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Volume 32; Issue 12
Main
Bioinformatics
Volume 32; Issue 12
Bioinformatics
Volume 32; Issue 12
1
Fast metabolite identification with Input Output Kernel Regression
Brouard, Céline
,
Shen, Huibin
,
Dührkop, Kai
,
d'Alché-Buc, Florence
,
Böcker, Sebastian
,
Rousu, Juho
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 524 KB
Your tags:
english, 2016
2
Classifying and segmenting microscopy images with deep multiple instance learning
Kraus, Oren Z.
,
Ba, Jimmy Lei
,
Frey, Brendan J.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 970 KB
Your tags:
english, 2016
3
An integer programming framework for inferring disease complexes from network data
Mazza, Arnon
,
Klockmeier, Konrad
,
Wanker, Erich
,
Sharan, Roded
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.64 MB
Your tags:
english, 2016
4
Comparative analyses of population-scale phenomic data in electronic medical records reveal race-specific disease networks
Glicksberg, Benjamin S.
,
Li, Li
,
Badgeley, Marcus A.
,
Shameer, Khader
,
Kosoy, Roman
,
Beckmann, Noam D.
,
Pho, Nam
,
Hakenberg, Jörg
,
Ma, Meng
,
Ayers, Kristin L.
,
Hoffman, Gabriel E.
,
Dan Li, Shuyu
,
Scha
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 4.46 MB
Your tags:
english, 2016
5
A novel method for discovering local spatial clusters of genomic regions with functional relationships from DNA contact maps
Hu, Xihao
,
Shi, Christina Huan
,
Yip, Kevin Y.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 671 KB
Your tags:
english, 2016
6
DrugE-Rank: improving drug–target interaction prediction of new candidate drugs or targets by ensemble learning to rank
Yuan, Qingjun
,
Gao, Junning
,
Wu, Dongliang
,
Zhang, Shihua
,
Mamitsuka, Hiroshi
,
Zhu, Shanfeng
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 583 KB
Your tags:
english, 2016
7
Reconstructing the temporal progression of HIV-1 immune response pathways
Jain, Siddhartha
,
Arrais, Joel
,
Venkatachari, Narasimhan J.
,
Ayyavoo, Velpandi
,
Bar-Joseph, Ziv
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 3.28 MB
Your tags:
english, 2016
8
Linear effects models of signaling pathways from combinatorial perturbation data
Szczurek, Ewa
,
Beerenwinkel, Niko
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.03 MB
Your tags:
english, 2016
9
RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes
Srivastava, Avi
,
Sarkar, Hirak
,
Gupta, Nitish
,
Patro, Rob
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 373 KB
Your tags:
english, 2016
10
What time is it? Deep learning approaches for circadian rhythms
Agostinelli, Forest
,
Ceglia, Nicholas
,
Shahbaba, Babak
,
Sassone-Corsi, Paolo
,
Baldi, Pierre
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.07 MB
Your tags:
english, 2016
11
Analysis of aggregated cell–cell statistical distances within pathways unveils therapeutic-resistance mechanisms in circulating tumor cells
Schissler, A. Grant
,
Li, Qike
,
Chen, James L.
,
Kenost, Colleen
,
Achour, Ikbel
,
Billheimer, D. Dean
,
Li, Haiquan
,
Piegorsch, Walter W.
,
Lussier, Yves A.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 748 KB
Your tags:
english, 2016
12
Convolutional neural network architectures for predicting DNA–protein binding
Zeng, Haoyang
,
Edwards, Matthew D.
,
Liu, Ge
,
Gifford, David K.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 477 KB
Your tags:
english, 2016
13
Prediction of ribosome footprint profile shapes from transcript sequences
Liu, Tzu-Yu
,
Song, Yun S.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.14 MB
Your tags:
english, 2016
14
Faster and more accurate graphical model identification of tandem mass spectra using trellises
Wang, Shengjie
,
Halloran, John T.
,
Bilmes, Jeff A.
,
Noble, William S.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.98 MB
Your tags:
english, 2016
15
A novel algorithm for calling mRNA m 6 A peaks by modeling biological variances in MeRIP-seq data
Cui, Xiaodong
,
Meng, Jia
,
Zhang, Shaowu
,
Chen, Yidong
,
Huang, Yufei
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 800 KB
Your tags:
english, 2016
16
Analysis of differential splicing suggests different modes of short-term splicing regulation
Topa, Hande
,
Honkela, Antti
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 3.09 MB
Your tags:
english, 2016
17
RCK: accurate and efficient inference of sequence- and structure-based protein–RNA binding models from RNAcompete data
Orenstein, Yaron
,
Wang, Yuhao
,
Berger, Bonnie
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1017 KB
Your tags:
english, 2016
18
Read-based phasing of related individuals
Garg, Shilpa
,
Martin, Marcel
,
Marschall, Tobias
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 385 KB
Your tags:
english, 2016
19
DFLpred: High-throughput prediction of disordered flexible linker regions in protein sequences
Meng, Fanchi
,
Kurgan, Lukasz
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 938 KB
Your tags:
english, 2016
20
DeepMeSH: deep semantic representation for improving large-scale MeSH indexing
Peng, Shengwen
,
You, Ronghui
,
Wang, Hongning
,
Zhai, Chengxiang
,
Mamitsuka, Hiroshi
,
Zhu, Shanfeng
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 417 KB
Your tags:
english, 2016
21
Influence maximization in time bounded network identifies transcription factors regulating perturbed pathways
Jo, Kyuri
,
Jung, Inuk
,
Moon, Ji Hwan
,
Kim, Sun
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 576 KB
Your tags:
english, 2016
22
RNAiFold2T: Constraint Programming design of thermo-IRES switches
Garcia-Martin, Juan Antonio
,
Dotu, Ivan
,
Fernandez-Chamorro, Javier
,
Lozano, Gloria
,
Ramajo, Jorge
,
Martinez-Salas, Encarnacion
,
Clote, Peter
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 661 KB
Your tags:
english, 2016
23
A network-driven approach for genome-wide association mapping
Lee, Seunghak
,
Kong, Soonho
,
Xing, Eric P.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 993 KB
Your tags:
english, 2016
24
A cross-species bi-clustering approach to identifying conserved co-regulated genes
Sun, Jiangwen
,
Jiang, Zongliang
,
Tian, Xiuchun
,
Bi, Jinbo
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 482 KB
Your tags:
english, 2016
25
Novel applications of multitask learning and multiple output regression to multiple genetic trait prediction
He, Dan
,
Kuhn, David
,
Parida, Laxmi
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 467 KB
Your tags:
english, 2016
26
A convex optimization approach for identification of human tissue-specific interactomes
Mohammadi, Shahin
,
Grama, Ananth
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.59 MB
Your tags:
english, 2016
27
deBWT: parallel construction of Burrows–Wheeler Transform for large collection of genomes with de Bruijn-branch encoding
Liu, Bo
,
Zhu, Dixian
,
Wang, Yadong
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 416 KB
Your tags:
english, 2016
28
Simultaneous prediction of enzyme orthologs from chemical transformation patterns for de novo metabolic pathway reconstruction
Tabei, Yasuo
,
Yamanishi, Yoshihiro
,
Kotera, Masaaki
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 852 KB
Your tags:
english, 2016
29
Jumping across biomedical contexts using compressive data fusion
Zitnik, Marinka
,
Zupan, Blaz
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.41 MB
Your tags:
english, 2016
30
BioASF: a framework for automatically generating executable pathway models specified in BioPAX
Haydarlou, Reza
,
Jacobsen, Annika
,
Bonzanni, Nicola
,
Feenstra, K. Anton
,
Abeln, Sanne
,
Heringa, Jaap
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 1.09 MB
Your tags:
english, 2016
31
PHOCOS: inferring multi-feature phenotypic crosstalk networks
Deng, Yue
,
Altschuler, Steven J.
,
Wu, Lani F.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 826 KB
Your tags:
english, 2016
32
Finding correct protein–protein docking models using ProQDock
Basu, Sankar
,
Wallner, Björn
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 719 KB
Your tags:
english, 2016
33
phRAIDER: Pattern-Hunter based Rapid Ab Initio Detection of Elementary Repeats
Schaeffer, Carly E.
,
Figueroa, Nathaniel D.
,
Liu, Xiaolin
,
Karro, John E.
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 257 KB
Your tags:
english, 2016
34
An algorithm for computing the gene tree probability under the multispecies coalescent and its application in the inference of population tree
Wu, Yufeng
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 250 KB
Your tags:
english, 2016
35
Structure-based prediction of transcription factor binding specificity using an integrative energy function
Farrel, Alvin
,
Murphy, Jonathan
,
Guo, Jun-tao
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 914 KB
Your tags:
english, 2016
36
Genome assembly from synthetic long read clouds
Kuleshov, Volodymyr
,
Snyder, Michael P.
,
Batzoglou, Serafim
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 296 KB
Your tags:
english, 2016
37
CMsearch: simultaneous exploration of protein sequence space and structure space improves not only protein homology detection but also protein structure prediction
Cui, Xuefeng
,
Lu, Zhiwu
,
Wang, Sheng
,
Jing-Yan Wang, Jim
,
Gao, Xin
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 638 KB
Your tags:
english, 2016
38
Using genomic annotations increases statistical power to detect eGenes
Duong, Dat
,
Zou, Jennifer
,
Hormozdiari, Farhad
,
Sul, Jae Hoon
,
Ernst, Jason
,
Han, Buhm
,
Eskin, Eleazar
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 457 KB
Your tags:
english, 2016
39
SHARAKU: an algorithm for aligning and clustering read mapping profiles of deep sequencing in non-coding RNA processing
Tsuchiya, Mariko
,
Amano, Kojiro
,
Abe, Masaya
,
Seki, Misato
,
Hase, Sumitaka
,
Sato, Kengo
,
Sakakibara, Yasubumi
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 479 KB
Your tags:
english, 2016
40
Data-driven mechanistic analysis method to reveal dynamically evolving regulatory networks
Intosalmi, Jukka
,
Nousiainen, Kari
,
Ahlfors, Helena
,
Lähdesmäki, Harri
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 584 KB
Your tags:
english, 2016
41
Compacting de Bruijn graphs from sequencing data quickly and in low memory
Chikhi, Rayan
,
Limasset, Antoine
,
Medvedev, Paul
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 384 KB
Your tags:
english, 2016
42
ISMB 2016 Proceedings Papers Committee
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 68 KB
Your tags:
english, 2016
43
Author Index
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 43 KB
Your tags:
english, 2016
44
ISMB 2016 Proceedings
Baldi, Pierre
,
Przytycka, Teresa
Journal:
Bioinformatics
Year:
2016
Language:
english
File:
PDF, 58 KB
Your tags:
english, 2016
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