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1. Full Text Integrative Analysis of the Caenorhabditis elegans Genome by the modENCODE Project
by Mark B. Gerstein and Zhi John Lu and Eric L. Van Nostrand and Chao Cheng and Bradley I. Arshinoff and Tao Liu and Kevin Y. Yip and Rebecca Robilotto and Andreas Rechtsteiner and Kohta Ikegami and Pedro Alves and Aurelien Chateigner and Marc Perry and Mitzi Morris and Raymond K. Auerbach and Xin Feng and Jing Leng and Anne Vielle and Wei Niu and Kahn Rhrissorrakrai and Ashish Agarwal and Roger P. Alexander and Galt Barber and Cathleen M. Brdlik and Jennifer Brennan and Jeremy Jean Brouillet and Adrian Carr and Ming-Sin Cheung and Hiram Clawson and Sergio Contrino and Luke O. Dannenberg and Abby F. Dernburg and Arshad Desai and Lindsay Dick and Andréa C. Dosé and Jiang Du and Thea Egelhofer and Sevinc Ercan and Ghia Euskirchen and Brent Ewing and Elise A. Feingold and Reto Gassmann and Peter J. Good and Phil Green and Francois Gullier and Michelle Gutwein and Mark S. Guyer and Lukas Habegger and Ting Han and Jorja G. Henikoff and Stefan R. Henz and Angie Hinrichs and Heather Holster and Tony Hyman and A. Leo Iniguez and Judith Janette and Morten Jensen and Masaomi Kato and W. James Kent and Ellen Kephart and Vishal Khivansara and Ekta Khurana and John K. Kim and Paulina Kolasinska-Zwierz and Eric C. Lai and Isabel Latorre and Amber Leahey and Suzanna Lewis and Paul Lloyd and Lucas Lochovsky and Rebecca F. Lowdon and Yaniv Lubling and Rachel Lyne and Michael MacCoss and Sebastian D. Mackowiak and Marco Mangone and Sheldon McKay and Desirea Mecenas and Gennifer Merrihew and David M. Miller and Andrew Muroyama and John I. Murray and Siew-Loon Ooi and Hoang Pham and Taryn Phippen and Elica A. Preston and Nikolaus Rajewsky and Gunnar Rätsch and Heidi Rosenbaum and Joel Rozowsky and Kim Rutherford and Peter Ruzanov and Mihail Sarov and Rajkumar Sasidharan and Andrea Sboner and Paul Scheid and Eran Segal and Hyunjin Shin and Chong Shou and Frank J. Slack and ... and modENCODE Consortium
Science, ISSN 0036-8075, 12/2010, Volume 330, Issue 6012, pp. 1775 - 1787
We systematically generated large-scale data sets to improve genome annotation for the nematode Caenorhabditis elegans, a key model organism. These data sets... 
Datasets | Chromatin | MicroRNA | RNA | RESEARCH ARTICLES | Genes | Histones | Genomes | Gene expression | Chromosomes | Autosomes | TRANSCRIPTION FACTORS | NETWORK | CHROMATIN | RNA-SEQ | DNA | MULTIDISCIPLINARY SCIENCES | EXPRESSION | C. ELEGANS | EMBRYOS | NUCLEOSOME ORGANIZATION | REVEALS | Chromatin - metabolism | RNA, Untranslated - metabolism | Regulatory Sequences, Nucleic Acid | Genes, Helminth | Caenorhabditis elegans Proteins - metabolism | Gene Expression Profiling | Gene Regulatory Networks | RNA, Untranslated - genetics | Genome, Helminth | RNA, Helminth - metabolism | Chromosomes - genetics | Chromosomes - metabolism | Conserved Sequence | Genomics - methods | RNA, Helminth - genetics | Chromatin - ultrastructure | Computational Biology - methods | Caenorhabditis elegans - metabolism | Caenorhabditis elegans - growth & development | Caenorhabditis elegans - genetics | Molecular Sequence Annotation | Gene Expression Regulation | Transcription Factors - genetics | Transcription Factors - metabolism | Chromosomes - ultrastructure | Animals | Models, Genetic | Histones - metabolism | Caenorhabditis elegans Proteins - genetics | Chromatin - genetics | Evolution, Molecular | Caenorhabditis elegans | Transcription factors | Genetic aspects | Research
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2. Full Text The genomes of four tapeworm species reveal adaptations to parasitism
by Tsai, Isheng J and Zarowiecki, Magdalena and Holroyd, Nancy and Garciarrubio, Alejandro and Sanchez-Flores, Alejandro and Brooks, Karen L and Tracey, Alan and Bobes, Raúl J and Fragoso, Gladis and Sciutto, Edda and Aslett, Martin and Beasley, Helen and Bennett, Hayley M and Cai, Jianping and Camicia, Federico and Clark, Richard and Cucher, Marcela and De Silva, Nishadi and Day, Tim A and Deplazes, Peter and Estrada, Karel and Fernández, Cecilia and Holland, Peter W. H and Hou, Junling and Hu, Songnian and Huckvale, Thomas and Hung, Stacy S and Kamenetzky, Laura and Keane, Jacqueline A and Kiss, Ferenc and Koziol, Uriel and Lambert, Olivia and Liu, Kan and Luo, Xuenong and Luo, Yingfeng and MacChiaroli, Natalia and Nichol, Sarah and Paps, Jordi and Parkinson, John and Pouchkina-Stantcheva, Natasha and Riddiford, Nick and Rosenzvit, Mara and Salinas, Gustavo and Wasmuth, James D and Zamanian, Mostafa and Zheng, Yadong and Cai, Xuepeng and Soberón, Xavier and Olson, Peter D and Laclette, Juan P and Brehm, Klaus and Berriman, Matthew and Morett, Enrique and Portillo, Tobias and Jose, Marco V and Carrero, Julio C and Larralde, Carlos and Morales-Montor, Jorge and Limon-Lason, Jorge and Cevallos, Miguel A and Gonzalez, Vıctor and Ochoa-Leyva, Adrian and Landa, Abraham and Jimenez, Lucıa and Valdes, Vıctor and Taenia Solium Genome Consortium and Taenia solium Genome Consortium and The Taenia solium Genome Consortium
Nature, ISSN 0028-0836, 04/2013, Volume 496, Issue 7443, pp. 57 - 63
Tapeworms (Cestoda) cause neglected diseases that can be fatal and are difficult to treat, owing to inefficient drugs. Here we present an analysis of tapeworm... 
CESTODA | ECHINOCOCCUS-MULTILOCULARIS | INFECTIONS | TAENIA-SOLIUM | MULTIDISCIPLINARY SCIENCES | FLUKE SCHISTOSOMA-MANSONI | HEAT-SHOCK | CYSTICERCOSIS | IDENTIFICATION | GRANULOSUS | CULTIVATION | Parasites - physiology | Conserved Sequence - genetics | Proteome - genetics | Taenia solium - genetics | Humans | Echinococcus multilocularis - metabolism | Stem Cells - cytology | Genes, Homeobox - genetics | Molecular Targeted Therapy | Stem Cells - metabolism | Parasites - genetics | Parasites - drug effects | Adaptation, Physiological - genetics | Hymenolepis - genetics | Cestoda - physiology | Cestoda - genetics | Echinococcus granulosus - genetics | Cestode Infections - drug therapy | Cestode Infections - metabolism | HSP70 Heat-Shock Proteins - genetics | Echinococcus multilocularis - drug effects | Biological Evolution | Metabolic Networks and Pathways - genetics | Animals | Genes, Helminth - genetics | Cestoda - drug effects | Genome, Helminth - genetics | Echinococcus multilocularis - genetics | Diphyllobothrium | Genetic aspects | Parasitism | Adaptation (Biology) | Research | Nucleotide sequencing | Cestoda | DNA sequencing | Medical research | Disease | Genomics | Genes | Genomes | Parasites | Chromosomes | Tropical diseases | Worms | parasitism | cysticercosis | HSP70 | Platyhelminthes | echinococcosis
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3. Full Text Resequencing Helminth Genomes for Population and Genetic Studies
by Wit, Janneke and Gilleard, John S
Trends in Parasitology, ISSN 1471-4922, 2017, Volume 33, Issue 5, pp. 388 - 399
Next-generation sequencing has become increasingly accessible and economical, making genome-wide studies routine for many species, including humans, model... 
Infectious Disease | Gastroenterology and Hepatology | NON-MODEL ORGANISMS | HAEMONCHUS-CONTORTUS | POSITIVE SELECTION | FASCIOLA-HEPATICA | RAD MARKERS | PLASMODIUM-FALCIPARUM | FLUKE SCHISTOSOMA-MANSONI | DRUG-RESISTANCE | TARGETED CAPTURE | PARASITOLOGY | MICROSATELLITE LOCI | Sequence Analysis, DNA - standards | Genome-Wide Association Study | Animals | Genome, Helminth - genetics | Genetics, Population - trends | Humans | Genetic research | Analysis | Genomics | Livestock | Genomes
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4. Full Text A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning
by Valouev, Anton and Ichikawa, Jeffrey and Tonthat, Thaisan and Stuart, Jeremy and Ranade, Swati and Peckham, Heather and Zeng, Kathy and Malek, Joel A and Costa, Gina and McKernan, Kevin and Sidow, Arend and Fire, Andrew and Johnson, Steven M
Genome Research, ISSN 1088-9051, 07/2008, Volume 18, Issue 7, pp. 1051 - 1063
Using the massively parallel technique of sequencing by oligonucleotide ligation and detection (SOLiD; Applied Biosystems), we have assessed the in vivo... 
MICROCOCCAL NUCLEASE | CHROMATIN STRUCTURE | BIOCHEMISTRY & MOLECULAR BIOLOGY | TRANSCRIPTION | SACCHAROMYCES-CEREVISIAE | OCCUPANCY | GENOME | ANGSTROM RESOLUTION | CAENORHABDITIS-ELEGANS | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | DNA | GENETICS & HEREDITY | CORE PARTICLE | DNA, Helminth - genetics | Genome, Helminth | Animals | Caenorhabditis elegans - genetics | Base Sequence | Nucleosomes - genetics | Chromosome Mapping | Genetic Markers | DNA, Helminth - analysis | Chromatin - genetics | Caenorhabditis elegans | Genetic aspects | Research | Cell populations | Oligonucleotides | Letter
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5. Full Text Genes that act downstream of DAF-16 to influence the lifespan of Caenorhabditis elegans
by Bargmann, Cornelia I and Murphy, Coleen T and Fraser, Andrew and Li, Hao and Ahringer, Julie and Kenyon, Cynthia and McCarroll, Steven A and Kamath, Ravi S
Nature, ISSN 0028-0836, 07/2003, Volume 424, Issue 6946, pp. 277 - 283
Ageing is a fundamental, unsolved mystery in biology. DAF-16, a FOXO-family transcription factor, influences the rate of ageing of Caenorhabditis elegans in... 
MULTIDISCIPLINARY SCIENCES | Oligonucleotide Array Sequence Analysis | Caenorhabditis elegans Proteins - metabolism | Caenorhabditis elegans - physiology | Aging - genetics | RNA Interference | Time Factors | Gene Expression Regulation, Developmental | Receptor, Insulin - genetics | Response Elements - genetics | RNA, Helminth - genetics | Signal Transduction | Caenorhabditis elegans - genetics | Stress, Physiological - genetics | Stress, Physiological - physiopathology | Longevity - genetics | Transcription Factors - genetics | Caenorhabditis elegans - immunology | Transcription Factors - metabolism | Feedback, Physiological | Insulin - metabolism | Animals | Aging - physiology | Genes, Helminth - genetics | RNA, Helminth - analysis | Receptor, Insulin - metabolism | Transcription, Genetic - genetics | Receptor, Insulin - agonists | Caenorhabditis elegans Proteins - genetics | Forkhead Transcription Factors | Longevity - physiology | Insulin-Like Growth Factor I - metabolism | Cluster Analysis | Genes, Helminth - physiology | Aging | Genes | Deoxyribonucleic acid | DNA
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6. Full Text Silencing of Germline-Expressed Genes by DNA Elimination in Somatic Cells
by Wang, Jianbin and Mitreva, Makedonka and Berriman, Matthew and Thorne, Alicia and Magrini, Vincent and Koutsovoulos, Georgios and Kumar, Sujai and Blaxter, Mark L and Davis, Richard E
Developmental Cell, ISSN 1534-5807, 11/2012, Volume 23, Issue 5, pp. 1072 - 1080
Chromatin diminution is the programmed elimination of specific DNA sequences during development. It occurs in diverse species, but the function(s) of... 
CAENORHABDITIS-ELEGANS | EVOLUTION | EPIGENETIC MEMORY | NEMATODES | PIRNAS | DEVELOPMENTAL BIOLOGY | CHROMATIN DIMINUTION | TELOMERE FORMATION | C. ELEGANS | GENOME | ASCARIS-SUUM | CELL BIOLOGY | Chromatin - metabolism | DNA, Helminth - genetics | Gametogenesis - genetics | Ascaris suum - metabolism | Embryonic Development - genetics | Gene Silencing | Genes, Helminth | Male | DNA, Helminth - metabolism | Genome, Helminth | Ascaris suum - genetics | Animals | RNA, Helminth - metabolism | Gene Expression Regulation, Developmental | DNA Breaks | Female | Ascaris suum - embryology | Chromatin - genetics | RNA, Helminth - genetics | Chromatin | Molecular genetics | Evolutionary biology | Genes | DNA | Genomes | Genetic engineering | Universities and colleges | Nematoda
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7. Full Text Northeast India Helminth Parasite Information Database (NEIHPID): Knowledge Base for Helminth Parasites
by Biswal, Devendra Kumar and Debnath, Manish and Kharumnuid, Graciously and Thongnibah, Welfrank and Tandon, Veena
PloS one, ISSN 1932-6203, 2016, Volume 11, Issue 6, p. e0157459
Most metazoan parasites that invade vertebrate hosts belong to three phyla: Platyhelminthes, Nematoda and Acanthocephala. Many of the parasitic members of... 
RNA | MULTIDISCIPLINARY SCIENCES | GENOME | METACERCARIAE | DNA, Helminth - genetics | DNA, Helminth - isolation & purification | Helminths - isolation & purification | Knowledge Bases | Helminths - genetics | Humans | India - epidemiology | Helminthiasis - epidemiology | Sequence Analysis, DNA | Helminths - classification | Helminthiasis - parasitology | DNA, Mitochondrial - isolation & purification | Animals | DNA, Mitochondrial - genetics | Food Parasitology | Ecosystem | High-Throughput Nucleotide Sequencing | Databases, Nucleic Acid | Gene Ontology | Helminthiasis - diagnosis | Genetic markers | Usage | Genetic aspects | Research | Online databases | Nematoda | Identification and classification | Taxonomy | Genomics | Infections | Biology | Genomes | Parasites | Epidemiology | Data bases | Tropical diseases | Biological diversity | Zoonoses | Datasets | Disease prevention | Studies | Crustaceans | Researchers | Morphology | Phylogenetics | Bioinformatics | Public health | Food
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8. Full Text Variability in gene expression underlies incomplete penetrance
by Andersen, Erik and van Oudenaarden, Alexander and Rifkin, Scott A and Raj, Arjun
Nature, ISSN 0028-0836, 02/2010, Volume 463, Issue 7283, pp. 913 - 918
The phenotypic differences between individual organisms can often be ascribed to underlying genetic and environmental variation. However, even genetically... 
SINGLE-CELL | ELT-2 | CAENORHABDITIS-ELEGANS | GATA-FACTOR | MULTIDISCIPLINARY SCIENCES | TRANSCRIPTION | ENDODERM | POP-1 | C-ELEGANS | DIFFERENTIATION | SKN-1 | Chromatin - metabolism | Intestinal Mucosa - metabolism | Caenorhabditis elegans Proteins - metabolism | Gene Expression Regulation, Developmental - genetics | RNA, Messenger - analysis | Chromatin Assembly and Disassembly - genetics | Intestines - embryology | DNA-Binding Proteins - metabolism | Cell Differentiation - genetics | GATA Transcription Factors - metabolism | Stochastic Processes | RNA, Helminth - genetics | Cell Lineage - genetics | Gene Regulatory Networks - genetics | Caenorhabditis elegans - genetics | RNA, Messenger - genetics | In Situ Hybridization, Fluorescence | Penetrance | Transcription Factors - genetics | Caenorhabditis elegans - embryology | DNA-Binding Proteins - genetics | GATA Transcription Factors - genetics | Transcription Factors - metabolism | Animals | RNA, Helminth - analysis | Models, Genetic | Caenorhabditis elegans Proteins - genetics | Chromatin - genetics | Intestines - cytology | Caenorhabditis elegans | Genetic aspects | Research | Gene mutations | Genetic variation | Proteins | Genetics | Gene expression | Embryos | Environmental conditions | Mutations | Networks | Genes | Nematodes | Organisms | Invariants
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9. Full Text Heritable gene knockout in Caenorhabditis elegans by direct injection of Cas9-sgRNA ribonucleoproteins
by Cho, Seung Woo and Lee, Jihyun and Carroll, Dana and Kim, Jin-Soo and Lee, Junho
Genetics, ISSN 0016-6731, 2013, Volume 195, Issue 3, pp. 1177 - 1180
We present a novel method of targeted gene disruption that involves direct injection of recombinant Cas9 protein complexed with guide RNA into the gonad of the... 
Caenorhabditis elegans | genome editing | HUMAN-CELLS | Cas9-sgRNA ribonucleoprotein | GENETICS & HEREDITY | NHEJ | UNC-1 | GENOME | DNA, Helminth - genetics | Gene Targeting | Animals | Caenorhabditis elegans - genetics | Base Sequence | CRISPR-Cas Systems | Genes, Helminth | Molecular Sequence Data | Gene Knockout Techniques | Genetically modified animals | Usage | Ribonucleoproteins | Genetic aspects | Genetic engineering | Research | Nematodes | Genetics | Ribonucleic acid--RNA | Genes | Cas9–sgRNA ribonucleoprotein | Notes
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