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... norvegicus). Despite a lower library  complexity 
Improving mammalian genome scaffolding using large insert mate-pair next-generation sequencing
Improving mammalian genome scaffolding using large insert mate-pair next-generation sequencing
van Heesch, Sebastiaan; Kloosterman, Wigard P; Lansu, Nico; Ruzius, Frans-Paul; Levandowsky, Elizabeth; Lee, Clarence C; Zhou, Shiguo; Goldstein, Steve; Schwartz, David C; Harkins, Timothy T; Guryev, Victor; Cuppen, Edwin
, large insert MP libraries (20 or 25 kb) ...
... By analyzing repeat libraries, sequence  complexity 
Distinct chromatin features characterize different classes of repeat sequences in Drosophila melanogaster
Distinct chromatin features characterize different classes of repeat sequences in Drosophila melanogaster
Krassovsky, Kristina; Henikoff, Steven
and k-mer counts we determined the ...
... concerning these complexes. Results As the  complexity 
An evolutionary and structural characterization of mammalian protein complex organization
An evolutionary and structural characterization of mammalian protein complex organization
Wong, Philip; Althammer, Sonja; Hildebrand, Andrea; Kirschner, Andreas; Pagel, Philipp; Geissler, Bernd; Smialowski, Pawel; Blöchl, Florian; Oesterheld, Matthias; Schmidt, Thorsten; Strack, Normann; Theis, Fabian J; Ruepp, Andreas; Frishman, Dmitrij
of a protein complex in terms of the ...
... better than ALLPATHS-LG in regions of low  complexity 
Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly
Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly
Love, R. Rebecca; Weisenfeld, Neil I.; Jaffe, David B.; Besansky, Nora J.; Neafsey, Daniel E.
. ...
... changes. Achieving a balance between model  complexity 
Robustness of birth-death and gain models for inferring evolutionary events
Robustness of birth-death and gain models for inferring evolutionary events
Stolzer, Maureen; Wasserman, Larry; Durand, Dannie
and generalizability is a fundamental ...
... We consider the problem of biological  complexity 
Projection of gene-protein networks to the functional space of the proteome and its application to analysis of organism complexity
Projection of gene-protein networks to the functional space of the proteome and its application to analysis of organism complexity
Kanapin, Alexander A; Mulder, Nicola; Kuznetsov, Vladimir A
via a projection of protein-coding genes ...
... short of capturing the transcriptional  complexity 
Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profiling
Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profiling
Thiagarajan, Rathi D; Cloonan, Nicole; Gardiner, Brooke B; Mercer, Tim R; Kolle, Gabriel; Nourbakhsh, Ehsan; Wani, Shivangi; Tang, Dave; Krishnan, Keerthana; Georgas, Kylie M; Rumballe, Bree A; Chiu, Han S; Steen, Jason A; Mattick, John S; Little, Melissa H; Grimmond, Sean M
arising from each locus due to the limited ...
... were attributed in part to varying data  complexity 
Discovery and validation of gene classifiers for endocrine-disrupting chemicals in zebrafish (danio rerio)
Discovery and validation of gene classifiers for endocrine-disrupting chemicals in zebrafish (danio rerio)
Wang, Rong-Lin; Bencic, David; Biales, Adam; Flick, Robert; Lazorchak, Jim; Villeneuve, Daniel; Ankley, Gerald T
among the conditions, as measured to some ...
... dietary breadth and measures of conotoxin  complexity 
Dietary breadth is positively correlated with venom complexity in cone snails
Dietary breadth is positively correlated with venom complexity in cone snails
Phuong, Mark A.; Mahardika, Gusti N.; Alfaro, Michael E.
. ...
... in the genome and/or repetitive and low-  complexity 
Automated design of genomic Southern blot probes
Automated design of genomic Southern blot probes
Croning, Mike DR; Fricker, David G; Komiyama, Noboru H; Grant, Seth GN
elements in the candidate probe. ...
... parallel sequencing combined with genome  complexity 
SNP discovery by high-throughput sequencing in soybean
SNP discovery by high-throughput sequencing in soybean
Wu, Xiaolei; Ren, Chengwei; Joshi, Trupti; Vuong, Tri; Xu, Dong; Nguyen, Henry T
reduction techniques. ...
... sequence alignment algorithm's run-time  complexity 
Parallel progressive multiple sequence alignment on reconfigurable meshes
Parallel progressive multiple sequence alignment on reconfigurable meshes
Nguyen, Ken D; Pan, Yi; Nong, Ge
from O(m × n4) to O(m) using O(m × n3) ...
... expressed. The source of the loss of  complexity 
Deep analysis of cellular transcriptomes – LongSAGE versus classic MPSS
Deep analysis of cellular transcriptomes – LongSAGE versus classic MPSS
Hene, Lawrence; Sreenu, Vattipally B; Vuong, Mai T; Abidi, S Hussain I; Sutton, Julian K; Rowland-Jones, Sarah L; Davis, Simon J; Evans, Edward J
in MPSS libraries compared to SAGE is ...
... Steps 2 and 3 Comparison of computational  complexity 
Inference of kinship using spatial distributions of SNPs for genome-wide association studies
Inference of kinship using spatial distributions of SNPs for genome-wide association studies
Lee, Hyokyeong; Chen, Liang
Time ...
... samples [5]. They included, a low  complexity 
Evaluation of short read metagenomic assembly
Evaluation of short read metagenomic assembly
Charuvaka, Anveshi; Rangwala, Huzefa
dataset with one dominant organism, a ...
... 19,000 genomic clones were isolated from  complexity 
New DArT markers for oat provide enhanced map coverage and global germplasm characterization
New DArT markers for oat provide enhanced map coverage and global germplasm characterization
Tinker, Nicholas A; Kilian, Andrzej; Wight, Charlene P; Heller-Uszynska, Katarzyna; Wenzl, Peter; Rines, Howard W; Bjørnstad, Åsmund; Howarth, Catherine J; Jannink, Jean-Luc; Anderson, Joseph M; Rossnagel, Brian G; Stuthman, Deon D; Sorrells, Mark E; Jackson, Eric W; Tuvesson, Stine; Kolb, Frederic L; Olsson, Olof; Federizzi, Luiz Carlos; Carson, Marty L; Ohm, Herbert W; Molnar, Stephen J; Scoles, Graham J; Eckstein, Peter E; Bonman, J Michael; Ceplitis, Alf; Langdon, Tim
-reduced genomic representations of pooled ...
... scales. One approach to reduce genome  complexity 
Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms
Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms
Greminger, Maja P; Stölting, Kai N; Nater, Alexander; Goossens, Benoit; Arora, Natasha; Bruggmann, Rémy; Patrignani, Andrea; Nussberger, Beatrice; Sharma, Reeta; Kraus, Robert H S; Ambu, Laurentius N; Singleton, Ian; Chikhi, Lounes; van Schaik, Carel P; Krützen, Michael
, i.e. investigating only parts of the ...
... of evidence has demonstrated that AS  complexity 
Comparative transcriptomics uncovers alternative splicing changes and signatures of selection from maize improvement
Comparative transcriptomics uncovers alternative splicing changes and signatures of selection from maize improvement
Huang, Jun; Gao, Youjun; Jia, Haitao; Liu, Lei; Zhang, Dan; Zhang, Zuxin
is relevant to eukaryotic evolution, ...
... or there is some inherent computational  complexity 
MetaID: A novel method for identification and quantification of metagenomic samples
MetaID: A novel method for identification and quantification of metagenomic samples
Srinivasan, Satish M; Guda, Chittibabu
in the MetaSim. ...
... MK-10 family proteins also contain low-  complexity 
Analysis of two large functionally uncharacterized regions in the Methanopyrus kandleri AV19 genome
Analysis of two large functionally uncharacterized regions in the Methanopyrus kandleri AV19 genome
Jensen, Lars Juhl; Skovgaard, Marie; Sicheritz-Pontén, Thomas; Jørgensen, Merete Kjær; Lundegaard, Christiane; Pedersen, Corinna Cavan; Petersen, Nanna; Ussery, David
regions. ...
... amino acids, in terms of their size/  complexity 
The action of selection on codon bias in the human genome is related to frequency, complexity, and chronology of amino acids
The action of selection on codon bias in the human genome is related to frequency, complexity, and chronology of amino acids
Kotlar, Daniel; Lavner, Yizhar
, may be in action. ...
... dimensional feature spaces of greater  complexity 
The oligonucleotide frequency derived error gradient and its application to the binning of metagenome fragments
The oligonucleotide frequency derived error gradient and its application to the binning of metagenome fragments
Saeed, Isaam; Halgamuge, Saman K
and is intended to improve on the ...
... TFBS-clustered regions and defined a “TFBS  complexity 
Genome-wide identification and characterisation of HOT regions in the human genome
Genome-wide identification and characterisation of HOT regions in the human genome
Li, Hao; Liu, Feng; Ren, Chao; Bo, Xiaochen; Shu, Wenjie
” score based on the number and proximity ...
... protein structures. Results We study the  complexity 
New enumeration algorithm for protein structure comparison and classification
New enumeration algorithm for protein structure comparison and classification
Ashby, Cody; Johnson, Daniel; Walker, Karl; Kanj, Iyad A; Xia, Ge; Huang, Xiuzhen
of the protein structure comparison ...
... . Background Repeats of high sequence  complexity 
Automated paleontology of repetitive DNA with REANNOTATE
Automated paleontology of repetitive DNA with REANNOTATE
Pereira, Vini
– mostly transposable elements (TEs) – ...

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