1.
Evolution of clitellate phaosomes from rhabdomeric photoreceptor cells of polychaetes – a study in the leech Helobdella robusta (Annelida, Sedentaria, Clitellata)
Carmen
Döring,
Jasmin
Gosda,
Kristin
Tessmar-Raible,
Harald
Hausen,
Detlev
Arendt,
Günter
Purschke
Frontiers in Zoology 2013, 10 :52 (5 September 2013)
Abstract | Full text | PDF | PubMed
2.
Experimental characterization of the human non-sequence-specific nucleic acid interactome
Gerhard
Dürnberger,
Tilmann
Bürckstümmer,
Kilian
Huber,
Roberto
Giambruno,
Tobias
Doerks,
Evren
Karayel,
Thomas
R
Burkard,
Ines
Kaupe,
André
C
Müller,
Andreas
Schönegger,
Gerhard
F
Ecker,
Hans
Lohninger,
Peer
Bork,
Keiryn
L
Bennett,
Giulio
Superti-Furga,
Jacques
Colinge
Genome Biology 2013, 14 :R81 (31 July 2013)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
A mass spectrometry and bioinformatics approach identifies human proteins that bind nucleic acids in a non-sequence-specific manner
3.
Synaptic boutons sizes are tuned to best fit their physiological performances
Markus
M
Knodel,
Dan
Bucher,
Romina
Geiger,
Lihao
Ge,
Alfio
Grillo,
Gabriel
Wittum,
Christoph
Schuster,
Gillian
Queisser
BMC Neuroscience 2013, 14 (Suppl 1):P138 (8 July 2013)
Full text | PDF
4.
Somatic and visceral nervous systems - an ancient duality
Paola
Bertucci,
Detlev
Arendt
BMC Biology 2013, 11 :54 (30 April 2013)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
The idea that vertebrates are composed of a ‘visceral’ and ‘somatic’ self, responding to internal and external stimuli, respectively, was first put forward in the 19th century. Now, molecular fingerprinting indicates a duality between the somatic and visceral nervous systems that appears to predate Bilataria.
5.
TRACER: a resource to study the regulatory architecture of the mouse genome
Chao-Kung
Chen,
Orsolya
Symmons,
Veli Vural
Uslu,
Taro
Tsujimura,
Sandra
Ruf,
Damian
Smedley,
François
Spitz
BMC Genomics 2013, 14 :215 (2 April 2013)
Abstract | Full text | PDF | PubMed
6.
Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of Polycomb target genes
James
P
Reddington,
Sara
M
Perricone,
Colm
E
Nestor,
Judith
Reichmann,
Neil
A
Youngson,
Masako
Suzuki,
Diana
Reinhardt,
Donncha
S
Dunican,
James
G
Prendergast,
Heidi
Mjoseng,
Bernard
H
Ramsahoye,
Emma
Whitelaw,
John
M
Greally,
Ian
R
Adams,
Wendy
A
Bickmore,
Richard
R
Meehan
Genome Biology 2013, 14 :R25 (25 March 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
|
Editor’s summary
An intact DNA methylome is required for appropriate Polycomb-mediated gene repression, as revealed by H3K4me3 and PRC2 mapping in hypomethylated cells
7.
A new method to customize protein expression vectors for fast, efficient and background free parallel cloning
Judith
Scholz,
Hüseyin
Besir,
Claudia
Strasser,
Sabine
Suppmann
BMC Biotechnology 2013, 13 :12 (14 February 2013)
Abstract | Full text | PDF | PubMed
8.
The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies
Toshiaki
Katayama,
Mark
D
Wilkinson,
Gos
Micklem,
Shuichi
Kawashima,
Atsuko
Yamaguchi,
Mitsuteru
Nakao,
Yasunori
Yamamoto,
Shinobu
Okamoto,
Kenta
Oouchida,
Hong-Woo
Chun,
Jan
Aerts,
Hammad
Afzal,
Erick
Antezana,
Kazuharu
Arakawa,
Bruno
Aranda,
Francois
Belleau,
Jerven
Bolleman,
Raoul JP
Bonnal,
Brad
Chapman,
Peter JA
Cock,
Tore
Eriksson,
Paul MK
Gordon,
Naohisa
Goto,
Kazuhiro
Hayashi,
Heiko
Horn,
Ryosuke
Ishiwata,
Eli
Kaminuma,
Arek
Kasprzyk,
Hideya
Kawaji,
Nobuhiro
Kido
et al.
Journal of Biomedical Semantics 2013, 4 :6 (11 February 2013)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
This meeting report from the 3rd DBCLS BioHackathon examines how Semantic Web technologies can improve the quality and accessibility of life science research data on the Web.
9.
Genotyping 1000 yeast strains by next-generation sequencing
Stefan
Wilkening,
Manu
M
Tekkedil,
Gen
Lin,
Emilie
S
Fritsch,
Wu
Wei,
Julien
Gagneur,
David
W
Lazinski,
Andrew
Camilli,
Lars
M
Steinmetz
BMC Genomics 2013, 14 :90 (9 February 2013)
Abstract | Full text | PDF | PubMed
10.
Consistent mutational paths predict eukaryotic thermostability
Vera
van Noort,
Bettina
Bradatsch,
Manimozhiyan
Arumugam,
Stefan
Amlacher,
Gert
Bange,
Chris
Creevey,
Sebastian
Falk,
Daniel
R
Mende,
Irmgard
Sinning,
Ed
Hurt,
Peer
Bork
BMC Evolutionary Biology 2013, 13 :7 (10 January 2013)
Abstract | Full text | PDF | PubMed
11.
The protein interaction network of a taxis signal transduction system in a Halophilic Archaeon
Matthias
Schlesner,
Arthur
Miller,
Hüseyin
Besir,
Michalis
Aivaliotis,
Judith
Streif,
Beatrix
Scheffer,
Frank
Siedler,
Dieter
Oesterhelt
BMC Microbiology 2012, 12 :272 (21 November 2012)
Abstract | Full text | PDF | PubMed | f1000
12.
Analysis of variation at transcription factor binding sites in Drosophila and humans
Mikhail
Spivakov,
Junaid
Akhtar,
Pouya
Kheradpour,
Kathryn
Beal,
Charles
Girardot,
Gautier
Koscielny,
Javier
Herrero,
Manolis
Kellis,
Eileen
EM
Furlong,
Ewan
Birney
Genome Biology 2012, 13 :R49 (5 September 2012)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
|
Editor’s summary
Transcription factor binding site variability in fly and human provides evidence for a buffering phenomenon
13.
Personal receptor repertoires: olfaction as a model
Tsviya
Olender,
Sebastian
M
Waszak,
Maya
Viavant,
Miriam
Khen,
Edna
Ben-Asher,
Alejandro
Reyes,
Noam
Nativ,
Charles
J
Wysocki,
Dongliang
Ge,
Doron
Lancet
BMC Genomics 2012, 13 :414 (21 August 2012)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
Data mining of the inventory of human olfactory receptor coding regions has revealed unusually high genetic diversity between individuals, suggesting humans have receptor repertoires that may result in a highly personalized perception of smell.
14.
Side chain modified peptide nucleic acids (PNA) for knock-down of six3 in medaka embryos
Sebastian
Dorn,
Narges
Aghaallaei,
Gerlinde
Jung,
Baubak
Bajoghli,
Birgit
Werner,
Holger
Bock,
Thomas
Lindhorst,
Thomas
Czerny
BMC Biotechnology 2012, 12 :50 (17 August 2012)
Abstract | Full text | PDF | PubMed
15.
Insertion of a myc-tag within α -dystroglycan domains improves its biochemical and microscopic detection
Simona
Morlacchi,
Francesca
Sciandra,
Maria
Bigotti,
Manuela
Bozzi,
Wolfgang
Hübner,
Antonio
Galtieri,
Bruno
Giardina,
Andrea
Brancaccio
BMC Biochemistry 2012, 13 :14 (26 July 2012)
Abstract | Full text | PDF | PubMed
16.
CalpB modulates border cell migration in Drosophila egg chambers
Endre
Kókai,
Ferencz
Páldy,
Kálmán
Somogyi,
Anil
Chougule,
Margit
Pál,
Éva
Kerekes,
Péter
Deák,
Péter
Friedrich,
Viktor
Dombrádi,
Géza
Ádám
BMC Developmental Biology 2012, 12 :20 (24 July 2012)
Abstract | Full text | PDF | PubMed
17.
m:Explorer: multinomial regression models reveal positive and negative regulators of longevity in yeast quiescence
Jüri
Reimand,
Anu
Aun,
Jaak
Vilo,
Juan
M
Vaquerizas,
Juhan
Sedman,
Nicholas
M
Luscombe
Genome Biology 2012, 13 :R55 (21 June 2012)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
A computational method that identifies process-specific regulators from high-throughput data. Its utility is shown in an analysis that identifies cell cycle regulators
18.
A unified phylogeny-based nomenclature for histone variants
Paul
B
Talbert,
Kami
Ahmad,
Geneviève
Almouzni,
Juan
Ausió,
Frederic
Berger,
Prem
L
Bhalla,
William
M
Bonner,
W
Cande,
Brian
P
Chadwick,
Simon W
L
Chan,
George A
M
Cross,
Liwang
Cui,
Stefan
I
Dimitrov,
Detlef
Doenecke,
José
M
Eirin-López,
Martin
A
Gorovsky,
Sandra
B
Hake,
Barbara
A
Hamkalo,
Sarah
Holec,
Steven
E
Jacobsen,
Kinga
Kamieniarz,
Saadi
Khochbin,
Andreas
G
Ladurner,
David
Landsman,
John
A
Latham,
Benjamin
Loppin,
Harmit
S
Malik,
William
F
Marzluff,
John
R
Pehrson,
Jan
Postberg
et al.
Epigenetics & Chromatin 2012, 5 :7 (31 May 2012)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
|
Editor’s summary
In response to an urgent need to rationalize the current schemes for naming histone variants, researchers from over 30 institutions worldwide have developed consistent but flexible naming rules that are informative and database-searchable.
19.
Transcriptome profiling of the demosponge Amphimedon queenslandica reveals genome-wide events that accompany major life cycle transitions
Cecilia
Conaco,
Pierre
Neveu,
Hongjun
Zhou,
Mary
Arcila,
Sandie
M
Degnan,
Bernard
M
Degnan,
Kenneth
S
Kosik
BMC Genomics 2012, 13 :209 (30 May 2012)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
20.
How Not to Be a Bioinformatician
Manuel
Corpas,
Segun
Fatumo,
Reinhard
Schneider
Source Code for Biology and Medicine 2012, 7 :3 (28 May 2012)
Abstract | Full text | PDF | PubMed |
21.
Mammalian tissues defective in nonsense-mediated mRNA decay display highly aberrant splicing patterns
Joachim
Weischenfeldt,
Johannes
Waage,
Geng
Tian,
Jing
Zhao,
Inge
Damgaard,
Janus
Jakobsen,
Karsten
Kristiansen,
Anders
Krogh,
Jun
Wang,
Bo
T
Porse
Genome Biology 2012, 13 :R35 (24 May 2012)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
An extensive in vivo analysis of how nonsense mediated mRNA decay regulates alternative splicing in two mouse tissues
22.
Arena3D: visualizing time-driven phenotypic differences in biological systems
Maria
Secrier,
Georgios
A
Pavlopoulos,
Jan
Aerts,
Reinhard
Schneider
BMC Bioinformatics 2012, 13 :45 (22 March 2012)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
23.
Caipirini: using gene sets to rank literature
Theodoros
G
Soldatos,
Seán
I
O'Donoghue,
Venkata
P
Satagopam,
Adriano
Barbosa-Silva,
Georgios
A
Pavlopoulos,
Ana
Wanderley-Nogueira,
Nina
Soares-Cavalcanti,
Reinhard
Schneider
BioData Mining 2012, 5 :1 (1 February 2012)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
|
Editor’s summary
'Caipirini', a new software program, allows ranking of biomedical literature based on biological relevance to gene sets, thereby enabling data from these high-throughput experiments to be more easily accessed.
24.
SpeCond: a method to detect condition-specific gene expression
Florence
MG
Cavalli,
Richard
Bourgon,
Juan
M
Vaquerizas,
Nicholas
M
Luscombe
Genome Biology 2011, 12 :413 (30 December 2011)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
Correction: A method to detect condition-specific gene expression from microarray data
25.
Which clustering algorithm is better for predicting protein complexes?
Charalampos
N
Moschopoulos,
Georgios
A
Pavlopoulos,
Ernesto
Iacucci,
Jan
Aerts,
Spiridon
Likothanassis,
Reinhard
Schneider,
Sophia
Kossida
BMC Research Notes 2011, 4 :549 (20 December 2011)
Abstract | Full text | PDF | PubMed