cran: SAM | Projects | Ecosyste.ms: Papers

10.1186/1471-2164-14-315

Exploring the larval transcriptome of the common sole (Solea solea L.)
Cited by: 42
Author(s): Serena Ferraresso, Alessio Bonaldo, Luca Parma, Stefano Cinotti, Paola Massi, Luca Bargelloni, Pier Paolo Gatta
Software Mentions: 1
Published: almost 12 years ago

10.1186/1471-2164-15-180

Whole genome sequencing of the black grouse (Tetrao tetrix): reference guided assembly suggests faster-Z and MHC evolution
Cited by: 38
Author(s): Biao Wang, Robert Ekblom, Ignas Bunikis, Heli Siitari, Jacob Höglund
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-018-4636-7

Genome and transcriptome of the natural isopropanol producer Clostridium beijerinckii DSM6423
Cited by: 24
Author(s): Hadrien Máté de Gérando, François Wasels, Angélique Bisson, Benjamin Clément, Frédérique Bidard, Etienne Jourdier, Ana M. López-Contreras, Nicolas Lopes Ferreira
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-15-273

SNP Discovery for mapping alien introgressions in wheat
Cited by: 78
Author(s): Vijay K. Tiwari, Shichen Wang, Sunish K. Sehgal, Jan Vrána, Bernd Friebe, Marie Kubaláková, Praveen Chhuneja, Jaroslav Doležel, Eduard Akhunov, Bhanu Kalia, Jamal S. M. Sabir, Bikram S. Gill
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2164-12-405

Transcriptional responses to glucose in Saccharomyces cerevisiae strains lacking a functional protein kinase A
Cited by: 23
Author(s): Daniela Livas, Marinka J. H. Almering, Jean‐Marc Daran, Jack T. Pronk, Juana M. Gancedo
Software Mentions: 1
Published: over 13 years ago

10.1186/1471-2164-10-292

Disorders of sex development expose transcriptional autonomy of genetic sex and androgen-programmed hormonal sex in human blood leukocytes
Cited by: 22
Author(s): Paul‐Martin Holterhus, Jan-Hendrik Bebermeier, Ralf Werner, János Demeter, Annette Richter‐Unruh, Gunnar Cario, Mahesh Appari, Reiner Siebert, Felix G. Riepe, James D. Brooks, Olaf Hiort
Software Mentions: 1
Published: almost 16 years ago

10.1186/s12864-015-1277-y

Characterization of a novel RXR receptor in the salmon louse (Lepeophtheirus salmonis, Copepoda) regulating growth and female reproduction
Cited by: 17
Author(s): Christiane Eichner, Sussie Dalvin, Rasmus Skern‐Mauritzen, Ketil Malde, Heidi Kongshaug, Frank Nilsen
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2164-15-346

Genomic regions involved in yield potential detected by genome-wide association analysis in Japanese high-yielding rice cultivars
Cited by: 29
Author(s): Jun‐ichi Yonemaru, Ritsuko Mizobuchi, Hiroshi Katô, Tetsuro Yamamoto, Eiji Yamamoto, Kazuki Matsubara, Hideyuki Hirabayashi, Yoshinobu Takeuchi, Hiroshi Tsunematsu, Takuro Ishii, Hiroto Ohta, Hideo Maeda, Kaworu Ebana, Masahiro Yano
Software Mentions: 1
Published: almost 11 years ago

10.1186/1471-2164-11-354

Development of an oligo DNA microarray for the European sea bass and its application to expression profiling of jaw deformity
Cited by: 35
Author(s): Serena Ferraresso, Massimo Milan, Caterina Pellizzari, Nicola Vitulo, Richard Reinhardt, Adelino V.M. Canário, Tomaso Patarnello, Luca Bargelloni
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2164-10-404

Streptococcus pneumoniae nasopharyngeal colonization induces type I interferons and interferon-induced gene expression
Cited by: 42
Author(s): Elizabeth A. Joyce, Stephen J. Popper, Stanley Falkow
Software Mentions: 1
Published: almost 16 years ago

10.1186/1471-2164-14-589

Impact of microRNAs on regulatory networks and pathways in human colorectal carcinogenesis and development of metastasis
Cited by: 136
Author(s): Silvia Pizzini, Andrea Bisognin, Susanna Mandruzzato, M. Biasiolo, Arianna Facciolli, Lisa Perilli, Elisabetta Rossi, Giovanni Esposito, Massimo Rugge, Pierluigi Pilati, Simone Mocellin, Donato Nitti, Stefania Bortoluzzi, Paola Zanovello
Software Mentions: 1
Published: about 11 years ago

10.1186/1471-2164-13-S8-S9

BM-Map: an efficient software package for accurately allocating multireads of RNA-sequencing data
Cited by: 6
Author(s): Yuan Yuan, Clift Norris, Yanxun Xu, Kam Wah Tsui, Yuan Ji, Han Liang
Software Mentions: 1
Published: almost 12 years ago

10.1186/1471-2164-10-275

7TMRmine: a Web server for hierarchical mining of 7TMR proteins
Cited by: 21
Author(s): Guoquing Lu, Zhifang Wang, Alan M. Jones, Etsuko N. Moriyama
Software Mentions: 1
Published: over 15 years ago

10.1186/1471-2164-8-281

Global transcription profiling reveals differential responses to chronic nitrogen stress and putative nitrogen regulatory components in Arabidopsis
Cited by: 174
Author(s): Yong‐Mei Bi, Rong-Lin Wang, Tong Zhu, Steven J. Rothstein
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2164-11-65

Tungsten carbide cobalt nanoparticles exert hypoxia-like effects on the gene expression level in human keratinocytes
Cited by: 41
Author(s): Wibke Busch, Dana Kühnel, Kristin Schirmer, Stefan Scholz
Software Mentions: 1
Published: almost 15 years ago

10.1186/1471-2164-12-381

Combined analysis of transcriptome and metabolite data reveals extensive differences between black and brown nearly-isogenic soybean (Glycine max) seed coats enabling the identification of pigment isogenes
Cited by: 39
Author(s): Nik Kovinich, Ammar Saleem, John T. Arnason, Brian Miki
Software Mentions: 1
Published: over 13 years ago

10.1186/s12864-015-1524-2

Microarray: a global analysis of biomineralization-related gene expression profiles during larval development in the pearl oyster, Pinctada fucata
Cited by: 45
Author(s): Jun Li, Dong Yang, Shiting Liu, Shiguo Li, Guangrui Xu, Guilan Zheng, Liping Xie, Rongqing Zhang
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2164-8-63

Target genes of myostatin loss-of-function in muscles of late bovine fetuses
Cited by: 69
Author(s): Isabelle Cassar-Malek, Florent Passelaigue, Carine Bernard, Jean J. Léger, Jean-François Hocquette
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2164-13-177

Improving the performance of true single molecule sequencing for ancient DNA
Cited by: 39
Author(s): Aurélien Ginolhac, Julia T. Vilstrup, Jesper Stenderup, Morten Rasmussen, Mathias Stiller, Beth Shapiro, Grant D. Zazula, Duane G. Froese, Kathleen E. Steinmann, John F. Thompson, Khaled A. S. Al-Rasheid, M. Thomas P. Gilbert, Eske Willerslev, Ludovic Orlando
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2164-6-122

Laterally transferred elements and high pressure adaptation in Photobacterium profundum strains
Cited by: 87
Author(s): Stefano Campanaro, Alessandro Vezzi, Nicola Vitulo, Federico M. Lauro, Michela D’Angelo, Francesca Simonato, Alessandro Cestaro, G Malacrida, Giulio Bertoloni, Giorgio Valle, Douglas H. Bartlett
Software Mentions: 1
Published: about 19 years ago

10.1186/1471-2164-9-369

Peripheral arterial occlusive disease: Global gene expression analyses suggest a major role for immune and inflammatory responses
Cited by: 57
Author(s): Shijun Fu, Hulin Zhao, Jiantao Shi, Arhat Abzhanov, Keith Crawford, Lucila Ohno-Machado, Jianqin Zhou, Yanzhi Du, Winston Patrick Kuo, Ji Zhang, Mier Jiang, Jiamin Jin
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2164-8-264

Genomic expression during human myelopoiesis
Cited by: 30
Author(s): Francesco Ferrari, Stefania Bortoluzzi, Alessandro Coppe, Dario Basso, Silvio Bicciato, Roberta Zini, Claudia Gemelli, Gian Antonio Danieli, Sérgio Ferrari
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2164-8-72

Transcriptional profiling of Actinobacillus pleuropneumoniae under iron-restricted conditions
Cited by: 59
Author(s): Vincent Deslandes, John H. E. Nash, Josée Harel, James W. Coulton, Mario Jacques
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2164-14-195

5'-Serial Analysis of Gene Expression studies reveal a transcriptomic switch during fruiting body development in Coprinopsis cinerea
Cited by: 60
Author(s): Chi Keung Cheng, Chun Hang Au, Sarah K. Wilke, Jason E. Stajich, Miriam E. Zolan, Patricia J. Pukkila, Hoi Shan Kwan
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2164-10-398

Comparing genomic expression patterns across plant species reveals highly diverged transcriptional dynamics in response to salt stress
Cited by: 47
Author(s): Harkamal Walia, Clyde Wilson, Abdelbagi M. Ismail, Timothy J. Close, Xinping Cui
Software Mentions: 1
Published: almost 16 years ago

10.1186/1471-2164-12-37

The sex-biased brain: sexual dimorphism in gene expression in two species of songbirds
Cited by: 60
Author(s): Sara Naurin, Bengt Hansson, Dennis Hasselquist, Yong Hwan Kim, Staffan Bensch
Software Mentions: 1
Published: almost 14 years ago

10.1186/1471-2164-7-69

Specific age related signatures in Drosophila body parts transcriptome
Cited by: 97
Author(s): Fabrice Girardot, Christelle Lasbleiz, Véronique Monnier, Hervé Tricoire
Software Mentions: 1
Published: over 18 years ago

10.1186/s12864-018-4445-z

EOGD: the Euplotes octocarinatus genome database
Cited by: 13
Author(s): Ruanlin Wang, Wei Miao, Wei Wang, Jie Xiong, Aihua Liang
Software Mentions: 1
Published: almost 7 years ago

10.1186/1471-2164-14-504

REACTIN: Regulatory activity inference of transcription factors underlying human diseases with application to breast cancer
Cited by: 20
Author(s): Mingzhu Zhu, Chun-Chi Liu, Chao Cheng
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2164-8-94

Gene expression profiles in rat brain disclose CNS signature genes and regional patterns of functional specialisation
Cited by: 40
Author(s): Carl Trygve Stansberg, Audun Osland Vik‐Mo, Rita Holdhus, Harald Breilid, Boleslaw Srebro, Kjell Petersen, Hugo A. Jørgensen, Inge Jonassen, Vidar M. Steen
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2164-8-85

Gene function in early mouse embryonic stem cell differentiation
Cited by: 129
Author(s): Kagnew Hailesellasse Sene, Christopher J. Porter, Gareth Palidwor, Carolina Perez‐Iratxeta, Enrique M. Muro, Pearl A. Campbell, Michael A. Rudnicki, Miguel A. Andrade‐Navarro
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2164-9-54

Glioma cells on the run – the migratory transcriptome of 10 human glioma cell lines
Cited by: 59
Author(s): Tim Demuth, Jessica L. Rennert, Dominique B. Hoelzinger, Linsey B. Reavie, Mitsutoshi Nakada, Christian Beaudry, Satoko Nakada, Eric M. Anderson, Amanda Henrichs, Wendy S. McDonough, David R. Holz, Anna Joy, Richard Lin, Kuang Hung Pan, Chih Jian Lih, Stan N Cohen, Michael E. Berens
Software Mentions: 1
Published: almost 17 years ago

10.1186/s12864-015-1544-y

Mutations upstream of fabI in triclosan resistant Staphylococcus aureus strains are associated with elevated fabI gene expression
Cited by: 17
Author(s): Denis Grandgirard, Leonardo Furi, Maria Laura Ciusa, Lucilla Baldassarri, Daniel R. Knight, Ian Morrissey, Carlo R. Largiadèr, Stephen L. Leib, Marco R. Oggioni
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2164-9-225

Comparative analysis of transcriptional profiling of CD3+, CD4+ and CD8+ T cells identifies novel immune response players in T-Cell activation
Cited by: 84
Author(s): Min Wang, Dirk Windgassen, Eleftherios T. Papoutsakis
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2164-11-85

MicroRNAs show diverse and dynamic expression patterns in multiple tissues of Bombyx mori
Cited by: 59
Author(s): Shiping Liu, Song Gao, Danyu Zhang, Jiyun Yin, Xiang Zhang, Qingyou Xia
Software Mentions: 1
Published: almost 15 years ago

10.1186/s12864-016-3402-y

An integrated analysis of QTL mapping and RNA sequencing provides further insights and promising candidates for pod number variation in rapeseed (Brassica napus L.)
Cited by: 24
Author(s): Ye Jiang, Yuhua Yang, Bin Chen, Jiaqin Shi, Meizhong Luo, Jiasui Zhan, Xinfa Wang, Guihua Liu, Hanzhong Wang
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12864-021-07892-9

InvertypeR: Bayesian inversion genotyping with Strand-seq data
Cited by: 3
Author(s): Vincent C.T. Hanlon, Carl-Adam Mattsson, Diana C.J. Spierings, Victor Guryev, Peter M Lansdorp
Software Mentions: 1
Published: over 3 years ago

10.1186/1471-2164-5-71

Inter-Platform comparability of microarrays in acute lymphoblastic leukemia
Cited by: 31
Author(s): Stephanie A Mitchell, Kevin M. Brown, M. M. Henry, Michelle Mintz, Daniel Catchpoole, Bonnie LaFleur, Dietrich A. Stephan
Software Mentions: 1
Published: about 20 years ago

10.1186/s12864-015-2058-3

Blood transcriptomics of drug-naïve sporadic Parkinson’s disease patients
Cited by: 61
Author(s): Raffaella Calligaris, Mihaela Banica, Paola Roncaglia, Elisa Robotti, Sara Finaurini, Christina Vlachouli, Lucia Antonutti, Francesco Iorio, Annamaria Carissimo, Tatiana Cattaruzza, Andrea Ceiner, Dejan Lazarevic, Alberto Cucca, Nicola Pangher, Emílio Marengo, Diego di Bernardo, Gilberto Pizzolato, Stefano Gustincich
Software Mentions: 1
Published: about 9 years ago

10.1186/1471-2164-14-383

Phenotypic, genomic, and transcriptional characterization of Streptococcus pneumoniae interacting with human pharyngeal cells
Cited by: 19
Author(s): Sheila Z. Kimaro Mlacha, Sandra Romero-Steiner, Julie C. Dunning Hotopp, Nikhil Kumar, Nadeeza Ishmael, David R. Riley, Umar Farooq, Todd Creasy, Luke J. Tallon, Xinyue Liu, Cynthia S. Goldsmith, Jacquelyn S. Sampson, George M. Carlone, Susan K. Hollingshead, J. Anthony G. Scott, Hervé Tettelin
Software Mentions: 1
Published: over 11 years ago

10.1186/s12864-020-07222-5

Highly diversified core promoters in the human genome and their effects on gene expression and disease predisposition
Cited by: 3
Author(s): Hemant Gupta, Khyati Chandratre, Siddharth Sinha, Teng Huang, Xiaobing Wu, Jian Cui, Michael Q. Zhang, San Ming Wang
Software Mentions: 1
Published: almost 4 years ago

10.1186/1471-2164-9-344

Gene expression patterns of sulfur starvation in Synechocystis sp. PCC 6803
Cited by: 69
Author(s): Zhigang Zhang, Ninad D Pendse, Katherine N. Phillips, James B. Cotner, Arkady B. Khodursky
Software Mentions: 1
Published: over 16 years ago

10.1186/s12877-020-01535-6

“Study protocol for the ≥65 years NOrthern jutland Cohort of Fall risk Assessment with Objective measurements (the NOCfao study)”
Cited by: 1
Author(s): Morten Villumsen, Bo Grarup, Steffan Wittrup Christensen, Thorvaldur Skuli Palsson, Rogério Pessoto Hirata
Software Mentions: 1
Published: over 4 years ago

10.1186/1472-6963-6-95

Development and testing of innovative patient resources for the management of coronary heart disease (CHD): a descriptive study
Cited by: 24
Author(s): Julie Redfern, Elizabeth Ellis, Tom Briffa, Ben Freedman
Software Mentions: 1
Published: almost 18 years ago

10.1186/2052-1839-14-7

Combined meta-analysis of systemic effects of allogeneic stem cell transplantation and systemic sclerosis
Cited by: 3
Author(s): Dmitry N. Grigoryev, Jignesh Dalal, Mara L. Becker, Shui Q. Ye
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2172-5-20

Cited by: 55
Author(s): Yulei Shen, Javeed Iqbal, Li Xiao, Ryan C. Lynch, Andreas Rosenwald, Louis M. Staudt, Simon Sherman, Karen Dybkær, Guimei Zhou, James D. Eudy, Jan Delabie, Timothy W. McKeithan, Wing C. Chan
Software Mentions: 1
Published: almost 21 years ago

10.1186/1471-2172-9-5

Intragraft gene expression profile associated with the induction of tolerance
Cited by: 6
Author(s): Tomoko Doki, Michael J. Mello, Dennis Mock, Jacqueline M. Evans, Mary Kearns‐Jonker
Software Mentions: 1
Published: almost 17 years ago

10.1186/s12865-020-00373-w

Reduced polyfunctional T cells and increased cellular activation markers in adult allergy patients reporting adverse reactions to food
Cited by: 3
Author(s): Friederike Sonnet, Ellen Namork, Eva Stylianou, Ingvild Gaare-Olstad, Kanutte Huse, Sandra Andorf, Siri Mjaaland, Hubert Dirven, Unni Cecilie Nygaard
Software Mentions: 1
Published: over 4 years ago

10.1186/1471-2334-13-257

Microarray analysis of MicroRNA expression in peripheral blood mononuclear cells of critically ill patients with influenza A (H1N1)
Cited by: 63
Author(s): Hongjiang Song, Qi Wang, Yang Guo, Shunai Liu, Rui Song, Xuesong Gao, Dai Li, Baoshun Li, Deli Zhang, Jun Cheng
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2334-10-88

Parvovirus B19 infection and severe anaemia in Kenyan children: a retrospective case control study
Cited by: 25
Author(s): James Wildig, Yvonne E. Cossart, Norbert Peshu, Nimmo Gicheru, James Tuju, Thomas N. Williams, Charles R. Newton
Software Mentions: 1
Published: over 14 years ago

10.1186/s12879-017-2899-2

Examining the online approaches used by hospitals in Sydney, Australia to inform patients about healthcare associated infections and infection prevention strategies
Cited by: 8
Author(s): J. Park, Holly Seale
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12916-016-0671-x

Risk factors for hospital re-presentation among older adults following fragility fractures: a systematic review and meta-analysis
Cited by: 16
Author(s): Saira Mathew, Elise Gane, Kristiann C. Heesch, Steven McPhail
Software Mentions: 1
Published: about 8 years ago

10.1186/1741-7015-8-1

IGF-I induced genes in stromal fibroblasts predict the clinical outcome of breast and lung cancer patients
Cited by: 69
Author(s): Michal Rajski, Rosanna Zanetti-Dällenbach, Brigitte Vogel, Richard Herrmann, Christoph Rochlitz, Martin Buess
Software Mentions: 1
Published: almost 15 years ago

10.1186/1741-7015-9-2

Differential endothelial cell gene expression by African Americans versusCaucasian Americans: a possible contribution to health disparity in vascular disease and cancer
Cited by: 34
Author(s): Peng Wei, Liming Milbauer, Judy Enenstein, Julia Nguyen, Wei Pan, Robert P. Hebbel
Software Mentions: 1
Published: almost 14 years ago

10.1186/1741-7015-7-9

A compact VEGF signature associated with distant metastases and poor outcomes
Cited by: 156
Author(s): Zhiyuan Hu, Cheng Fan, Chad Livasy, Xiaping He, Daniel S. Oh, Matthew G. Ewend, Lisa A. Carey, Subbaya Subramanian, Robert B. West, Francis Ikpatt, Olufunmilayo I. Olopade, Matt van de Rijn, Charles M. Perou
Software Mentions: 1
Published: over 15 years ago

10.1186/s12881-018-0580-2

Case report of familial sudden cardiac death caused by a DSG2 p.F531C mutation as genetic background when carrying with heterozygous KCNE5 p.D92E/E93X mutation
Cited by: 8
Author(s): Yenn‐Jiang Lin, Jiana Huang, Siqi He, Ruiling Feng, Zhian Zhong, Yang Liu, Weitao Ye, Xin Li, Hongtao Liao, Hongwen Fei, Fang Rao, Zhi‐Xin Shan, Chunyu Deng, Xianzhang Zhan, Yumei Xue, Hui Liu, Bin Zhang, Kejian Wang, Qianhuan Zhang, Shulin Wu, Xiufang Lin
Software Mentions: 1
Published: over 6 years ago

10.1186/1755-8794-4-78

MicroRNA profiling of diverse endothelial cell types
Cited by: 89
Author(s): Matthew N. McCall, Oliver A. Kent, Jianshi Yu, Karen Fox-Talbot, Ari Zaiman, Marc K. Halushka
Software Mentions: 1
Published: about 13 years ago

10.1186/1755-8794-3-53

Concomitant heterochromatinisation and down-regulation of gene expression unveils epigenetic silencing of RELBin an aggressive subset of chronic lymphocytic leukemia in males
Cited by: 15
Author(s): Jean‐Brice Marteau, O. Rigaud, Thibaut Brugat, Nathalie Gault, Laurent Vallat, Mogens Kruhøffer, Torben F. Ørntoft, Florence Nguyen‐Khac, Sylvie Chevillard, Hélène Merle‐Beral, Jozo Delić
Software Mentions: 1
Published: about 14 years ago

10.1186/1755-8794-3-30

Identification of protein-coding and non-coding RNA expression profiles in CD34+and in stromal cells in refractory anemia with ringed sideroblasts
Cited by: 12
Author(s): Mariana Ozello Baratti, Yuri B Moreira, Fabı́ola Traina, Fernando Ferreira Costa, Sérgio Verjovski-Almeida, Sara T. Olalla-Saad
Software Mentions: 1
Published: over 14 years ago

10.1186/1755-8794-5-15

Fibroblasts from phenotypically normal palmar fascia exhibit molecular profiles highly similar to fibroblasts from active disease in Dupuytren's Contracture
Cited by: 25
Author(s): Latha Satish, William A. LaFramboise, Sharon L. Johnson, Linda Vi, Anna Njarlangattil, Christina Raykha, John M. Krill-Burger, Phillip H. Gallo, David B. O’Gorman, Bing Siang Gan, Mark E. Baratz, Garth D. Ehrlich, Sandeep Kathju
Software Mentions: 1
Published: over 12 years ago

10.1186/1755-8794-6-22

Genome-wide expression profiling and functional characterization of SCA28 lymphoblastoid cell lines reveal impairment in cell growth and activation of apoptotic pathways
Cited by: 12
Author(s): Cecilia Mancini, Paola Roncaglia, Alessandro Brussino, Giovanni Stevanin, Nicola Lo Buono, Helena Krmac, Francesca Maltecca, Elena Gazzano, Anna Bartoletti-Stella, Maria Antonietta Calvaruso, Luisa Iommarini, Claudia Cagnoli, Sylvie Forlani, Isabelle Le Ber, Alexandra Dürr, Alexis Brice, Dario Ghigo, Giorgio Casari, Anna Maria Porcelli, Ada Funaro, Giuseppe Gasparre, Stefano Gustincich, Alfredo Brusco
Software Mentions: 1
Published: over 11 years ago

10.1186/1755-8794-1-37

An integrative genomic approach reveals coordinated expression of intronic miR-335, miR-342, and miR-561 with deregulated host genes in multiple myeloma
Cited by: 112
Author(s): Domenica Ronchetti, Marta Lionetti, Laura Mosca, Luca Agnelli, Adrian Andronache, Sonia Fabris, Giorgio Lambertenghi Deliliers, Antonino Neri
Software Mentions: 1
Published: over 16 years ago

10.1186/1755-8794-2-55

Anti-oncogenic and pro-differentiation effects of clorgyline, a monoamine oxidase A inhibitor, on high grade prostate cancer cells
Cited by: 29
Author(s): Hongjuan Zhao, V. Flamand, Donna M. Peehl
Software Mentions: 1
Published: over 15 years ago

10.1186/1755-8794-3-27

Effect of methylene blue on the genomic response to reperfusion injury induced by cardiac arrest and cardiopulmonary resuscitation in porcine brain
Cited by: 24
Author(s): Cécile Martijn, Lars Wiklund
Software Mentions: 1
Published: over 14 years ago

10.1186/1755-8794-4-74

Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway
Cited by: 32
Author(s): Jean Luc C. Mougeot, Zhen Li, Andrea E. Price, Fred A. Wright, Benjamin Rix Brooks
Software Mentions: 1
Published: about 13 years ago

10.1186/1755-8794-3-24

Examining smoking-induced differential gene expression changes in buccal mucosa
Cited by: 22
Author(s): Doris M. Kupfer, Vicky L. White, Marita C Jenkins, Dennis Burian
Software Mentions: 1
Published: over 14 years ago

10.1186/1755-8794-3-3

Association of adipocyte genes with ASP expression: a microarray analysis of subcutaneous and omental adipose tissue in morbidly obese subjects
Cited by: 55
Author(s): Robin MacLaren, Wei Cui, Huiling Lü, Serge Simard, Katherine Cianflone
Software Mentions: 1
Published: almost 15 years ago

10.1186/1755-8794-6-27

Small nucleolar RNAs as new biomarkers in chronic lymphocytic leukemia
Cited by: 70
Author(s): Domenica Ronchetti, Laura Mosca, Giovanna Cutrona, Giacomo Tuana, Massimo Gentile, Sonia Fabris, Luca Agnelli, Gabriella Ciceri, Serena Matis, Carlotta Massucco, Monica Colombo, Daniele Reverberi, Anna Grazia Recchia, Sabrina Bossio, Massimo Negrini, Pierfrancesco Tassone, Fortunato Morabito, Manlio Ferrarini, Antonino Neri
Software Mentions: 1
Published: about 11 years ago

10.1186/1755-8794-2-51

Hepatic inflammation mediated by hepatitis C virus core protein is ameliorated by blocking complement activation
Cited by: 18
Author(s): Mau‐Song Chang, Chau‐Ting Yeh, Deng‐Yn Lin, Yu‐Pin Ho, Cheng–Lung Hsu, D. Montgomery Bissell
Software Mentions: 1
Published: over 15 years ago

10.1186/1755-8794-4-41

Molecular conservation of estrogen-response associated with cell cycle regulation, hormonal carcinogenesis and cancer in zebrafish and human cancer cell lines
Cited by: 30
Author(s): Siew Hong Lam, Serene G. P. Lee, Chin Yo Lin, Jane S. Thomsen, Pan Fu, K. R. K. Murthy, Haixia Li, Kunde Ramamoorthy Govindarajan, Lin C H Nick, Guillaume Bourque, Zhiyuan Gong, Thomas Lufkin, Edison T. Liu, Sinnakaruppan Mathavan
Software Mentions: 1
Published: over 13 years ago

10.1186/s12920-015-0082-4

Effects of statin on circulating microRNAome and predicted function regulatory network in patients with unstable angina
Cited by: 18
Author(s): Jingjin Li, Hong Chen, Jingyi Ren, Junxian Song, Feng Zhang, Jing Zhang, Chongyou Lee, Sufang Li, Qiang Geng, Yin Cao, Ning Xu
Software Mentions: 1
Published: over 9 years ago

10.1186/1755-8794-3-17

Predicting environmental chemical factors associated with disease-related gene expression data
Cited by: 24
Author(s): Chirag Patel, Atul J. Butte
Software Mentions: 1
Published: over 14 years ago

10.1186/1755-8794-3-58

Comparative gene expression profiling analysis of urothelial carcinoma of the renal pelvis and bladder
Cited by: 51
Author(s): Zhongfa Zhang, Kyle A. Furge, Ximing J. Yang, Bin Tean Teh, Donna E. Hansel
Software Mentions: 1
Published: almost 14 years ago

10.1186/1755-8794-6-S2-S4

Curation-free biomodules mechanisms in prostate cancer predict recurrent disease
Cited by: 8
Author(s): James L. Chen, Alexander O. Hsu, Xinan Yang, Jiànróng Lǐ, Younghee Lee, Gurunadh Parinandi, Haiquan Li, Yves A. Lussier
Software Mentions: 1
Published: over 11 years ago

10.1186/1755-8794-3-2

Gene profiling of the erythro- and megakaryoblastic leukaemias induced by the Graffi murine retrovirus
Cited by: 4
Author(s): Véronique Voisin, Philippe Legault, Diana Paulina Salazar Ospina, Yaacov Ben‐David, Éric Rassart
Software Mentions: 1
Published: almost 15 years ago

10.1186/1755-8794-6-S1-S11

A novel method for finding non-small cell lung cancer diagnosis biomarkers
Cited by: 15
Author(s): Quôc-Nam Trân
Software Mentions: 1
Published: almost 12 years ago

10.1186/1755-8794-1-54

The distinctive gastric fluid proteome in gastric cancer reveals a multi-biomarker diagnostic profile
Cited by: 35
Author(s): Oi Lian Kon, Tai‐Tung Yip, Meng Fatt Ho, Weng Hoong Chan, Wai Keong Wong, Soo-Yong Tan, Wai Har Ng, Siok Yuen Kam, Alvin Kh Eng, Patrick A. Ho, Rosa Viner, Hock Soo Ong, M. Priyanthi Kumarasinghe
Software Mentions: 1
Published: about 16 years ago

10.1186/1755-8794-1-13

The gene expression profiles of primary and metastatic melanoma yields a transition point of tumor progression and metastasis
Cited by: 425
Author(s): Adam I. Riker, Steven A. Enkemann, Øystein Fodstad, Suhu Liu, Shengxiang Ren, Christopher G. Morris, Yaguang Xi, Paul Howell, Brandon J. Metge, Rajeev S. Samant, Lalita A. Shevde, Wenbin Li, Steven Eschrich, Adil Daud, Jingfang Ju, Jaime Matta
Software Mentions: 1
Published: over 16 years ago

10.1186/s12920-016-0195-4

Integrated analysis of omics data using microRNA-target mRNA network and PPI network reveals regulation of Gnai1 function in the spinal cord of Ews/Ewsr1 KO mice
Cited by: 5
Author(s): Chai Jin Lee, Hongryul Ahn, Sean Bong Lee, Jong Yeon Shin, Woong-Yang Park, Jong‐Il Kim, Jung‐Hee Lee, Hoon Ryu, Sun Kim
Software Mentions: 1
Published: over 8 years ago

10.1186/s12920-021-00981-4

The identification of novel gene mutations for degenerative lumbar spinal stenosis using whole-exome sequencing in a Chinese cohort
Cited by: 2
Author(s): Xin Jiang, Chen Dong
Software Mentions: 1
Published: over 3 years ago

10.1186/1755-8794-3-37

The NRF2-mediated oxidative stress response pathway is associated with tumor cell resistance to arsenic trioxide across the NCI-60 panel
Cited by: 42
Author(s): Qian Liu, Hao Zhang, Lisa Smeester, Fei Zou, Matthew J. Kesic, Ilona Jaspers, Jingbo Pi, Rebecca C. Fry
Software Mentions: 1
Published: over 14 years ago

10.1186/s12920-016-0214-5

Reproducible detection of disease-associated markers from gene expression data
Cited by: 2
Author(s): Katsuhiro Omae, Osamu Komori, Shinto Eguchi
Software Mentions: 1
Published: over 8 years ago

10.1186/1755-8794-1-53

A global transcriptional view of apoptosis in human T-cell activation
Cited by: 24
Author(s): Min Wang, Dirk Windgassen, Eleftherios T. Papoutsakis
Software Mentions: 1
Published: about 16 years ago

10.1186/1755-8794-2-36

MLL rearrangements in pediatric acute lymphoblastic and myeloblastic leukemias: MLL specific and lineage specific signatures
Cited by: 40
Author(s): Andrea Zangrando, Marta Campo Dell’Orto, Geertruy te Kronnie, Giuseppe Basso
Software Mentions: 1
Published: over 15 years ago

10.1186/1755-8794-4-77

Gene expression profiles of breast biopsies from healthy women identify a group with claudin-low features
Cited by: 38
Author(s): Vilde Drageset Haakensen, Ole Christian Lingjærde, Torben Lüders, Margit Riis, Aleix Prat, Melissa A. Troester, Marit Muri Holmen, Jan Ole Frantzen, Linda Romundstad, Dina Navjord, Ida K. Bukholm, Tom B⊘rge Johannesen, Charles M. Perou, Giske Ursin, Vessela N. Kristensen, Anne‐Lise Børresen‐Dale, Åslaug Helland
Software Mentions: 1
Published: about 13 years ago

10.1186/1755-8794-2-59

Gene expression meta-analysis supports existence of molecular apocrine breast cancer with a role for androgen receptor and implies interactions with ErbB family
Cited by: 53
Author(s): Sandeep Sanga, Bradley M. Broom, Vittorio Cristini, Mary E. Edgerton
Software Mentions: 1
Published: about 15 years ago

10.1186/1755-8794-4-22

Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health
Cited by: 247
Author(s): Wim Crielaard, Egija Zaura, Annemarie Schuller, Susan M. Huse, R.C. Montijn, Bart J. F. Keijser
Software Mentions: 1
Published: over 13 years ago

10.1186/s12911-019-0912-y

The "Begin Exploring Fertility Options, Risks and Expectations" (BEFORE) decision aid: development and alpha testing of a fertility tool for premenopausal breast cancer patients
Cited by: 18
Author(s): Brittany Speller, Kelly Metcalfe, Erin Kennedy, Marcia Facey, Ellen Greenblatt, Adena Scheer, Ellen Warner, Anil A. Joy, Frances C. Wright, Nancy N. Baxter
Software Mentions: 1
Published: about 5 years ago

10.1186/s12911-017-0416-6

The effect of a test ordering software intervention on the prescription of unnecessary laboratory tests - a randomized controlled trial
Cited by: 19
Author(s): Carlos Martins, Andréia Teixeira, Luís Filipe Azevedo, Luísa Maria Barbosa Sá, Paulo Alexandre Azevedo Pereira Santos, Nazaré Couto, Altamiro Costa‐Pereira, Alberto Augusto Oliveira Pinto Hespanhol, Cristina Santos
Software Mentions: 1
Published: almost 8 years ago

10.1186/1472-6947-12-136

A multiscale and multiparametric approach for modeling the progression of oral cancer
Cited by: 32
Author(s): Konstantinos Exarchos, Yorgos Goletsis, Dimitrios I. Fotiadis
Software Mentions: 1
Published: about 12 years ago

10.1186/s12911-018-0685-8

A longitudinal feature selection method identifies relevant genes to distinguish complicated injury and uncomplicated injury over time
Cited by: 5
Author(s): Suyan Tian, Chi Wang, Howard H. Chang
Software Mentions: 1
Published: almost 6 years ago

10.1186/1472-6947-10-34

Electronic patient self-assessment and management (SAM): a novel framework for cancer survivorship
Cited by: 32
Author(s): Andrew J. Vickers, Talya Salz, Ethan Basch, Matthew R. Cooperberg, Peter R. Carroll, Foss Tighe, James A. Eastham, Raymond C. Rosen
Software Mentions: 1
Published: over 14 years ago

10.1186/s12874-017-0357-x

Changes in affect after completing a mailed survey about trauma: two pre- and post-test studies in former disability applicants for posttraumatic stress disorder
Cited by: 3
Author(s): Maureen Murdoch, Shannon M. Kehle‐Forbes, Melissa R. Partin
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2180-10-100

Virulence-related Mycobacterium avium subsp hominissuis MAV_2928 gene is associated with vacuole remodeling in macrophages
Cited by: 30
Author(s): Samradhni S Jha, Lia Danelishvili, Dirk Wagner, J. Mäser, Yongjun Li, Ivana Morić, Stefan Vogt, Yoshitaka Yamazaki, Barry Lai, Luiz E. Bermudez
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2180-9-81

Brucella melitensis global gene expression study provides novel information on growth phase-specific gene regulation with potential insights for understanding Brucella:host initial interactions
Cited by: 36
Author(s): C Rossetti, Cristi L. Galindo, Sara D. Lawhon, Harold R. Garner, L. Garry Adams
Software Mentions: 1
Published: over 15 years ago

10.1186/1471-2180-6-23

Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology
Cited by: 953
Author(s): Karine Brudey, Jeffrey Driscoll, Leen Rigouts, Wolfgang M. Prodinger, Andrea Gori, Sahal Al‐Hajoj, Caroline Allix, Liselotte Aristimuño, Jyoti Arora, Viesturs Baumanis, Lothar Binder, Patrícia Izquierdo Cafrune, Angel Cataldi, Soonfatt Cheong, Roland Diel, C Ellermeier, Jonathan D. Evans, Maryse Fauville-Dufaux, Séverine Ferdinand, Darı́o Garcı́a de Viedma, Carlo Garzelli, Lidia Gazzola, Harrison Magdinier Gomes, M Cristina Guttierez, Peter M. Hawkey, Paul D. van Helden, Gurujaj V Kadival, Barry N. Kreiswirth, Kristin Kremer, M Kubín, Supriya Kulkarni, Benjamin Liens, Troels Lillebæk, Ho Minh Ly, Carlos Martı́n, Christian Martin, Igor Mokrousov, О. В. Нарвская, Yun Fong Ngeow, Ludmila Naumann, Stefan Niemann, Ida Parwati, Zeaur Rahim, Voahangy Rasolofo-Razanamparany, T Rasolonavalona, Maria Lúcia Rosa Rossetti, Sabine Rüsch-Gerdes, Anna Sajduda, Sofía Samper, I. G. Shemyakin, Urvashi Singh, Ákos Somoskövi, Robin Skuce, Dick van Soolingen, Elizabeth M. Streicher, Philip Noël Suffys, Enrico Tortoli, Tatjana Tračevska, Véronique Vincent, Tommie C. Victor, Robin M. Warren, Sook Fan Yap, K. Zaman, Françoise Portaels, Nalin Rastogi, Christophe Sola
Software Mentions: 1
Published: over 18 years ago

10.1186/1471-2180-10-224

Class IIa bacteriocin resistance in Enterococcus faecalis V583: The mannose PTS operon mediates global transcriptional responses
Cited by: 59
Author(s): Mona Opsata, Ingolf F. Nes, Helge Holo
Software Mentions: 1
Published: almost 15 years ago

10.1186/1471-2180-8-60

Limited functional conservation of a global regulator among related bacterial genera: Lrp in Escherichia, Proteus and Vibrio
Cited by: 36
Author(s): Robert E. Lintner, Pankaj Kumar Mishra, Poonam Srivastava, Betsy M. Martinez-Vaz, Arkady B. Khodursky, Robert Blumenthal
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2180-13-65

Production of capsular polysaccharide does not influence Staphylococcus aureusvancomycin susceptibility
Cited by: 19
Author(s): Andrea Jansen, Christiane Szekat, Wiebke Schröder, Christiane Wolz, Christiane Goerke, Jean C. Lee, Michael Türck, Gabriele Bierbaum
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2180-12-47

Effects of probiotics and antibiotics on the intestinal homeostasis in a computer controlled model of the large intestine
Cited by: 58
Author(s): Ateequr Rehman, Femke-Anouska Heinsen, M. Koenen, Koen Venema, Henrik Knecht, Stephan Hellmig, Stefan Schreiber, Stephan Ott
Software Mentions: 1
Published: over 12 years ago

Projects: cran: SAM

Papers Mentioning SAM 4,566