2001): 1304-1351.

Oct 8:

Roby, Justin Alexander, Brian C. Keller, Hilario J. Ramos, Michael S. Diamond, and Michael J. Gale. “The JAK/STAT signaling cascades of multiple cytokines are dysregulated during West Nile virus infection.The Journal of Immunology 196, no. 1 Supplement (2016): 217-38.

Oct 9:

Yang, Hairu, and Dan Hultmark. “JAK/STAT and insulin signaling in Drosophila muscles regulate cellular immune responses against parasitoid wasp infection.” (2016).

Oct 10:

Seldon, Crystal S., Lauren E. Colbert, William A. Hall, Sarah B. Fisher, David S. Yu, and Jerome C. Landry. “Chromodomain-helicase-DNA binding protein 5, 7 and pronecrotic mixed lineage kinase domain-like protein serve as potential prognostic biomarkers in patients with resected pancreatic adenocarcinomas.” World journal of gastrointestinal oncology 8, no. 4 (2016): 358.

Oct 11:

Kusano, Seisuke, Mutsuko Kukimoto‐Niino, Nobumasa Hino, Noboru Ohsawa, Masashi Ikutani, Satoshi Takaki, Kensaku Sakamoto et al. “Structural basis of interleukin‐5 dimer recognition by its α receptor.Protein Science 21, no. 6 (2012): 850-864.

Oct 12:

Ernst, Matthias, and Tracy L. Putoczki. “Molecular Pathways: IL11 as a Tumor-Promoting Cytokine—Translational Implications for Cancers.Clinical Cancer Research 20, no. 22 (2014): 5579-5588.

Oct 13:

Robinson, Mark D., Davis J. McCarthy, and Gordon K. Smyth. “edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.Bioinformatics 26, no. 1 (2010): 139-140.

Oct 14:

Babon, Jeffrey J., Jennifer K. Sabo, Jian-Guo Zhang, Nicos A. Nicola, and Raymond S. Norton. “The SOCS box encodes a hierarchy of affinities for Cullin5: implications for ubiquitin ligase formation and cytokine signalling suppression.Journal of molecular biology 387, no. 1 (2009): 162-174.

Oct 15:

Owen, Dianne, and L. C. Kühn. “Noncoding 3’sequences of the transferrin receptor gene are required for mRNA regulation by iron.” The EMBO Journal 6, no. 5 (1987): 1287.

Oct 16:

Privalov, Petkr L., Pedro L. Mateo, Nikolai N. Khechinashvili, Valentin M. Stepanov, and Lyudmila P. Revina. “Comparative thermodynamic study of pepsinogen and pepsin structure.Journal of molecular biology 152, no. 2 (1981): 445-464.

Oct 17:

Abad‐Zapatero, Cele, Timothy J. Rydel, and John Erickson. “Revised 2.3 Å structure of porcine pepsin: evidence for a flexible subdomain.Proteins: Structure, Function, and Bioinformatics 8, no. 1 (1990): 62-81.

Oct 18:

Turpin, David H. “Effects of inorganic N availability on algal photosynthesis and carbon metabolism.” Journal of Phycology 27, no. 1 (1991): 14-20.

Oct 19:

Peisker, M. “Models of carbon metabolism in C3‐C4 intermediate plants as applied to the evolution of C4 photosynthesis.Plant, Cell & Environment 9, no. 8 (1986): 627-635.

Oct 20:

Kanyenda, Limbikani J., Guiseppe Verdile, Ralph Martins, Bruno P. Meloni, Joanne Chieng, Francis Mastaglia, Simon M. Laws, Ryan S. Anderton, and Sherif Boulos. “Is cholesterol and amyloid-β stress induced CD147 expression a protective response? Evidence that extracellular cyclophilin a mediated neuroprotection is reliant on CD147.” Journal of Alzheimer’s Disease 39, no. 3 (2014): 545-556.

Oct 21:

Meloni, Bruno P., Laura M. Brookes, Vince W. Clark, Jane L. Cross, Adam B. Edwards, Ryan S. Anderton, Richard M. Hopkins, Katrin Hoffmann, and Neville W. Knuckey. “Poly-arginine and arginine-rich peptides are neuroprotective in stroke models.” Journal of Cerebral Blood Flow & Metabolism 35, no. 6 (2015): 993-1004.

Oct 22:

Allegre, Claude J., and Stephen H. Schneider. “The evolution of the Earth.Scientific American 271 (1994): 44-51.

Oct 23:

Margulis, Lynn. “Symbiosis in cell evolution: Life and its environment on the early earth.” (1981).

Oct 24:

Li, Ming O., and Alexander Y. Rudensky. “T cell receptor signalling in the control of regulatory T cell differentiation and function.Nature Reviews Immunology 16, no. 4 (2016): 220-233.

Oct 25:

Takeuchi, Osamu. “Posttranscriptional Regulation of Cytokine mRNA Controls the Initiation and Resolution of Inflammation.Chronic Inflammation: Mechanisms and Regulation (2016): 319.

Oct 26:

Haskett, Timothy L., Jason J. Terpolilli, Amanuel Bekuma, Graham W. O’Hara, John T. Sullivan, Penghao Wang, Clive W. Ronson, and Joshua P. Ramsay. “Assembly and transfer of tripartite integrative and conjugative genetic elements.Proceedings of the National Academy of Sciences (2016): 201613358.

Oct 27:

Bombicz, Petra. “X-ray crystallography.” Crystallography Reviews 22, no. 1 (2016): 79-81.

Oct 28:

Shen, Jian-Ren. “Crystallography: Resolution beyond the diffraction limit.” Nature 530, no. 7589 (2016): 168-169.

Oct 29:

Bedi, Rajiv K., Chandan Patel, Vandana Mishra, Huogen Xiao, Rickey Y. Yada, and Prasenjit Bhaumik. “Understanding the structural basis of substrate recognition by Plasmodium falciparum plasmepsin V to aid in the design of potent inhibitors.” Scientific Reports 6 (2016).

Oct 30:

Orlenko, Alena, Russell A. Hermansen, and David A. Liberles. “Flux Control in Glycolysis Varies Across the Tree of Life.” Journal of molecular evolution 82, no. 2-3 (2016): 146-161.

Oct 31:

Havird, Justin C., and Daniel B. Sloan. “The roles of mutation, selection, and expression in determining relative rates of evolution in mitochondrial vs. nuclear genomes.” Molecular Biology and Evolution (2016): msw185.

 

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September: 366 papers in 2016

Sept 1:

Schindler, Christian, David E. Levy, and Thomas Decker. “JAK-STAT signaling: from interferons to cytokines.” Journal of Biological Chemistry 282, no. 28 (2007): 20059-20063.

Sept 2:

Breems, Dimitri A., Wim LJ Van Putten, Georgine E. De Greef, Shama L. Van Zelderen-Bhola, Klasien BJ Gerssen-Schoorl, Clemens HM Mellink, Aggie Nieuwint et al. “Monosomal karyotype in acute myeloid leukemia: a better indicator of poor prognosis than a complex karyotype.Journal of Clinical Oncology 26, no. 29 (2008): 4791-4797.

Sept 3:

Stevenson, Brian J., Nelson Rhodes, Beverly Errede, and George F. Sprague. “Constitutive mutants of the protein kinase STE11 activate the yeast pheromone response pathway in the absence of the G protein.Genes & development 6, no. 7 (1992): 1293-1304.

Sept 4:

Armstrong, John B., Julius Adler, and Margaret M. Dahl. “Nonchemotactic mutants of Escherichia coli.Journal of bacteriology 93, no. 1 (1967): 390-398.

Sept 5:

Armstrong, John B., and Julius Adler. “Genetics of motility in Escherichia coli: complementation of paralyzed mutants.Genetics 56, no. 3 (1967): 363.

Sept 6:

Horvitz, H. Robert, and John E. Sulston. “Isolation and genetic characterization of cell-lineage mutants of the nematode Caenorhabditis elegans.” Genetics 96, no. 2 (1980): 435-454.

Sept 7:

Dickson, B., F. Sprenger, and E. Hafen. “Prepattern in the developing Drosophila eye revealed by an activated torso–sevenless chimeric receptor.Genes & Development 6, no. 12a (1992): 2327-2339.

Sept 8:

Jinek, Martin, Alexandra East, Aaron Cheng, Steven Lin, Enbo Ma, and Jennifer Doudna. “RNA-programmed genome editing in human cells.elife 2 (2013): e00471.

Sept 9:

Larson, Matthew H., Luke A. Gilbert, Xiaowo Wang, Wendell A. Lim, Jonathan S. Weissman, and Lei S. Qi. “CRISPR interference (CRISPRi) for sequence-specific control of gene expression.” Nature protocols 8, no. 11 (2013): 2180-2196.

Sept 10:

Bedell, Victoria M., Stephanie E. Westcot, and Stephen C. Ekker. “Lessons from morpholino-based screening in zebrafish.Briefings in functional genomics (2011): elr021.

Sept 11:

Sessions, Allen, Ellen Burke, Gernot Presting, George Aux, John McElver, David Patton, Bob Dietrich et al. “A high-throughput Arabidopsis reverse genetics system.The Plant Cell 14, no. 12 (2002): 2985-2994.

Sept 12:

Krebs, Danielle L., Donald Metcalf, Tobias D. Merson, Anne K. Voss, Tim Thomas, Jian-Guo Zhang, Steven Rakar et al. “Development of hydrocephalus in mice lacking SOCS7.” Proceedings of the National Academy of Sciences of the United States of America 101, no. 43 (2004): 15446-15451.

Sept 13:

Bao, Riyue, Lei Huang, Jorge Andrade, Wei Tan, Warren A. Kibbe, Hongmei Jiang, and Gang Feng. “Review of current methods, applications, and data management for the bioinformatics analysis of whole exome sequencing.” Cancer informatics (2014): 67-83.

Sept 14:

Starr, Robyn, Donald Metcalf, Andrew G. Elefanty, Marta Brysha, Tracy A. Willson, Nicos A. Nicola, Douglas J. Hilton, and Warren S. Alexander. “Liver degeneration and lymphoid deficiencies in mice lacking suppressor of cytokine signaling-1.Proceedings of the National Academy of Sciences 95, no. 24 (1998): 14395-14399.

Sept 15:

Eshel, Ilan. “Selection on sex ratio and the evolution of sex determination.” Heredity 34, no. 3 (1975): 351-361.

Sept 16:

Pinker, Steven. “How the mind works.” Annals of the New York Academy of Sciences 882, no. 1 (1999): 119-127.

Sept 17:

Babon, Jeffrey J., Isabelle S. Lucet, James M. Murphy, Nicos A. Nicola, and Leila N. Varghese. “The molecular regulation of Janus kinase (JAK) activation.Biochemical Journal 462, no. 1 (2014): 1-13.

Sept 18:

Xu, Yibin, Nadia J. Kershaw, Cindy S. Luo, Priscilla Soo, Michael J. Pocock, Peter E. Czabotar, Douglas J. Hilton, Nicos A. Nicola, Thomas PJ Garrett, and Jian-Guo Zhang. “Crystal Structure of the Entire Ectodomain of gp130 INSIGHTS INTO THE MOLECULAR ASSEMBLY OF THE TALL CYTOKINE RECEPTOR COMPLEXES.” Journal of Biological Chemistry 285, no. 28 (2010): 21214-21218.

Sept 19:

Wong, Gordon G., and Steven C. Clark. “Multiple actions of interleukin 6 within a cytokine network.Immunology today 9, no. 5 (1988): 137-139.

Sept 20:

Dietrich, W. F., J. Miller, R. Steen, M. A. Merchant, D. DamronBoles, Z. Husain, R. Dredge et al. “A Comprehensive Genetic-Map of the Mouse Genome (Vol 380, Pg 149, 1996).” Nature 381, no. 6578 (1996): 172-172.

Sept 21:

Levy, David E., D. S. Kessler, Richard Pine, and J. E. Darnell. “Cytoplasmic activation of ISGF3, the positive regulator of interferon-alpha-stimulated transcription, reconstituted in vitro.Genes & Development 3, no. 9 (1989): 1362-1371.

Sept 22:

Levy, David E., Daniel S. Kessler, Richard Pine, Nancy Reich, and J. E. Darnell. “Interferon-induced nuclear factors that bind a shared promoter element correlate with positive and negative transcriptional control.Genes & development 2, no. 4 (1988): 383-393.

Sept 23:

Li, Heng, and Richard Durbin. “Fast and accurate short read alignment with Burrows–Wheeler transform.Bioinformatics 25, no. 14 (2009): 1754-1760.

Sept 24:

Zamore, Phillip D., Thomas Tuschl, Phillip A. Sharp, and David P. Bartel. “RNAi: double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals.Cell 101, no. 1 (2000): 25-33.

Sept 25:

Porebski, Benjamin T., Shani Keleher, Jeffrey J. Hollins, Adrian A. Nickson, Emilia M. Marijanovic, Natalie A. Borg, Mauricio GS Costa et al. “Smoothing a rugged protein folding landscape by sequence-based redesign.Scientific Reports 6 (2016): 33958.

Sept 26:

Jafree, Daniyal J., Katharine Whitehurst, and Shivanchan Rajmohan. “How to approach supervisors for research opportunities.Annals of Medicine and Surgery (2016).

Sept 27:

Shendure, Jay. “Human genomics: A deep dive into genetic variation.Nature 536, no. 7616 (2016): 277-278.

Sept 28:

Pinker, Steven. “How the mind works.” Annals of the New York Academy of Sciences 882,

Sept 29:

Sørensen, Henrik Toft. “I-determinants for a successful PhD or postdoctoral outcome.Clinical Epidemiology 8 (2016): 297.

Sept 30:

Isaacs, Alick, and Jean Lindenmann. “Virus interference. I. The interferon.” Proceedings of the Royal Society of London B: Biological Sciences 147, no. 927 (1957): 258-267.

 

August: 366 papers in 2016

As one of my 2016 scientific resolutions I will be reading one paper every day of the year and posting each here (hopefully) daily.

 

Aug 1:

Yaffe, Michael B. “Reproducibility in science.” Sci. Signal. 8, no. 371 (2015): eg5-eg5.

Aug 2:

Naegle, Kristen, Nancy R. Gough, and Michael B. Yaffe. “Criteria for biological reproducibility: what does” n” mean?.Science signaling 8, no. 371 (2015): fs7.

Aug 3:

Parnas, Oren, Marko Jovanovic, Thomas M. Eisenhaure, Rebecca H. Herbst, Atray Dixit, Chun Jimmie Ye, Dariusz Przybylski et al. “A genome-wide CRISPR screen in primary immune cells to dissect regulatory networks.” Cell 162, no. 3 (2015): 675-686.

Aug 4:

Evers, Bastiaan, Katarzyna Jastrzebski, Jeroen PM Heijmans, Wipawadee Grernrum, Roderick L. Beijersbergen, and Rene Bernards. “CRISPR knockout screening outperforms shRNA and CRISPRi in identifying essential genes.Nature biotechnology (2016).

Aug 5:

Housden, Benjamin E., and Norbert Perrimon. “Comparing CRISPR and RNAi-based screening technologies.Nature Biotechnology 34, no. 6 (2016): 621-623.

Aug 6:

Qi, Xiaolong, Jiwei Zhang, Yongzhao Zhao, Tao Chen, Yi Xiang, Jialiang Hui, Danxian Cai et al. “The applications of CRISPR screen in functional genomics.” Briefings in Functional Genomics (2016): elw020.

Aug 7:

Vickers, Claudia E. “The minimal genome comes of age.” Nature Biotechnology 34, no. 6 (2016): 623-624.

Aug 8:

Nam, Jae-Yong, Nayoung KD Kim, Sang Cheol Kim, Je-Gun Joung, Ruibin Xi, Semin Lee, Peter J. Park, and Woong-Yang Park. “Evaluation of somatic copy number estimation tools for whole-exome sequencing data.Briefings in bioinformatics 17, no. 2 (2016): 185-192.

Aug 9:

Belkadi, Aziz, Alexandre Bolze, Yuval Itan, Aurelie Cobat, Quentin B. Vincent, Alexander Antipenko, Lei Shang, Bertrand Boisson, Jean-Laurent Casanova, and Laurent Abel. “Whole-genome sequencing is more powerful than whole-exome sequencing for detecting exome variants.Proceedings of the National Academy of Sciences 112, no. 17 (2015): 5473-5478.

Aug 10:

Law, Charity W., Monther Alhamdoosh, Shian Su, Gordon K. Smyth, and Matthew E. Ritchie. “RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR.F1000Research 5 (2016).

Aug 11:

Schurch, Nicholas J., Pietá Schofield, Marek Gierliński, Christian Cole, Alexander Sherstnev, Vijender Singh, Nicola Wrobel et al. “How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?.” RNA 22, no. 6 (2016): 839-851.

Aug 12:

Delconte, Rebecca B., Tatiana B. Kolesnik, Laura F. Dagley, Jai Rautela, Wei Shi, Eva M. Putz, Kimberley Stannard et al. “CIS is a potent checkpoint in NK cell-mediated tumor immunity.Nature immunology (2016).

Aug 13:

Gamon, L. F., J. M. White, and U. Wille. “Oxidative damage of aromatic dipeptides by the environmental oxidants NO 2˙ and O 3.Organic & biomolecular chemistry 12, no. 41 (2014): 8280-8287.

Aug 14:

Cerami, Ethan, Jianjiong Gao, Ugur Dogrusoz, Benjamin E. Gross, Selcuk Onur Sumer, Bülent Arman Aksoy, Anders Jacobsen et al. “The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data.Cancer discovery 2, no. 5 (2012): 401-404.

Aug 15:

Pham, Thu-Hang, Julia Minderjahn, Christian Schmidl, Helen Hoffmeister, Sandra Schmidhofer, Wei Chen, Gernot Längst, Christopher Benner, and Michael Rehli. “Mechanisms of in vivo binding site selection of the hematopoietic master transcription factor PU. 1.Nucleic acids research (2013): gkt355.

Aug 16:

Nakamura, Tetsuya, Andrew R. Gehrke, Justin Lemberg, Julie Szymaszek, and Neil H. Shubin. “Digits and fin rays share common developmental histories.” Nature (2016).

Aug 17:

de Graaf, Carolyn A., Jarny Choi, Tracey M. Baldwin, Jessica E. Bolden, Kirsten A. Fairfax, Aaron J. Robinson, Christine Biben et al. “Haemopedia: An Expression Atlas of Murine Hematopoietic Cells.Stem Cell Reports (2016).

Aug 18:

Dobin, Alexander, Carrie A. Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, and Thomas R. Gingeras. “STAR: ultrafast universal RNA-seq aligner.Bioinformatics 29, no. 1 (2013): 15-21.

Aug 19:

Muniz, João RC, Kunde Guo, Nadia J. Kershaw, Vikram Ayinampudi, Frank von Delft, Jeffrey J. Babon, and Alex N. Bullock. “Molecular architecture of the ankyrin SOCS box family of Cul5-dependent E3 ubiquitin ligases.Journal of molecular biology 425, no. 17 (2013): 3166-3177.

Aug 20:

Guillerey, Camille, Nicholas D. Huntington, and Mark J. Smyth. “Targeting natural killer cells in cancer immunotherapy.Nature Immunology 17, no. 9 (2016): 1025-1036.

Aug 21:

Masuda, Kazuya, and Tadamitsu Kishimoto. “CD5: A New Partner for IL-6.” Immunity 44, no. 4 (2016): 720-722.

Aug 22:

Moss-Racusin, Corinne A., Jojanneke van der Toorn, John F. Dovidio, Victoria L. Brescoll, Mark J. Graham, and Jo Handelsman. “A “Scientific Diversity” Intervention to Reduce Gender Bias in a Sample of Life Scientists.CBE-Life Sciences Education 15, no. 3 (2016): ar29.

Aug 23:

Obenauer, John C., Lewis C. Cantley, and Michael B. Yaffe. “Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs.Nucleic acids research 31, no. 13 (2003): 3635-3641.

Aug 24:

Chen, Chang-Zheng, Ling Li, Harvey F. Lodish, and David P. Bartel. “MicroRNAs modulate hematopoietic lineage differentiation.science 303, no. 5654 (2004): 83-86.

Aug 25:

Mueckler, Mike, Carla Caruso, Stephen A. Baldwin, Maria Panico, Ian Blench, Howard R. Morris, W. Jeffrey Allard, Gustav E. Lienhard, and Harvey F. Lodish. “Sequence and structure of a human glucose transporter.Science 229, no. 4717 (1985): 941-945.

Aug 26:

Lodish, Harvey F. “Accommodating family life: mentoring future female faculty members.Trends in cell biology 25, no. 3 (2015): 109-111.

Aug 27:

de Koning-Ward, Tania F., Paul R. Gilson, and Brendan S. Crabb. “Advances in molecular genetic systems in malaria.” Nature Reviews Microbiology 13, no. 6 (2015): 373-387.

Aug 28:

Koonin, Eugene V., and Mart Krupovic. “Evolution of adaptive immunity from transposable elements combined with innate immune systems.” Nature Reviews Genetics 16, no. 3 (2015): 184-192.

Aug 29:

Sulonen, Anna-Maija, Pekka Ellonen, Henrikki Almusa, Maija Lepistö, Samuli Eldfors, Sari Hannula, Timo Miettinen et al. “Comparison of solution-based exome capture methods for next generation sequencing.” Genome biology 12, no. 9 (2011): 1.

Aug 30:

Hodge, David R., Elaine M. Hurt, and William L. Farrar. “The role of IL-6 and STAT3 in inflammation and cancer.” European journal of cancer 41, no. 16 (2005): 2502-2512.

Aug 31:

Shuai, Ke, and Bin Liu. “Regulation of JAK–STAT signalling in the immune system.Nature Reviews Immunology 3, no. 11 (2003): 900-911.

July: 366 papers in 2016

As one of my 2016 scientific resolutions I will be reading one paper every day of the year and posting each here (hopefully) daily. Along with me, Natalie Matosin, Martin Engel and Lauren Drogos will also be doing the same and likewise posting each paper on their respective blogs. You can also follow the three of us and the others who are joining us using the tag #366papers on twitter. Also find Dr Lauren Drogos here, Dr Natalie Matosin here and find Dr Martin Engel here.

 

July 1:

Wilson, Christopher GM, Thomas J. Magliery, and Lynne Regan. “Detecting protein-protein interactions with GFP-fragment reassembly.Nature methods 1, no. 3 (2004): 255-262.

July 2:

Gerlier, Denis, and Nicole Thomasset. “Use of MTT colorimetric assay to measure cell activation.Journal of immunological methods 94, no. 1-2 (1986): 57-63.

July 3:

Quail, Michael A., Iwanka Kozarewa, Frances Smith, Aylwyn Scally, Philip J. Stephens, Richard Durbin, Harold Swerdlow, and Daniel J. Turner. “A large genome center’s improvements to the Illumina sequencing system.Nature methods 5, no. 12 (2008): 1005-1010.

July 4:

Bonnici, Vincenzo, and Vincenzo Manca. “Informational laws of genome structures.Scientific Reports 6 (2016): 28840.

July 5:

Wang, J., E. Santiago, and A. Caballero. “Prediction and estimation of effective population size.Heredity (2016).

July 6:

Zhou, Honglin, Min Xu, Qian Huang, Adam T. Gates, Xiaohua D. Zhang, John C. Castle, Erica Stec et al. “Genome-scale RNAi screen for host factors required for HIV replication.” Cell host & microbe 4, no. 5 (2008): 495-504.

July 7:

Luo, Ji, Michael J. Emanuele, Danan Li, Chad J. Creighton, Michael R. Schlabach, Thomas F. Westbrook, Kwok-Kin Wong, and Stephen J. Elledge. “A genome-wide RNAi screen identifies multiple synthetic lethal interactions with the Ras oncogene.” Cell 137, no. 5 (2009): 835-848.

July 8:

Mohseni, Morvarid, Jianlong Sun, Allison Lau, Stephen Curtis, Jeffrey Goldsmith, Victor L. Fox, Chongjuan Wei et al. “A genetic screen identifies an LKB1–MARK signalling axis controlling the Hippo–YAP pathway.” Nature cell biology 16, no. 1 (2014): 108-117.

July 9:

Hoi, Charlene SL, Wenjun Xiong, and Ilaria Rebay. “Retinal Axon Guidance Requires Integration of Eya and the JAK/STAT Pathway into Phosphotyrosine-Based Signaling Circuitries in Drosophila.” Genetics (2016): genetics-115.

July 10:

Stark, George R., and James E. Darnell. “The JAK-STAT pathway at twenty.” Immunity 36, no. 4 (2012): 503-514.

July 11:

Thorvaldsdóttir, Helga, James T. Robinson, and Jill P. Mesirov. “Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration.” Briefings in bioinformatics 14, no. 2 (2013): 178-192.

July 12:

Krzywinski, Martin, Jacqueline Schein, Inanc Birol, Joseph Connors, Randy Gascoyne, Doug Horsman, Steven J. Jones, and Marco A. Marra. “Circos: an information aesthetic for comparative genomics.Genome research 19, no. 9 (2009): 1639-1645.

July 13:

Marguerat, Samuel, and Jürg Bähler. “RNA-seq: from technology to biology.” Cellular and molecular life sciences 67, no. 4 (2010): 569-579.

July 14:

Cirulli, Elizabeth T., Brittany N. Lasseigne, Slavé Petrovski, Peter C. Sapp, Patrick A. Dion, Claire S. Leblond, Julien Couthouis et al. “Exome sequencing in amyotrophic lateral sclerosis identifies risk genes and pathways.Science 347, no. 6229 (2015): 1436-1441.

July 15:

Loman, Nicholas J., and Mick Watson. “Successful test launch for nanopore sequencing.” Nature methods 12, no. 4 (2015): 303-304.

July 16:

Robert, Christelle, and Mick Watson. “Errors in RNA-Seq quantification affect genes of relevance to human disease.Genome biology 16, no. 1 (2015): 1.

July 17:

Uyeda, Josef C., Daniel S. Caetano, and Matthew W. Pennell. “Comparative analysis of principal components can be misleading.Systematic biology (2015): syv019.

July 18:

Sakakibara, Daisuke, Atsuko Sasaki, Teppei Ikeya, Junpei Hamatsu, Tomomi Hanashima, Masaki Mishima, Masatoshi Yoshimasu et al. “Protein structure determination in living cells by in-cell NMR spectroscopy.Nature 458, no. 7234 (2009): 102-105

July 19:

Law, Charity W., Yunshun Chen, Wei Shi, and Gordon K. Smyth. “Voom: precision weights unlock linear model analysis tools for RNA-seq read counts.Genome biology 15, no. 2 (2014): 1.

July 20:

Shalem, Ophir, Neville E. Sanjana, and Feng Zhang. “High-throughput functional genomics using CRISPR-Cas9.” Nature Reviews Genetics 16, no. 5 (2015): 299-311.

July 21:

Jones, Bryony. “Chromosome biology: Diverse evolution of sex chromosomes in flies.Nature Reviews Genetics 16, no. 6 (2015): 316-317.

July 22:

Wright, Jason B., and Neville E. Sanjana. “CRISPR Screens to Discover Functional Noncoding Elements.Trends in Genetics (2016)

July 23:

Trenker, R., M. J. Call, and M. E. Call. “Progress and prospects for structural studies of transmembrane interactions in single-spanning receptors.” Current opinion in structural biology 39 (2016): 115.

July 24:

Lee, Michael J., and Michael B. Yaffe. “Protein regulation in signal transduction.” Cold Spring Harbor perspectives in biology 8, no. 6 (2016): a005918.

July 25:

Yaffe, Michael B. “How to “cell” a genomic or proteomic screen.” Science signaling 1, no. 47 (2008): eg9-eg9.

July 26:

Yaffe, Michael B., and Nancy R. Gough. “Leveraging signaling research to understand and treat disease.Sci. Signal. 9, no. 421 (2016): eg4-eg4.

July 27:

Roberts, Kathryn G., Yongjin Li, Debbie Payne-Turner, Richard C. Harvey, Yung-Li Yang, Deqing Pei, Kelly McCastlain et al. “Targetable kinase-activating lesions in Ph-like acute lymphoblastic leukemia.New England journal of medicine 371, no. 11 (2014): 1005-1015.

July 28:

Zhang, Xiaotian, Jianzhong Su, Mira Jeong, Myunggon Ko, Yun Huang, Hyun Jung Park, Anna Guzman et al. “DNMT3A and TET2 compete and cooperate to repress lineage-specific transcription factors in hematopoietic stem cells.Nature Genetics (2016).

July 29:

Weinstein, John N., Eric A. Collisson, Gordon B. Mills, Kenna R. Mills Shaw, Brad A. Ozenberger, Kyle Ellrott, Ilya Shmulevich, Chris Sander, Joshua M. Stuart, and Cancer Genome Atlas Research Network. “The cancer genome atlas pan-cancer analysis project.Nature genetics 45, no. 10 (2013): 1113-1120.

July 30:

Lawrence, Michael S., Petar Stojanov, Paz Polak, Gregory V. Kryukov, Kristian Cibulskis, Andrey Sivachenko, Scott L. Carter et al. “Mutational heterogeneity in cancer and the search for new cancer-associated genes.Nature 499, no. 7457 (2013): 214-218.

July 31:

Wright, Peter E., and H. Jane Dyson. “Intrinsically disordered proteins in cellular signalling and regulation.Nature Reviews Molecular Cell Biology 16, no. 1 (2015): 18-29.

June: 366 papers in 2016

 

As one of my 2016 scientific resolutions I will be reading one paper every day of the year and posting each here (hopefully) daily. Along with me, Natalie Matosin, Martin Engel and Lauren Drogos will also be doing the same and likewise posting each paper on their respective blogs. You can also follow the three of us and the others who are joining us using the tag #366papers on twitter. Also find Dr Lauren Drogos here, Dr Natalie Matosin here and find Dr Martin Engel here.

 

June 1:

Gordon, Siamon. “Pattern recognition receptors: doubling up for the innate immune response.Cell 111, no. 7 (2002): 927-930.

June 2:

Kirkpatrick, Mark. “Sexual selection and the evolution of female choice.” Evolution (1982): 1-12.

June 3:

Dobzhansky, Theodosius. “Nothing in biology makes sense except in the light of evolution.” The american biology teacher 75, no. 2 (2013): 87-91.

June 4:

Barrios-Rodiles, Miriam, Kevin R. Brown, Barish Ozdamar, Rohit Bose, Zhong Liu, Robert S. Donovan, Fukiko Shinjo et al. “High-throughput mapping of a dynamic signaling network in mammalian cells.” Science 307, no. 5715 (2005): 1621-1625.

June 5:

Wittig, Ilka, Hans-Peter Braun, and Hermann Schägger. “Blue native PAGE.” Nature Protocols 1 (2006): 418-428.

June 6:

Evason, Kimberley J., Macrina T. Francisco, Vladislava Juric, Sanjeev Balakrishnan, Maria del Pilar Lopez Pazmino, John D. Gordan, Sanjay Kakar, Jan Spitsbergen, Andrei Goga, and Didier YR Stainier. “Identification of chemical inhibitors of β-catenin-driven liver tumorigenesis in zebrafish.PLoS Genet 11, no. 7 (2015): e1005305.

June 7, 8, 9, 10 and 11 (Sorry, but it is really long):

Darlington, Cyril Dean. “The evolution of genetic systems.The Evolution of Genetic Systems. (1939).

June 12:

Akira, S. H. I. Z. U. O., T. O. S. H. I. O. Hirano, T. E. T. S. U. Y. A. Taga, and T. A. D. A. M. I. T. S. U. Kishimoto. “Biology of multifunctional cytokines: IL 6 and related molecules (IL 1 and TNF).The FASEB journal 4, no. 11 (1990): 2860-2867.

June 13:

Kishimoto, Tadamitsu, Shizuo Akira, Masashi Narazaki, and Tetsuya Taga. “Interleukin-6 family of cytokines and gp130.Blood 86, no. 4 (1995): 1243-1254.

June 14:

Alexander, Warren S., and Douglas J. Hilton. “The role of suppressors of cytokine signaling (SOCS) proteins in regulation of the immune response.Annu. Rev. Immunol. 22 (2004): 503-529.

June 15:

Brouwer, Jason M., Dana Westphal, Grant Dewson, Adeline Y. Robin, Rachel T. Uren, Ray Bartolo, Geoff V. Thompson, Peter M. Colman, Ruth M. Kluck, and Peter E. Czabotar. “Bak core and latch domains separate during activation, and freed core domains form symmetric homodimers.Molecular cell 55, no. 6 (2014): 938-946.

June 16:

Stafford, C. A., and U. Nachbur. “A NODding acquaintance with ER stress.” Cell Death Discovery 2 (2016).

June 17:

Nachbur, Ueli, Che A. Stafford, Aleksandra Bankovacki, Yifan Zhan, Lisa M. Lindqvist, Berthe K. Fiil, Yelena Khakham et al. “A RIPK2 inhibitor delays NOD signalling events yet prevents inflammatory cytokine production.” Nature communications 6 (2015).

June 18:

Sheridan, Julie M., Matthew E. Ritchie, Sarah A. Best, Kun Jiang, Tamara J. Beck, François Vaillant, Kevin Liu et al. “A pooled shRNA screen for regulators of primary mammary stem and progenitor cells identifies roles for Asap1 and Prox1.” BMC cancer 15, no. 1 (2015): 1.

June 19:

Alberts, Bruce. “On becoming a scientist.Science 326, no. 5955 (2009): 916-916.

June 20:

Witkowski, M. T., L. Cimmino, Y. Hu, T. Trimarchi, H. Tagoh, M. D. McKenzie, S. A. Best et al. “Activated Notch counteracts Ikaros tumor suppression in mouse and human T-cell acute lymphoblastic leukemia.” Leukemia 29, no. 6 (2015): 1301-1311.

June 21:

Wainer, Howard. “How to display data badly.” The American Statistician 38, no. 2 (1984): 137-147.

June 22:

DasGupta, Ramanuj, Ajamete Kaykas, Randall T. Moon, and Norbert Perrimon. “Functional genomic analysis of the Wnt-wingless signaling pathway.” Science 308, no. 5723 (2005): 826-833.

June 23:

Wang, Huayi, Liming Sun, Lijing Su, Josep Rizo, Lei Liu, Li-Feng Wang, Fu-Sheng Wang, and Xiaodong Wang. “Mixed lineage kinase domain-like protein MLKL causes necrotic membrane disruption upon phosphorylation by RIP3.Molecular cell 54, no. 1 (2014): 133-146.

June 24:

Croker, Ben A., Danielle L. Krebs, Jian-Guo Zhang, Sam Wormald, Tracy A. Willson, Edouard G. Stanley, Lorraine Robb et al. “SOCS3 negatively regulates IL-6 signaling in vivo.” Nature immunology 4, no. 6 (2003): 540-545.

June 25:

Pinker, Steven, Martin A. Nowak, and James J. Lee. “The logic of indirect speech.Proceedings of the National Academy of sciences 105, no. 3 (2008): 833-838.

June 26:

Bergamin, Elisa, Jinhua Wu, and Stevan R. Hubbard. “Structural basis for phosphotyrosine recognition by suppressor of cytokine signaling-3.Structure 14, no. 8 (2006): 1285-1292.

June 27:

Pinker, Steven, and Paul Bloom. “Natural language and natural selection.” Behavioral and brain sciences 13, no. 04 (1990): 707-727.

June 28:

Ramirez, Steve, Xu Liu, Pei-Ann Lin, Junghyup Suh, Michele Pignatelli, Roger L. Redondo, Tomás J. Ryan, and Susumu Tonegawa. “Creating a false memory in the hippocampus.” Science 341, no. 6144 (2013): 387-391.

June 29:

Wu, Chung-I., Norman A. Johnson, and Michael F. Palopoli. “Haldane’s rule and its legacy: Why are there so many sterile males?.Trends in Ecology & Evolution 11, no. 7 (1996): 281-284.

June 30:

Hershey, A. D., June Dixon, and Martha Chase. “NUCLEIC ACID ECONOMY IN BACTERIA INFECTED WITH BACTERIOPHAGE T2 I. PURINE AND PYRIMIDINE COMPOSITION.” The Journal of general physiology 36, no. 6 (1953): 777-789.

May: 366 papers in 2016

As one of my 2016 scientific resolutions I will be reading one paper every day of the year and posting each here (hopefully) daily. Along with me, Natalie Matosin, Martin Engel and Lauren Drogos will also be doing the same and likewise posting each paper on their respective blogs. You can also follow the three of us and the others who are joining us using the tag #366papers on twitter. Also find Dr Lauren Drogos here, Dr Natalie Matosin here and find Dr Martin Engel here.

May 1:

Letunic, Ivica, and Peer Bork. “Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation.Bioinformatics 23, no. 1 (2007): 127-128.

May 2:

Skiniotis, Georgios, Martin J. Boulanger, K. Christopher Garcia, and Thomas Walz. “Signaling conformations of the tall cytokine receptor gp130 when in complex with IL-6 and IL-6 receptor.” Nature structural & molecular biology 12, no. 6 (2005): 545-551.

May 3:

Cuff, James A., Michele E. Clamp, Asim S. Siddiqui, Matt Finlay, and Geoffrey J. Barton. “JPred: a consensus secondary structure prediction server.Bioinformatics 14, no. 10 (1998): 892-893.

May 4:

Ozaki, Katsutoshi, and Warren J. Leonard. “Cytokine and cytokine receptor pleiotropy and redundancy.Journal of Biological Chemistry 277, no. 33 (2002): 29355-29358.

May 5:

Cuff, James A., Michele E. Clamp, Asim S. Siddiqui, Matt Finlay, and Geoffrey J. Barton. “JPred: a consensus secondary structure prediction server.Bioinformatics 14, no. 10 (1998): 892-893.

May 6:

Lim, Megan SC, Margaret E. Hellard, and Campbell K. Aitken. “The case of the disappearing teaspoons: longitudinal cohort study of the displacement of teaspoons in an Australian research institute.BMJ 331, no. 7531 (2005): 1498-1500.

May 7: 

Jenkins, Misty R., and Gillian M. Griffiths. “The synapse and cytolytic machinery of cytotoxic T cells.Current opinion in immunology 22, no. 3 (2010): 308-313.

May 8:

Hilton, Douglas J., Stephanie S. Watowich, Luba Katz, and Harvey F. Lodish. “Saturation mutagenesis of the WSXWS motif of the erythropoietin receptor.” Journal of Biological Chemistry 271, no. 9 (1996): 4699-4708.

May 9:

Gargiulo, Gaetano, Michela Serresi, Matteo Cesaroni, Danielle Hulsman, and Maarten van Lohuizen. “In vivo shRNA screens in solid tumors.” Nature protocols 9, no. 12 (2014): 2880-2902.

May 10:

Simon, Michael A., David DL Bowtell, G. Steven Dodson, Todd R. Laverty, and Gerald M. Rubin. “Ras1 and a putative guanine nucleotide exchange factor perform crucial steps in signaling by the sevenless protein tyrosine kinase.Cell 67, no. 4 (1991): 701-716.

May 11:

Kile, Benjamin T., and Douglas J. Hilton. “The art and design of genetic screens: mouse.Nature Reviews Genetics 6, no. 7 (2005): 557-567.

May 12:

St Johnston, Daniel. “The art and design of genetic screens: Drosophila melanogaster.” Nature reviews genetics 3, no. 3 (2002): 176-188.

May 13:

Patton, E. Elizabeth, and Leonard I. Zon. “The art and design of genetic screens: zebrafish.Nature Reviews Genetics 2, no. 12 (2001): 956-966.

May 14:

Boutros, Michael, and Julie Ahringer. “The art and design of genetic screens: RNA interference.Nature Reviews Genetics 9, no. 7 (2008): 554-566.

May 15:

Kunst, Michael, Matthew CF Tso, D. Dipon Ghosh, Erik D. Herzog, and Michael N. Nitabach. “Rhythmic control of activity and sleep by class B1 GPCRs.Critical reviews in biochemistry and molecular biology 50, no. 1 (2015): 18-30.

May 16:

Grimm, Stefan. “The art and design of genetic screens: mammalian culture cells.” Nature Reviews Genetics 5, no. 3 (2004): 179-189.

may 17:

Forsburg, Susan L. “The art and design of genetic screens: yeast.” Nature Reviews Genetics 2, no. 9 (2001): 659-668.

May 18:

Goodwin, Sara, John D. McPherson, and W. Richard McCombie. “Coming of age: ten years of next-generation sequencing technologies.Nature Reviews Genetics 17, no. 6 (2016): 333-351.

May 19:

Zhang, Chunyan, Hong Xin, Wang Zhang, Paul J. Yazaki, Zhifang Zhang, Keith Le, Wenzhao Li et al. “CD5 Binds to Interleukin-6 and Induces a Feed-Forward Loop with the Transcription Factor STAT3 in B Cells to Promote Cancer.Immunity 44, no. 4 (2016): 913-923.

May 20:

Loman, Nick, and Mick Watson. “So you want to be a computational biologist?.” Nature biotechnology 31, no. 11 (2013): 996-998.

May 21:

Dranoff, Glenn. “Cytokines in cancer pathogenesis and cancer therapy.” Nature Reviews Cancer 4, no. 1 (2004): 11-22.

May 22:

Hilton, Douglas J., Rachael T. Richardson, Warren S. Alexander, Elizabeth M. Viney, Tracy A. Willson, Naomi S. Sprigg, Robyn Starr, Sandra E. Nicholson, Donald Metcalf, and Nicos A. Nicola. “Twenty proteins containing a C-terminal SOCS box form five structural classes.Proceedings of the National Academy of Sciences 95, no. 1 (1998): 114-119.

May 23:

Tjio, Joe Hin, and Theodore T. Puck. “Genetics of somatic mammalian cells: II. Chromosomal constitution of cells in tissue culture.” The Journal of experimental medicine 108, no. 2 (1958): 259.

May 24:

Kao, Fa‐Ten, and Theodore T. Puck. “Genetics of somatic mammalian cells. IX. Quantitation of mutagenesis by physical and chemical agents.” Journal of cellular physiology 74, no. 3 (1969): 245-257.

May 25:

Wang, Zimou, Weiliang Xu, Lei Liu, and Ting F. Zhu. “A synthetic molecular system capable of mirror-image genetic replication and transcription.” Nature Chemistry (2016).

May 26:

Paddison, Patrick J., and Gregory J. Hannon. “RNA interference: the new somatic cell genetics?.Cancer cell 2, no. 1 (2002): 17-23.

May 27:

Stankowski, Leon F., Kenneth R. Tindall, and Abraham W. Hsie. “Quantitative and molecular analyses of ethyl methanesulfonate-and ICR 191-induced mutation in AS52 cells.Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis 160, no. 2 (1986): 133-147.

May 28:

Simpson, Richard J., Annet Hammacher, David K. Smith, Jacqueline M. Matthews, and Larry D. Ward. “Interleukin‐6: Structure‐function relationships.Protein Science 6, no. 5 (1997): 929-955.

May 29:

Paonessa, Giacomo, Rita Graziani, Anna De Serio, Rocco Savino, Laura Ciapponi, Armin Lahm, Anna Laura Salvati, Carlo Toniatti, and Gennaro Ciliberto. “Two distinct and independent sites on IL-6 trigger gp 130 dimer formation and signalling.” The EMBO Journal 14, no. 9 (1995): 1942.

May 30:

Hsin, Jing-Ping, Wencheng Li, Mainul Hoque, Bin Tian, and James L. Manley. “RNAP II CTD tyrosine 1 performs diverse functions in vertebrate cells.” ELife 3 (2014): e02112.

May 31:

Dobzhansky, Theodosius. “Nothing in biology makes sense except in the light of evolution.” The american biology teacher 75, no. 2 (2013): 87-91.

 

 

 

April: 366 papers in 2016

As one of my 2016 scientific resolutions I will be reading one paper every day of the year and posting each here (hopefully) daily. Along with me, Natalie Matosin, Martin Engel and Lauren Drogos will also be doing the same and likewise posting each paper on their respective blogs. You can also follow the three of us and the others who are joining us using the tag #366papers on twitter. Also find Dr Lauren Drogos here, Dr Natalie Matosin here and find Dr Martin Engel here.

April 1:

Majewski, Ian J., Matthew E. Ritchie, Belinda Phipson, Jason Corbin, Miha Pakusch, Anja Ebert, Meinrad Busslinger et al. “Opposing roles of polycomb repressive complexes in hematopoietic stem and progenitor cells.Blood 116, no. 5 (2010): 731-739.

April 2:

Dunn, Timothy W., Yu Mu, Sujatha Narayan, Owen Randlett, Eva A. Naumann, Chao-Tsung Yang, Alexander F. Schier, Jeremy Freeman, Florian Engert, and Misha B. Ahrens. “Brain-wide mapping of neural activity controlling zebrafish exploratory locomotion.eLife 5 (2016): e12741.

April 3:

Chowdhury, Saikat, and Ram Rup Sarkar. “Comparison of human cell signaling pathway databases—evolution, drawbacks and challenges.Database 2015 (2015): bau126.

April 4:

Janes, Kevin A., H. Christian Reinhardt, and Michael B. Yaffe. “Cytokine-induced signaling networks prioritize dynamic range over signal strength.” Cell 135, no. 2 (2008): 343-354.

April 5:

Coyle, Scott, and Wendell A. Lim. “Mapping the functional versatility and fragility of Ras GTPase signaling circuits through in vitro network reconstitution.” eLife (2016): e12435.

April 6:

Wang, Zhong, Mark Gerstein, and Michael Snyder. “RNA-Seq: a revolutionary tool for transcriptomics.” Nature Reviews Genetics 10, no. 1 (2009): 57-63.

April 7:

Manning, Gerard, Gregory D. Plowman, Tony Hunter, and Sucha Sudarsanam. “Evolution of protein kinase signaling from yeast to man.Trends in biochemical sciences 27, no. 10 (2002): 514-520.

April 8:

Whitney, Mike, Edward Rockenstein, Greg Cantin, Tom Knapp, Gregor Zlokarnik, Pam Sanders, Kyle Durick, Frank F. Craig, and Paul A. Negulescu. “A genome-wide functional assay of signal transduction in living mammalian cells.Nature biotechnology 16, no. 13 (1998): 1329-1333.

April 9:

Bogdanović, Ozren, Arne H. Smits, Elisa de la Calle Mustienes, Juan J. Tena, Ethan Ford, Ruth Williams, Upeka Senanayake et al. “Active DNA demethylation at enhancers during the vertebrate phylotypic period.Nature genetics (2016).

April 10:

Grewal, Savraj S. “Why should cancer biologists care about tRNAs? tRNA synthesis, mRNA translation and the control of growth.” Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms 1849, no. 7 (2015): 898-907.

April 11:

Chen, Kelan, Renwick CJ Dobson, Isabelle Lucet, Samuel N. Young, Frederick G. Pearce, Marnie E. Blewitt, and James M. Murphy. “The epigenetic regulator Smchd1 contains a functional GHKL-type ATPase domain.Biochemical Journal (2016): BCJ20160189.

April 12:

Gilbert, Luke A., Matthew H. Larson, Leonardo Morsut, Zairan Liu, Gloria A. Brar, Sandra E. Torres, Noam Stern-Ginossar et al. “CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes.” Cell 154, no. 2 (2013): 442-451.

April 13:

Smith, Donald B., and Kevin S. Johnson. “Single-step purification of polypeptides expressed in Escherichia coli as fusions with glutathione S-transferase.” Gene 67, no. 1 (1988): 31-40.

April 14:

Miton, Charlotte M., and Nobuhiko Tokuriki. “How mutational epistasis impairs predictability in protein evolution and design.” Protein Science (2016).

April 15:

Jadwin, Joshua A., Dongmyung Oh, Timothy G. Curran, Mari Ogiue-Ikeda, Lin Jia, Forest M. White, Kazuya Machida, Ji Yu, and Bruce J. Mayer. “Time-resolved multimodal analysis of Src Homology 2 (SH2) domain binding in signaling by receptor tyrosine kinases.” eLife 5 (2016): e11835.

April 16:

Fraser, Nicholas J., Jian-Wei Liu, Peter D. Mabbitt, Galen J. Correy, Chris W. Coppin, Mathilde Lethier, Matthew A. Perugini et al. “Evolution of Protein Quaternary Structure in Response to Selective Pressure for Increased Thermostability.Journal of Molecular Biology (2016).

April 17:

Jeggo, Penny A., Laurence H. Pearl, and Antony M. Carr. “DNA repair, genome stability and cancer: a historical perspective.” Nature Reviews Cancer 16, no. 1 (2016): 35-42.

April 18:

Croker, Ben A., Hiu Kiu, Marc Pellegrini, Jesse Toe, Simon Preston, Donald Metcalf, Joanne A. O’Donnell et al. “IL-6 promotes acute and chronic inflammatory disease in the absence of SOCS3.Immunology and cell biology 90, no. 1 (2012): 124-129.

April 19:

Chen, Sidi, Neville E. Sanjana, Kaijie Zheng, Ophir Shalem, Kyungheon Lee, Xi Shi, David A. Scott et al. “Genome-wide CRISPR screen in a mouse model of tumor growth and metastasis.Cell 160, no. 6 (2015): 1246-1260.

April 20:

Müller-Newen, Gerhard. “The cytokine receptor gp130: faithfully promiscuous.” Science Signaling 2003, no. 201 (2003): pe40-pe40.

April 21:

Greaney, Marie R., Ann E. Privorotskiy, Kristen P. D’Elia, and David Schoppik. “Ocular Motoneuron Pools Develop Along a Dorsoventral Axis in Zebrafish, Danio rerio.” bioRxiv (2016): 049296.

April 22:

Liongue, Clifford, Tarannum Taznin, and Alister C. Ward. “Signaling via the CytoR/JAK/STAT/SOCS pathway: Emergence during evolution.Molecular immunology 71 (2016): 166-175.

April 23:

Tiwari, Ravi P., Wayne G. Reeve, Michael J. Dilworth, and Andrew R. Glenn. “Acid tolerance in Rhizobium meliloti strain WSM419 involves a two-component sensor-regulator system.Microbiology 142, no. 7 (1996): 1693-1704.

April 24:

Lopresti, Adrian L., Michael Maes, Garth L. Maker, Sean D. Hood, and Peter D. Drummond. “Curcumin for the treatment of major depression: a randomised, double-blind, placebo controlled study.Journal of affective disorders 167 (2014): 368-375.

April 25:

Boulanger, Martin J., Dar-chone Chow, Elena Brevnova, Monika Martick, Gordon Sandford, John Nicholas, and K. Christopher Garcia. “Molecular mechanisms for viral mimicry of a human cytokine: activation of gp130 by HHV-8 interleukin-6.” Journal of molecular biology 335, no. 2 (2004): 641-654.

April 26:

Cong, Le, F. Ann Ran, David Cox, Shuailiang Lin, Robert Barretto, Naomi Habib, Patrick D. Hsu et al. “Multiplex genome engineering using CRISPR/Cas systems.” Science 339, no. 6121 (2013): 819-823.

April 27:

Branton, Daniel, David W. Deamer, Andre Marziali, Hagan Bayley, Steven A. Benner, Thomas Butler, Massimiliano Di Ventra et al. “The potential and challenges of nanopore sequencing.Nature biotechnology 26, no. 10 (2008): 1146-1153.

April 28:

Gouy, Manolo, Stéphane Guindon, and Olivier Gascuel. “SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building.Molecular biology and evolution 27, no. 2 (2010): 221-224.

April 29:

Kishimoto, Tadamitsu, Shizuo Akira, Masashi Narazaki, and Tetsuya Taga. “Interleukin-6 family of cytokines and gp130.Blood 86, no. 4 (1995): 1243-1254.

April 30:

Letunic, Ivica, and Peer Bork. “Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation.” Bioinformatics 23, no. 1 (2007): 127-128.