NEWS
- Roca-Ayats et al, N. Eng. J. Med., 2017 ()
- Hjelmsø et al, PLoS ONE, 2017 ()
- Gabre et al, Marine Genomics, 2015 ()
- RPGeNet: Boloc et al, PLoS ONE, 2015 ()
- Rodríguez-Esteban et al, BMC Genomics, 2015 ()
- Joint 23rd ISMB / 14th ECCB ()
- Applying Next Generation Sequencing in Metagenomics Studies ()
- Perea-Atienza et al, J Exp Biol, 2015 ()
- 3rd CNAG Symposium on Genome Resarch: Rare Diseases ()
- Metagenomics for Food and Water Safety ()
Tweets on Gen/Transcript/Prote-Omics
News by Scientific American
- A Very Human Story ()
- Letters ()
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Clinical Trials Need More Diversity
()
It's unethical and risky to ignore racial and ethnic minorities
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Why Sex Matters in Alzheimer's
()
To fight the disease, we need to look at sex-specific risks
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Bone Crushers
()
Fossilized poop reveals ancient dog had a fearsome bite
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An Honest Liar
()
The president's dishonesty may have contributed to his perceived authenticity
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Art-Eating Fungi
()
Two new species discovered chomping on ancient lithographs
XKCD Comic Strip
PLoS ONE
- Characterization and comparative analysis of microRNAs in the rice pest Sogatella furcifera (Zhao-Xia Chang, Ibukun A. Akinyemi, Dong-Yang Guo, Qingfa Wu, )
- The genomic basis of environmental adaptation in house mice (Megan Phifer-Rixey, Ke Bi, Kathleen G. Ferris, Michael J. Sheehan, Dana Lin, Katya L. Mack, Sara M. Keeble, Taichi A. Suzuki, Jeffrey M. Good, Michael W. Nachman, )
- Genome-wide association studies and CRISPR/Cas9-mediated gene editing identify regulatory variants influencing eyebrow thickness in humans (Sijie Wu, Manfei Zhang, Xinzhou Yang, Fuduan Peng, Juan Zhang, Jingze Tan, Yajun Yang, Lina Wang, Yanan Hu, Qianqian Peng, Jinxi Li, Yu Liu, Yaqun Guan, Chen Chen, Merel A. Hamer, Tamar Nijsten, Changqing Zeng, Kaustubh Adhikari, Carla Gallo, Giovanni Pol, )
- Metabolic network reconstruction and phenome analysis of the industrial microbe, Escherichia coli BL21(DE3) (Hanseol Kim, Sinyeon Kim, Sung Ho Yoon, )
- High frequency of mutations in 'dyshormonogenesis genes' in severe congenital hypothyroidism (Nina Makretskaya, Olga Bezlepkina, Anna Kolodkina, Alexey Kiyaev, Evgeny V. Vasilyev, Vasily Petrov, Svetlana Kalinenkova, Oleg Malievsky, Ivan I. Dedov, Anatoly Tiulpakov, )
- Health professionals' and researchers' perspectives on prenatal whole genome and exome sequencing: 'We can't shut the door now, the genie's out, we need to refine it' (Ruth Horn, Michael Parker, )
- Chemoreceptor proteins in the Caribbean spiny lobster, Panulirus argus: Expression of Ionotropic Receptors, Gustatory Receptors, and TRP channels in two chemosensory organs and brain (Mihika T. Kozma, Manfred Schmidt, Hanh Ngo-Vu, Shea D. Sparks, Adriano Senatore, Charles D. Derby, )
BMC Genomics
- Analysis of Drosophila melanogaster testis transcriptome (Viktor Vedelek, László Bodai, Gábor Grézal, Bence Kovács, Imre M. Boros, Barbara Laurinyecz and Rita Sinka, )
- Genome-wide diversity in temporal and regional populations of the betabaculovirus Erinnyis ello granulovirus (ErelGV) (A. F. Brito, F. L. Melo, D. M. P. Ardisson-Araújo, W. Sihler, M. L. Souza and B. M. Ribeiro, )
- From mutations to mechanisms and dysfunction via computation and mining of protein energy landscapes (Wanli Qiao, Nasrin Akhter, Xiaowen Fang, Tatiana Maximova, Erion Plaku and Amarda Shehu, )
- Deep learning-based transcriptome data classification for drug-target interaction prediction (Lingwei Xie, Song He, Xinyu Song, Xiaochen Bo and Zhongnan Zhang, )
- SiRNA silencing efficacy prediction based on a deep architecture (Ye Han, Fei He, Yongbing Chen, Yuanning Liu and Helong Yu, )
- Differential genetic responses to the stress revealed the mutation-order adaptive divergence between two sympatric ginger species (Bing-Hong Huang, Yuan-Chien Lin, Chih-Wei Huang, Hsin-Pei Lu, Min-Xin Luo and Pei-Chun Liao, )
- A genome-wide association study for natural antibodies measured in blood of Canadian Holstein cows (Britt de Klerk, Mehdi Emam, Kathleen A. Thompson-Crispi, Mehdi Sargolzaei, Johan J. van der Poel and Bonnie A. Mallard, )
RNA-Seq Blog
- UPA-Seq – prediction of functional lncRNAs using differential sensitivity to UV crosslinking ()
- Laser-capture RNA seq technique connects Parkinson’s and psychiatric diseases ()
- Improved nanopore read accuracy enables single-cell RNA sequencing ()
- Single-cell RNA sequencing reveals the genetic code of growing limbs ()
- A robust methodology for assessing differential homeolog contributions to the transcriptomes of allopolyploids ()
- RNA-Seq identifies skin origins, could lead to better grafts ()
- GraphDDP – a graph-embedding approach to detect differentiation pathways in single-cell-data using prior class knowledge ()
- Single-cell RNA-Seq gives scientists unprecedented view of brain development ()
Bioinformatics
- The service is no longer available. Please refer to our RSS help page for information about changes to feeds. ()
- A novel method for predicting activity of cis-regulatory modules, based on a diverse training set (Yang, W., Sinha, S., )
- signeR: an empirical Bayesian approach to mutational signature discovery (Rosales, R. A., Drummond, R. D., Valieris, R., Dias-Neto, E., da Silva, I. T., )
- Multivariate two-part statistics for analysis of correlated mass spectrometry data from multiple biological specimens (Taylor, S. L., Ruhaak, L. R., Weiss, R. H., Kelly, K., Kim, K., )
- SiNVICT: ultra-sensitive detection of single nucleotide variants and indels in circulating tumour DNA (Kockan, C., Hach, F., Sarrafi, I., Bell, R. H., McConeghy, B., Beja, K., Haegert, A., Wyatt, A. W., Volik, S. V., Chi, K. N., Collins, C. C., Sahinalp, S. C., )
- iRSpot-EL: identify recombination spots with an ensemble learning approach (Liu, B., Wang, S., Long, R., Chou, K.-C., )
- Prediction of nucleosome positioning by the incorporation of frequencies and distributions of three different nucleotide segment lengths into a general pseudo k-tuple nucleotide composition (Awazu, A., )
PLoS Computational Biology
- OptMDFpathway: Identification of metabolic pathways with maximal thermodynamic driving force and its application for analyzing the endogenous CO2 fixation potential of Escherichia coli (Oliver Hädicke, Axel von Kamp, Timur Aydogan, Steffen Klamt, )
- Inferring decoding strategies for multiple correlated neural populations (Kaushik J. Lakshminarasimhan, Alexandre Pouget, Gregory C. DeAngelis, Dora E. Angelaki, Xaq Pitkow, )
- Proteome-scale relationships between local amino acid composition and protein fates and functions (Sean M. Cascarina, Eric D. Ross, )
- Condition-adaptive fused graphical lasso (CFGL): An adaptive procedure for inferring condition-specific gene co-expression network (Yafei Lyu, Lingzhou Xue, Feipeng Zhang, Hillary Koch, Laura Saba, Katerina Kechris, Qunhua Li, )
- Maintaining maximal metabolic flux by gene expression control (Robert Planqué, Josephus Hulshof, Bas Teusink, Johannes C. Hendriks, Frank J. Bruggeman, )
- Transition state characteristics during cell differentiation (Rowan D. Brackston, Eszter Lakatos, Michael P. H. Stumpf, )
- All-atom normal mode dynamics of HIV-1 capsid (Hyuntae Na, Guang Song, )
BMC Bioinformatics
- Valection: design optimization for validation and verification studies (Christopher I Cooper, Delia Yao, Dorota H Sendorek, Takafumi N Yamaguchi, Christine P’ng, Kathleen E Houlahan, Cristian Caloian, Michael Fraser, Kyle Ellrott, Adam A Margolin, Robert G Bristow, Joshua M Stuart and Paul C Boutros, )
- Machine Learning for detection of viral sequences in human metagenomic datasets (Zurab Bzhalava, Ardi Tampuu, Piotr Bała, Raul Vicente and Joakim Dillner, )
- Fast design of arbitrary length loops in proteins using InteractiveRosetta (William F. Hooper, Benjamin D. Walcott, Xing Wang and Christopher Bystroff, )
- Molecular dynamics and structure function analysis show that substrate binding and specificity are major forces in the functional diversification of Eqolisins (Nicolás Stocchi, María Victoria Revuelta, Priscila Ailín Lanza Castronuovo, D. Mariano A. Vera and Arjen ten Have, )
- Overlapping group screening for detection of gene-gene interactions: application to gene expression profiles with survival trait (Jie-Huei Wang and Yi-Hau Chen, )
- Initial state perturbations as a validation method for data-driven fuzzy models of cellular networks (Lidija Magdevska, Miha Mraz, Nikolaj Zimic and Miha Moškon, )
- ECPred: a tool for the prediction of the enzymatic functions of protein sequences based on the EC nomenclature (Alperen Dalkiran, Ahmet Sureyya Rifaioglu, Maria Jesus Martin, Rengul Cetin-Atalay, Volkan Atalay and Tunca Doğan, )
Nature
- No more first authors, no more last authors (Gretchen L. Kiser, )
- From the archive ()
- Genetic determinism rides again (Nathaniel Comfort, )
- Daily briefing: India, China, Saudi Arabia and the United States will lose most from climate change (Flora Graham, )
- Cryo-electron microscopy shapes up (Monya Baker, )
- The costs of climate inaction ()
- Landslides pose threat to Himalayan hydropower dream (Jane Qiu, )
Science
- Using DNA to dissect the ivory trade (Benson, P. J., )
- Analyzing the drug abuse epidemic (Jasny, B. R., )
- A self-optimizing reactor (Yeston, J., )
- Stellar oscillations show differential rotation (Smith, K. T., )
- Taming laser instabilities (Osborne, I. S., )
- Early shifts lead to big changes (Vignieri, S., )
- Expanding the targeting space of Cas9 (Mao, S., )
PNAS
- Macrocycle ring deformation as the secondary design principle for light-harvesting complexes [Chemistry] (Luca De Vico, Andre Anda, Vladimir Al. Osipov, Anders O. Madsen, Thorsten Hansen, )
- Pendular alignment and strong chemical binding are induced in helium dimer molecules by intense laser fields [Chemistry] (Qi Wei, Sabre Kais, Tomokazu Yasuike, Dudley Herschbach, )
- The culture of social comparison [Psychological and Cognitive Sciences] (Matthew Baldwin, Thomas Mussweiler, )
- Structure-specific DNA replication-fork recognition directs helicase and replication restart activities of the PriA helicase [Biochemistry] (Tricia A. Windgassen, Maxime Leroux, Kenneth A. Satyshur, Steven J. Sandler, James L. Keck, )
- Function and crystal structure of the dimeric P-loop ATPase CFD1 coordinating an exposed [4Fe-4S] cluster for transfer to apoproteins [Biochemistry] (Oliver Stehling, Jae–Hun Jeoung, Sven A. Freibert, Viktoria D. Paul, Sebastian Banfer, Brigitte Niggemeyer, Ralf Rosser, Holger Dobbek, Roland Lill, )
- Structural basis for activation of voltage sensor domains in an ion channel TPC1 [Biophysics and Computational Biology] (Alexander F. Kintzer, Evan M. Green, Pawel K. Dominik, Michael Bridges, Jean-Paul Armache, Dawid Deneka, Sangwoo S. Kim, Wayne Hubbell, Anthony A. Kossiakoff, Yifan Cheng, Robert M. Stroud, )
- Autonomous conformational regulation of {beta}3 integrin and the conformation-dependent property of HPA-1a alloantibodies [Cell Biology] (Aye Myat Myat Thinn, Zhengli Wang, Dongwen Zhou, Yan Zhao, Brian R. Curtis, Jieqing Zhu, )
Genome Biology
- ABLE: blockwise site frequency spectra for inferring complex population histories and recombination (Champak R. Beeravolu, Michael J. Hickerson, Laurent A. F. Frantz and Konrad Lohse, )
- Dynamics and functional interplay of histone lysine butyrylation, crotonylation, and acetylation in rice under starvation and submergence (Yue Lu, Qiutao Xu, Yuan Liu, Yue Yu, Zhong-Yi Cheng, Yu Zhao and Dao-Xiu Zhou, )
- Continuity of transcriptomes among colorectal cancer subtypes based on meta-analysis (Siyuan Ma, Shuji Ogino, Princy Parsana, Reiko Nishihara, Zhirong Qian, Jeanne Shen, Kosuke Mima, Yohei Masugi, Yin Cao, Jonathan A. Nowak, Kaori Shima, Yujin Hoshida, Edward L. Giovannucci, Manish K. Gala, Andrew T. Chan, Charles S. Fuchs…, )
- The continuously evolving CRISPR barcoding toolbox (Thomas Gaj and Pablo Perez-Pinera, )
- Genomic approaches for studying crop evolution (Mona Schreiber, Nils Stein and Martin Mascher, )
- Genes reveal traces of common recent demographic history for most of the Uralic-speaking populations (Kristiina Tambets, Bayazit Yunusbayev, Georgi Hudjashov, Anne-Mai Ilumäe, Siiri Rootsi, Terhi Honkola, Outi Vesakoski, Quentin Atkinson, Pontus Skoglund, Alena Kushniarevich, Sergey Litvinov, Maere Reidla, Ene Metspalu, Lehti Saag, Timo Rantanen, Monika K, )
- BayesCCE: a Bayesian framework for estimating cell-type composition from DNA methylation without the need for methylation reference (Elior Rahmani, Regev Schweiger, Liat Shenhav, Theodora Wingert, Ira Hofer, Eilon Gabel, Eleazar Eskin and Eran Halperin, )