| Ident. | Authors (with country if any) | Title |
|---|
| 000551 (2019) |
Katarzyna Wreczycka [Allemagne] ; Vedran Franke [Allemagne] ; Bora Uyar [Allemagne] ; Ricardo Wurmus [Allemagne] ; Selman Bulut [Allemagne] ; Baris Tursun [Allemagne] ; Altuna Akalin [Allemagne] | HOT or not: examining the basis of high-occupancy target regions |
| 000821 (2018) |
Maya Polishchuk [Israël, Russie] ; Inbal Paz [Israël] ; Zohar Yakhini [Israël] ; Yael Mandel-Gutfreund [Israël] | SMARTIV: combined sequence and structure de-novo motif discovery for in-vivo RNA binding data |
| 000B66 (2017) |
Petr Novák [République tchèque] ; Laura Ávila Robledillo [République tchèque] ; Andrea Koblížková [République tchèque] ; Iva Vrbová [République tchèque] ; Pavel Neumann [République tchèque] ; Ji Macas [République tchèque] | TAREAN: a computational tool for identification and characterization of satellite DNA from unassembled short reads |
| 000E63 (2017) |
You Li [États-Unis, République populaire de Chine] ; Tayla B. Heavican [États-Unis] ; Neetha N. Vellichirammal [États-Unis] ; Javeed Iqbal [États-Unis] ; Chittibabu Guda [États-Unis] | ChimeRScope: a novel alignment-free algorithm for fusion transcript prediction using paired-end RNA-Seq data |
| 000E71 (2017) |
Pegah Tootoonchi Afshar [États-Unis] ; Wing Hung Wong [États-Unis] | COSINE: non-seeding method for mapping long noisy sequences |
| 000F57 (2016) |
Eneida L. Hatcher ; Sergey A. Zhdanov ; Yiming Bao ; Olga Blinkova ; Eric P. Nawrocki ; Yuri Ostapchuck ; Alejandro A. Sch Ffer ; J. Rodney Brister | Virus Variation Resource – improved response to emergent viral outbreaks |
| 001157 (2016) |
Hyerin Kim [Corée du Sud] ; Nana Kang [Corée du Sud] ; Kyuhyeon An [Corée du Sud] ; Doyun Kim [Corée du Sud] ; Jaehyung Koo [Corée du Sud] ; Min-Soo Kim [Corée du Sud] | MRPrimerV: a database of PCR primers for RNA virus detection |
| 001264 (2016) |
Song Gao [États-Unis, République populaire de Chine] ; Liang Zhang [États-Unis] ; Venigalla B. Rao [États-Unis] | Exclusion of small terminase mediated DNA threading models for genome packaging in bacteriophage T4 |
| 001922 (2015) |
Hao-Teng Hu ; Che-Pei Cho ; Ya-Hui Lin ; Kung-Yao Chang | A general strategy to inhibiting viral −1 frameshifting based on upstream attenuation duplex formation |
| 001A31 (2014) |
Maxwell A. Hume [États-Unis] ; Luis A. Barrera [États-Unis] ; Stephen S. Gisselbrecht [États-Unis] ; Martha L. Bulyk [États-Unis] | UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein–DNA interactions |
| 001B03 (2014) |
Philipp Koch ; Matthias Platzer ; Bryan R. Downie | RepARK—de novo creation of repeat libraries from whole-genome NGS reads |
| 001C18 (2014) |
Jyoti K. Jha [États-Unis] ; Rodolfo Ghirlando [États-Unis] ; Dhruba K. Chattoraj [États-Unis] | Initiator protein dimerization plays a key role in replication control of Vibrio cholerae chromosome 2 |
| 001D62 (2014) |
Yaron Orenstein ; Ron Shamir | A comparative analysis of transcription factor binding models learned from PBM, HT-SELEX and ChIP data |
| 002023 (2013) |
Adam F. Sander [Danemark] ; Thomas Lavstsen [Danemark] ; Thomas S. Rask [Danemark] ; Michael Lisby [Danemark] ; Ali Salanti [Danemark] ; Sarah L. Fordyce [Danemark] ; Jakob S. Jespersen [Danemark] ; Richard Carter [Royaume-Uni] ; Kirk W. Deitsch [États-Unis] ; Thor G. Theander [Danemark] ; Anders Gorm Pedersen [Danemark] ; David E. Arnot [Danemark, Royaume-Uni] | DNA secondary structures are associated with recombination in major Plasmodium falciparum variable surface antigen gene families |
| 002024 (2013) |
Ka-Chun Wong [Canada] ; Tak-Ming Chan [États-Unis] ; Chengbin Peng ; Yue Li [Canada] ; Zhaolei Zhang [Canada] | DNA motif elucidation using belief propagation |
| 002033 (2013) |
Heejoon Chae [États-Unis] ; Jinwoo Park [Corée du Sud] ; Seong-Whan Lee [Corée du Sud] ; Kenneth P. Nephew [États-Unis] ; Sun Kim [Corée du Sud] | Comparative analysis using K-mer and K-flank patterns provides evidence for CpG island sequence evolution in mammalian genomes |
| 002212 (2012) |
Jyoti K. Jha ; Gaëlle Demarre ; Tatiana Venkova-Canova ; Dhruba K. Chattoraj | Replication regulation of Vibrio cholerae chromosome II involves initiator binding to the origin both as monomer and as dimer |
| 002485 (2011) |
Xiaotu Ma ; Ashwinikumar Kulkarni ; Zhihua Zhang ; Zhenyu Xuan ; Robert Serfling [États-Unis] ; Michael Q. Zhang [République populaire de Chine] | A highly efficient and effective motif discovery method for ChIP-seq/ChIP-chip data using positional information |
| 002487 (2011) |
Laurent Cappadocia ; Jean-Sébastien Parent ; Éric Zampini ; Étienne Lepage ; Jurgen Sygusch ; Normand Brisson | A conserved lysine residue of plant Whirly proteins is necessary for higher order protein assembly and protection against DNA damage |
| 002603 (2010) |
Kimberly Robasky [États-Unis] ; Martha L. Bulyk [États-Unis] | UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions |
| 002610 (2010) |
Ellen Marie Straarup ; Niels Fisker ; Maj Hedtj Rn ; Marie W. Lindholm ; Christoph Rosenbohm ; Vibeke Aarup ; Henrik Frydenlund Hansen ; Henrik Rum ; Jens B. Rode Hansen ; Troels Koch | Short locked nucleic acid antisense oligonucleotides potently reduce apolipoprotein B mRNA and serum cholesterol in mice and non-human primates |
| 002621 (2010) |
Aaron Arvey ; Anita Hermann [États-Unis] ; Cheryl C. Hsia [États-Unis] ; Eugene Ie [États-Unis] ; Yoav Freund ; William Mcginnis [États-Unis] | Minimizing off-target signals in RNA fluorescent in situ hybridization |
| 002764 (2009) |
Sigve Nakken [Norvège] ; Torbj Rn Rognes [Norvège] ; Eivind Hovig [Norvège] | The disruptive positions in human G-quadruplex motifs are less polymorphic and more conserved than their neutral counterparts |
| 002799 (2009) |
C. A. Stein [États-Unis] ; J. Bo Hansen [Danemark] ; Johnathan Lai [Danemark] ; Sijian Wu [États-Unis] ; Anatoliy Voskresenskiy [États-Unis] ; Anja H G [Danemark] ; Jesper Worm [Danemark] ; Maj Hedtj Rn [Danemark] ; Naira Souleimanian [États-Unis] ; Paul Miller [États-Unis] ; Harris S. Soifer [États-Unis] ; Daniella Castanotto [États-Unis] ; Luba Benimetskaya [États-Unis] ; Henrik Rum [Danemark] ; Troels Koch [Danemark] | Efficient gene silencing by delivery of locked nucleic acid antisense oligonucleotides, unassisted by transfection reagents |
| 002804 (2009) |
Ming Fang ; Wencke-Maria Zeisberg ; Ciaran Condon [France] ; Vasily Ogryzko [France] ; Antoine Danchin ; Undine Mechold | Degradation of nanoRNA is performed by multiple redundant RNases in Bacillus subtilis |
| 002828 (2009) |
Junichi Yamaguchi [Japon] ; Mohammed Naimuddin [Japon] ; Manish Biyani [Japon] ; Toru Sasaki [Japon] ; Masayuki Machida [Japon] ; Tai Kubo [Japon] ; Takashi Funatsu [Japon] ; Yuzuru Husimi [Japon] ; Naoto Nemoto [Japon] | cDNA display: a novel screening method for functional disulfide-rich peptides by solid-phase synthesis and stabilization of mRNA–protein fusions |
| 002831 (2009) |
Elena Babaylova [Russie] ; Dmitri Graifer [Russie] ; Alexey Malygin [Russie] ; Joachim Stahl [Russie] ; Ivan Shatsky [Russie] ; Galina Karpova [Russie] | Positioning of subdomain IIId and apical loop of domain II of the hepatitis C IRES on the human 40S ribosome |
| 002832 (2009) |
Shea N. Gardner [États-Unis] ; Amy L. Hiddessen [États-Unis] ; Peter L. Williams [États-Unis] ; Christine Hara [États-Unis] ; Mark C. Wagner [États-Unis] ; Bill W. Colston [États-Unis] | Multiplex primer prediction software for divergent targets |
| 002834 (2009) |
Marie-Hélène Mazauric [États-Unis] ; Yeonee Seol [États-Unis] ; Satoko Yoshizawa [États-Unis] ; Koen Visscher [États-Unis, France] ; Dominique Fourmy [États-Unis, France] | Interaction of the HIV-1 frameshift signal with the ribosome |
| 002835 (2009) |
Adam M. Phillippy [États-Unis] ; Kunmi Ayanbule [États-Unis] ; Nathan J. Edwards [États-Unis] ; Steven L. Salzberg [États-Unis] | Insignia: a DNA signature search web server for diagnostic assay development |
| 002836 (2009) |
Charlton Cooper [Canada] ; Jimin Guo [Canada] ; Yi Yan [Canada] ; Shilpa Chooniedass-Kothari [Canada] ; Florent Hube [Canada] ; Mohammad K. Hamedani [Canada] ; Leigh C. Murphy [Canada] ; Yvonne Myal [Canada] ; Etienne Leygue [Canada] | Increasing the relative expression of endogenous non-coding Steroid Receptor RNA Activator (SRA) in human breast cancer cells using modified oligonucleotides |
| 002837 (2009) |
Andrew D. Kauffmann [États-Unis] ; Ryan J. Campagna [États-Unis] ; Chantal B. Bartels [États-Unis] ; Jessica L. Childs-Disney [États-Unis] | Improvement of RNA secondary structure prediction using RNase H cleavage and randomized oligonucleotides |
| 002839 (2009) |
Arefeh Rouhi [Canada] ; C. Benjamin Lai [Canada] ; Tammy P. Cheng [Canada] ; Fumio Takei [Canada] ; Wayne M. Yokoyama [Canada] ; Dixie L. Mager [Canada] | Evidence for high bi-allelic expression of activating Ly49 receptors |
| 002840 (2009) |
N. D. Mendes [France, Portugal] ; A. T. Freitas [France] ; M.-F. Sagot [France] | Current tools for the identification of miRNA genes and their targets |
| 002843 (2009) |
Zhao Xu [États-Unis, République populaire de Chine] ; Bailin Hao [États-Unis] | CVTree update: a newly designed phylogenetic study platform using composition vectors and whole genomes |
| 002937 (2008) |
Daniel E. Newburger ; Martha L. Bulyk [États-Unis] | UniPROBE: an online database of protein binding microarray data on protein–DNA interactions |
| 002A16 (2008) |
Kannan Tharakaraman [États-Unis] ; Olivier Bodenreider [États-Unis] ; David Landsman [États-Unis] ; John L. Spouge [États-Unis] ; Leonardo Mari O-Ramírez [États-Unis] | The biological function of some human transcription factor binding motifs varies with position relative to the transcription start site |
| 002A18 (2008) |
Arturas Meskauskas [États-Unis] ; Johnathan R. Russ [États-Unis] ; Jonathan D. Dinman [États-Unis] | Structure/function analysis of yeast ribosomal protein L2 |
| 002A19 (2008) |
Kevin B. Turner [États-Unis] ; Robert G. Brinson [États-Unis] ; Hye Young Yi-Brunozzi [États-Unis] ; Jason W. Rausch [États-Unis] ; Jennifer T. Miller [États-Unis] ; Stuart F. J. Le Grice [États-Unis] ; John P. Marino [États-Unis] ; Daniele Fabris [États-Unis] | Structural probing of the HIV-1 polypurine tract RNA:DNA hybrid using classic nucleic acid ligands |
| 002A25 (2008) |
Tuck Seng Wong [Royaume-Uni] ; Sridharan Rajagopalan [Royaume-Uni] ; Fiona M. Townsley [Royaume-Uni] ; Stefan M. Freund [Royaume-Uni] ; Miriana Petrovich [Royaume-Uni] ; David Loakes [Royaume-Uni] ; Alan R. Fersht [Royaume-Uni] | Physical and functional interactions between human mitochondrial single-stranded DNA-binding protein and tumour suppressor p53 |
| 002A26 (2008) |
Prabhat Kumar Purbey [Inde] ; Sunita Singh [Inde] ; P. Pavan Kumar [Inde] ; Sameet Mehta [Inde] ; K. N. Ganesh [Inde] ; Debashis Mitra [Inde] ; Sanjeev Galande [Inde] | PDZ domain-mediated dimerization and homeodomain-directed specificity are required for high-affinity DNA binding by SATB1 |
| 002A29 (2008) |
Claus Lundegaard [Danemark] ; Kasper Lamberth [Danemark] ; Mikkel Harndahl [Danemark] ; S Ren Buus [Danemark] ; Ole Lund [Danemark] ; Morten Nielsen [Danemark] | NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8–11 |
| 002A30 (2008) |
Marcus Gry Björklund [Suède] ; Christian Natanaelsson [Suède] ; Amelie Eriksson Karlström [Suède] ; Yong Hao [Suède] ; Joakim Lundeberg [Suède] | Microarray analysis using disiloxyl 70mer oligonucleotides |
| 002A32 (2008) |
Jessica A. Brown [États-Unis] ; Sean A. Newmister [États-Unis] ; Kevin A. Fiala [États-Unis] ; Zucai Suo [États-Unis] | Mechanism of double-base lesion bypass catalyzed by a Y-family DNA polymerase |
| 002A34 (2008) |
Surya Saha [États-Unis] ; Susan Bridges [États-Unis] ; Zenaida V. Magbanua [États-Unis] ; Daniel G. Peterson [États-Unis] | Empirical comparison of ab initio repeat finding programs |
| 002B21 (2007) |
Undine Mechold ; Gang Fang ; Saravuth Ngo ; Vasily Ogryzko [France] ; Antoine Danchin | YtqI from Bacillus subtilis has both oligoribonuclease and pAp-phosphatase activity |
| 002B72 (2007) |
Pradeep S. Pallan [États-Unis] ; Paolo Lubini ; Martin Bolli [Suisse] ; Martin Egli [États-Unis] | Backbone-base inclination as a fundamental determinant of nucleic acid self- and cross-pairing |
| 002B99 (2007) |
Zunyi Yang [États-Unis] ; A. Michael Sismour [États-Unis] ; Pinpin Sheng [États-Unis] ; Nyssa L. Puskar [États-Unis] ; Steven A. Benner | Enzymatic incorporation of a third nucleobase pair |
| 002C06 (2007) |
Joacim Elmén [Danemark] ; Morten Lindow [Danemark] ; Asli Silahtaroglu [Danemark] ; Mads Bak [Danemark] ; Mette Christensen [Danemark] ; Allan Lind-Thomsen [Danemark] ; Maj Hedtj Rn [Danemark] ; Jens Bo Hansen [Danemark] ; Henrik Frydenlund Hansen [Danemark] ; Ellen Marie Straarup [Danemark] ; Keith Mccullagh [Danemark] ; Phil Kearney [Danemark] ; Sakari Kauppinen [Danemark] | Antagonism of microRNA-122 in mice by systemically administered LNA-antimiR leads to up-regulation of a large set of predicted target mRNAs in the liver |
| 002C07 (2007) |
Arnaud Hecker [France] ; Nicolas Leulliot [France] ; Danièle Gadelle [France] ; Marc Graille [France] ; Anthony Justome [France] ; Pierre Dorlet [France] ; Céline Brochier [France] ; Sophie Quevillon-Cheruel [France] ; Eric Le Cam [France] ; Herman Van Tilbeurgh [France] ; Patrick Forterre [France] | An archaeal orthologue of the universal protein Kae1 is an iron metalloprotein which exhibits atypical DNA-binding properties and apurinic-endonuclease activity in vitro |
| 002C09 (2007) |
Gagan A. Pandya [États-Unis] ; Michael H. Holmes [États-Unis] ; Sirisha Sunkara [États-Unis] ; Andrew Sparks [États-Unis] ; Yun Bai [États-Unis] ; Kathleen Verratti [États-Unis] ; Kelly Saeed [États-Unis] ; Pratap Venepally [États-Unis] ; Behnam Jarrahi [États-Unis] ; Robert D. Fleischmann [États-Unis] ; Scott N. Peterson [États-Unis] | A bioinformatic filter for improved base-call accuracy and polymorphism detection using the Affymetrix GeneChip® whole-genome resequencing platform |
