Ecosyste.ms: Papers

10.1186/1471-2105-6-187

Rank-invariant resampling based estimation of false discovery rate for analysis of small sample microarray data
Cited by: 15
Author(s): Nitin Jain, HyungJun Cho, Michael J. OʼConnell, Duncan Lee
Software Mentions: 1
Published: over 19 years ago

10.1186/1471-2105-11-431

Hidden Markov model speed heuristic and iterative HMM search procedure
Cited by: 871
Author(s): L. Steven Johnson, Sean R. Eddy, Elon Portugaly
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2105-8-435

Improving model construction of profile HMMs for remote homology detection through structural alignment
Cited by: 22
Author(s): Juliana Silva Bernardes, Alberto M. R. Dávila, Vítor Santos Costa, Gerson Zaverucha
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2105-7-305

Taking U out, with two nucleases?
Cited by: 5
Author(s): I. Saira Mian, Elizabeth A. Worthey, Reza Salavati
Software Mentions: 1
Published: over 18 years ago

10.1186/s12859-015-0628-7

Light-weight reference-based compression of FASTQ data
Cited by: 33
Author(s): Yongpeng Zhang, Linsen Li, Yanli Yang, Xiao Yang, Shan He, Zexuan Zhu
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2105-8-S1-S5

Cross platform microarray analysis for robust identification of differentially expressed genes
Cited by: 60
Author(s): Roberta Bosotti, Giuseppe Locatelli, Sandra Healy, Emanuela Scacheri, Luca Sartori, Ciro Mercurio, Raffaele Calogero, Antonella Isacchi
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2105-8-256

HoughFeature, a novel method for assessing drug effects in three-color cDNA microarray experiments
Cited by: 14
Author(s): Hongya Zhao, Hong Yan
Software Mentions: 1
Published: over 17 years ago

10.1186/s12859-014-0348-4

SummonChimera infers integrated viral genomes with nucleotide precision from NGS data
Cited by: 16
Author(s): Joshua P. Katz, James M. Pipas
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2105-15-252

Enhancing HMM-based protein profile-profile alignment with structural features and evolutionary coupling information
Cited by: 9
Author(s): Xin Deng, Jianlin Cheng
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2105-8-347

A unified framework for finding differentially expressed genes from microarray experiments
Cited by: 17
Author(s): Jahangheer Shaik, Mohammed Yeasin
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2105-10-55

Assessing and selecting gene expression signals based upon the quality of the measured dynamics
Cited by: 0
Author(s): Eric Yang, Ioannis P. Androulakis
Software Mentions: 1
Published: about 16 years ago

10.1186/1471-2105-14-325

Identification of single nucleotide polymorphisms from the transcriptome of an organism with a whole genome duplication
Cited by: 14
Author(s): Kris A. Christensen, Joseph P. Brunelli, Matthew J Lambert, Jenefer DeKoning, Ruth B. Phillips, Gary H. Thorgaard
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2105-8-371

Extended analysis of benchmark datasets for Agilent two-color microarrays
Cited by: 17
Author(s): Kathleen F. Kerr
Software Mentions: 1
Published: over 17 years ago

10.1186/s12915-015-0189-2

Using mathematical models to understand metabolism, genes, and disease
Cited by: 28
Author(s): H. Frederik Nijhout, Janet Best, Michael C. Reed
Software Mentions: 1
Published: over 9 years ago

10.1186/2046-1682-5-4

APM_GUI: analyzing particle movement on the cell membrane and determining confinement
Cited by: 12
Author(s): Silvia Adriana Menchón, María Julia Martín, Carlos G. Dotti
Software Mentions: 1
Published: about 13 years ago

10.1186/1472-6750-7-57

Characterization of the effect of sample quality on high density oligonucleotide microarray data using progressively degraded rat liver RNA
Cited by: 79
Author(s): Karol L. Thompson, P. Scott Pine, Barry A. Rosenzweig, Yaron Turpaz, Jacques D. Retief
Software Mentions: 1
Published: about 18 years ago

10.1186/1472-6750-8-83

Induction of multiple pleiotropic drug resistance genes in yeast engineered to produce an increased level of anti-malarial drug precursor, artemisinic acid
Cited by: 177
Author(s): Dae‐Kyun Ro, Mario Ouellet, Eric M. Paradise, Helcio Burd, Diana G. Eng, Christopher J. Paddon, John D. Newman, Jay D. Keasling
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2407-8-19

Suppression subtractive hybridization profiles of radial growth phase and metastatic melanoma cell lines reveal novel potential targets
Cited by: 25
Author(s): Josane F. Sousa, Enilza Maria Espreáfico
Software Mentions: 1
Published: about 17 years ago

10.1186/1471-2407-7-64

Gene expression profiles of prostate cancer reveal involvement of multiple molecular pathways in the metastatic process
Cited by: 440
Author(s): Uma Chandran, Changqing Ma, Rajiv Dhir, Michelle Bisceglia, Maureen A. Lyons‐Weiler, Wenjing Liang, George K. Michalopoulos, Michael J. Becich, Federico A. Monzon
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2407-11-80

Identification and validation of genes involved in cervical tumourigenesis
Cited by: 150
Author(s): Thangarajan Rajkumar, K.S. Sabitha, Neelakantan Vijayalakshmi, Shirley Sundersingh, Mayil Vahanan Bose, Gopal Gopisetty, Selvaluxmy Ganesarajah
Software Mentions: 1
Published: almost 14 years ago

10.1186/1471-2407-6-224

Identification of genes associated with cisplatin resistance in human oral squamous cell carcinoma cell line
Cited by: 72
Author(s): Ping Zhang, Zhiyuan Zhang, Xin Zhou, Weimin Qiu, Fang-An Chen, Wantao Chen
Software Mentions: 1
Published: over 18 years ago

10.1186/s12885-015-1117-0

A functional in vitro model of heterotypic interactions reveals a role for interferon-positive carcinoma associated fibroblasts in breast cancer
Cited by: 13
Author(s): Abdel Hosein, Julie Livingstone, Marguerite Buchanan, James F. Reid, Michael Hallett, Mark Basik
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2407-9-206

Identification of proteins involved in neural progenitor cell targeting of gliomas
Cited by: 26
Author(s): Karin Staflin, Thole Züchner, Gabriella Honeth, Anna Darabi, Cecilia Lundberg
Software Mentions: 1
Published: over 15 years ago

10.1186/1471-2407-12-21

Gene expression in tumor cells and stroma in dsRed 4T1 tumors in eGFP-expressing mice with and without enhanced oxygenation
Cited by: 15
Author(s): Ingrid Moen, Charlotte Jevne, Jian Wang, Karl H. Kalland, Martha Chekenya, Lars A. Akslen, Linda Sleire, Per Øyvind Enger, Rolf K. Reed, Anne Margrete Øyan, Linda Elin Birkhaug Stuhr
Software Mentions: 1
Published: about 13 years ago

10.1186/1471-2407-6-276

Gene expression patterns associated with p53 status in breast cancer
Cited by: 141
Author(s): Melissa A. Troester, Jason I. Herschkowitz, Daniel S. Oh, Xiaping He, Katherine A. Hoadley, Claire Barbier, Charles M. Perou
Software Mentions: 1
Published: about 18 years ago

10.1186/1471-2407-5-45

Differences in gene expression in prostate cancer, normal appearing prostate tissue adjacent to cancer and prostate tissue from cancer free organ donors
Cited by: 132
Author(s): Uma Chandran, Rajiv Dhir, Changqing Ma, George K. Michalopoulos, Michael J. Becich, John D. Gilbertson
Software Mentions: 1
Published: almost 20 years ago

10.1186/1471-2407-14-120

A functional proteogenomic analysis of endometrioid and clear cell carcinomas using reverse phase protein array and mutation analysis: protein expression is histotype-specific and loss of ARID1A/BAF250a is associated with AKT phosphorylation
Cited by: 69
Author(s): Kimberly C. Wiegand, Bryan T. Hennessy, Samuel Leung, Yemin Wang, Ju Zhang, Mollianne J. McGahren, Steve E. Kalloger, Sarah Finlayson, Katherine Stemke-Hale, Yiling Lu, Fan Zhang, Michael S. Anglesio, Blake Gilks, Gordon B. Mills, David G. Huntsman, Mark Carey
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12885-016-2601-x

Circulating proteins in response to combined-modality therapy in rectal cancer identified by antibody array screening
Cited by: 5
Author(s): Erta Kalanxhi, Helga Helseth Hektoen, Sebastian Meltzer, Svein Dueland, Kjersti Flatmark, Anne Hansen Ree
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2407-14-542

Identification of prognostic inflammatory factors in colorectal liver metastases
Cited by: 34
Author(s): Trevor D. Hamilton, Derek Leugner, Karen Kopciuk, Elijah Dixon, Francis Sutherland, Oliver F. Bathe
Software Mentions: 1
Published: over 10 years ago

10.1186/s12885-017-3421-3

miRNome landscape analysis reveals a 30 miRNA core in retinoblastoma
Cited by: 31
Author(s): Blanca Elena Castro-Magdonel, Manuela Orjuela, Javier Camacho, Adda Jeanette García-Chéquer, Lourdes Cabrera-Muñóz, Stanislaw Sadowinski-Pine, Noé Durán-Figueroa, María de Jesús Orozco-Romero, Ana Claudia Velázquez-Wong, Adriana Hernández-Ángeles, Claudia Hernández-Galván, Citlali Lara-Molina, M. Verónica Ponce-Castañeda
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2407-8-162

A limited role for p53 in modulating the immediate phenotype of Apc loss in the intestine
Cited by: 25
Author(s): Karen Ruth Reed, Valérie S. Méniel, Victoria Marsh, Alicia M. Cole, Owen J. Sansom, Alan R. Clarke
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2407-9-425

Inverse correlation between PDGFC expression and lymphocyte infiltration in human papillary thyroid carcinomas
Cited by: 18
Author(s): Ove Bruland, Øystein Fluge, Lars A. Akslen, Hans Geir Eiken, Johan R. Lillehaug, Jan Erik Varhaug, Per M. Knappskog
Software Mentions: 1
Published: about 15 years ago

10.1186/1471-2407-9-365

A 7 gene expression score predicts for radiation response in cancer cervix
Cited by: 26
Author(s): Thangarajan Rajkumar, Neelakantan Vijayalakshmi, K.S. Sabitha, Shirley Sundersingh, Selvaluxmy Ganesarajah, Mayil Vahanan Bose, Lavanya Nambaru
Software Mentions: 1
Published: over 15 years ago

10.1186/s12885-016-2771-6

Development of prognostic signatures for intermediate-risk papillary thyroid cancer
Cited by: 18
Author(s): Kevin Brennan, Christopher Holsinger, Chrysoula Dosiou, John B. Sunwoo, Haruko Akatsu, Robert W. Haile, Olivier Gevaert
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2407-12-310

Integrative genome-wide expression profiling identifies three distinct molecular subgroups of renal cell carcinoma with different patient outcome
Cited by: 29
Author(s): Manfred Beleut, Philip Zimmermann, Michael Baudis, Nicole Bruni, Peter Bühlmann, Oliver Laule, Van-Duc Luu, Wilhelm Gruissem, Peter Schraml, Holger Moch
Software Mentions: 1
Published: over 12 years ago

10.1186/s12885-016-2851-7

KLHL21, a novel gene that contributes to the progression of hepatocellular carcinoma
Cited by: 31
Author(s): Lei Shi, Wenfa Zhang, Zhang‐Qi Feng, Lihua Mei, Gang Wu, Yong Teng
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2407-13-544

Study protocol: rehabilitation including social and physical activity and education in children and teenagers with cancer (RESPECT)
Cited by: 27
Author(s): Troels Thorsteinsson, Anne Sofie Helms, Lis Adamsen, Lars Bo Andersen, Karen Andersen, Karl Bang Christensen, Henrik Hasle, Carsten Heilmann, N Hejgaard, Christoffer Johansen, Mette Madsen, Svend Aage Madsen, Venka Simovska, Birgit Strange, Lone Friis Thing, Peder Skov Wehner, Kjeld Schmiegelow, Hanne Bækgaard Larsen
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2407-7-55

Novel markers for differentiation of lobular and ductal invasive breast carcinomas by laser microdissection and microarray analysis
Cited by: 342
Author(s): Gulisa Turashvili, Jan Bouchal, Karl R. N. Baumforth, Wenbin Wei, Marta Dziechciarková, Jiří Ehrmann, Jiří Klein, Eduard Fridman, Jozef Škarda, Josef Srovnal, Marián Hajdúch, Paul G. Murray, Zdeněk Kolář
Software Mentions: 1
Published: almost 18 years ago

10.1186/s12885-015-1655-5

Essential role of miR-200c in regulating self-renewal of breast cancer stem cells and their counterparts of mammary epithelium
Cited by: 30
Author(s): Zhong-Ming Feng, Jun Qiu, Xiewan Chen, Rongxia Liao, Xian Liao, Luping Zhang, Chen Xu, Yan Li, Zhengtang Chen, Jianping Sun
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2407-10-493

Gross genomic alterations and gene expression profiles of high- grade serous carcinoma of the ovary with and without BRCA1 inactivation
Cited by: 8
Author(s): Manohar Pradhan, Björn Risberg, Claes G. Tropé, Matt van de Rijn, C. Blake Gilks, Cheng‐Han Lee
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2407-14-648

Erythropoietin suppresses the activation of pro-apoptotic genes in head and neck squamous cell carcinoma xenografts exposed to surgical trauma
Cited by: 4
Author(s): Georg Lindgren, Lars Ekblad, Johan Vallon‐Christersson, Elisabeth Kjellén, Maria Gebre‐Medhin, Johan Wennerberg
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2407-6-221

Identification of genes regulated by Wnt/β-catenin pathway and involved in apoptosis via microarray analysis
Cited by: 50
Author(s): Moli Huang, Yihua Wang, Duxin Sun, Hongxia Zhu, Yanbin Yin, Wei Zhang, Shangbin Yang, Lanping Quan, Jinfeng Bai, Shengqi Wang, Quan Chen, Songgang Li, Ningzhi Xu
Software Mentions: 1
Published: over 18 years ago

10.1186/1471-2407-7-84

Global gene expression analysis of the mouse colonic mucosa treated with azoxymethane and dextran sodium sulfate
Cited by: 63
Author(s): Rikako Suzuki, Shingo Miyamoto, Yumiko Yasui, Shigeyuki Sugie, Takuji Tanaka
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2407-8-189

TDAG51 is an ERK signaling target that opposes ERK-mediated HME16C mammary epithelial cell transformation
Cited by: 43
Author(s): Michael Oberst, Stacey J Beberman, Lei Zhao, Juan Juan Yin, Yvona Ward, Kathleen Kelly
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2407-6-105

SSeCKS/Gravin/AKAP12 attenuates expression of proliferative and angiogenic genes during suppression of v-Src-induced oncogenesis
Cited by: 24
Author(s): Yongzhong Liu, Lingqiu Gao, Irwin H. Gelman
Software Mentions: 1
Published: almost 19 years ago

10.1186/s12885-017-3620-y

Disease-stabilizing treatment based on all-trans retinoic acid and valproic acid in acute myeloid leukemia – identification of responders by gene expression profiling of pretreatment leukemic cells
Cited by: 18
Author(s): Håkon Reikvam, Randi Hovland, Rakel Brendsdal Forthun, Sigrid Erdal, Bjørn Tore Gjertsen, Hanne Fredly, Øystein Bruserud
Software Mentions: 1
Published: over 7 years ago

10.1186/s12885-015-1067-6

Identification of a novel microRNA signature associated with intrahepatic cholangiocarcinoma (ICC) patient prognosis
Cited by: 31
Author(s): Mei Yin Zhang, Shu Hong Li, Guo Liang Huang, Lin Guo, Ze Yu Shuang, Xiang-Ming Lao, Li Xu, Xiao Jun Lin, Hui Yun Wang, Sheng Ping Li
Software Mentions: 1
Published: about 10 years ago

10.1186/s12885-018-4993-2

MiR-10a and HOXB4 are overexpressed in atypical myeloproliferative neoplasms
Cited by: 9
Author(s): Pierre‐Yves Dumas, Olivier Mansier, Valérie Prouzet‐Mauléon, Junji Koya, Arnaud Villacreces, Philippe Brunet de la Grange, Damien Luque Paz, Audrey Bidet, Jean‐Max Pasquet, Vincent Perreten, Franck Salin, Mineo Kurokawa, François‐Xavier Mahon, Bruno Cardinaud, Éric Lippert
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2407-12-358

Identification of a novel set of genes reflecting different in vivo invasive patterns of human GBM cells
Cited by: 12
Author(s): Massimiliano Monticone, Antonio Daga, Simona Candiani, Francesco Romeo, Valentina Mirisola, Silvia Viaggi, Ilaria Melloni, Simona Pedemonte, Gianluigi Zona, Walter Giaretti, Ulrich Pfeffer, Patrizio Castagnola
Software Mentions: 1
Published: over 12 years ago

10.1186/s12885-015-1907-4

Iroquois homeobox 2 suppresses cellular motility and chemokine expression in breast cancer cells
Cited by: 16
Author(s): Stefan Werner, Hauke Stamm, Mutiha Pandjaitan, Dirk Kemming, Benedikt Brors, Klaus Pantel, Harriet Wikman
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2407-13-119

Transcriptional effects of 1,25 dihydroxyvitamin D3physiological and supra-physiological concentrations in breast cancer organotypic culture
Cited by: 34
Author(s): Cíntia Mussi Milani, Maria Lúcia Hirata Katayama, Eduardo Carneiro de Lyra, Jo Ellen Welsh, Laura Tojeiro Campos, Maria Mitzi Brentani, Maria do Socorro Maciel, Rosimeire Aparecida Roela, Paulo Roberto Del Valle, João Carlos Guedes Sampaio Góes, Suely Nonogaki, Rodrigo Esaki Tamura, Maria Aparecida Azevedo Koike Folgueira
Software Mentions: 1
Published: almost 12 years ago

10.1186/1471-2407-5-66

Differential gene expression profile reveals deregulation of pregnancy specific β1 glycoprotein 9 early during colorectal carcinogenesis
Cited by: 37
Author(s): Sima Salahshor, Jason Gonçalves, Runjan Chetty, Steven Gallinger, James R. Woodgett
Software Mentions: 1
Published: over 19 years ago

10.1186/1471-2407-13-371

BAP1 deficiency causes loss of melanocytic cell identity in uveal melanoma
Cited by: 123
Author(s): Katie A. Matatall, Olga A. Agapova, Michael D. Onken, Lori A. Worley, Anne M. Bowcock, J. William Harbour
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2407-6-99

Transcription profiles of non-immortalized breast cancer cell lines
Cited by: 11
Author(s): Mariana Fernandez-Cobo, James F. Holland, Beatríz G. T. Pogo
Software Mentions: 1
Published: almost 19 years ago

10.1186/s12885-021-08260-2

Sex disparities in vitamin D status and the impact on systemic inflammation and survival in rectal cancer
Cited by: 0
Author(s): Hanna Abrahamsson, Sebastian Meltzer, Vidar Nyløkken Hagen, Christin Johansen, Paula A. Bousquet, Kathrine Røe Redalen, Anne Hansen Ree
Software Mentions: 1
Published: almost 4 years ago

10.1186/1471-2407-5-29

Mutations of PIK3CAin gastric adenocarcinoma
Cited by: 160
Author(s): Vivian Li, Chi Wai Wong, Tsun Leung Chan, A. Chan, Wei Zhao, Kent‐Man Chu, Samuel So, Xin Chen, Siu Tsan Yuen, Suet Yi Leung
Software Mentions: 1
Published: almost 20 years ago

10.1186/1471-2407-8-314

Integrating chromosomal aberrations and gene expression profiles to dissect rectal tumorigenesis
Cited by: 37
Author(s): Esther H. Lips, Ronald van Eijk, Eelco J. R. de Graaf, Jan Oosting, Noel F.C.C. de Miranda, Tom Karsten, Cornelis Jh van de Velde, Paul H.C. Eilers, Rob A.E.M. Tollenaar, Tom van Wezel, Hans Morreau
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2261-10-11

Altered expression of microRNAs in the myocardium of rats with acute myocardial infarction
Cited by: 54
Author(s): Bing Shi, Yanhong Guo, Juan Wang, Wei Gao
Software Mentions: 1
Published: almost 15 years ago

10.1186/1472-6890-9-9

CD 9 and vimentin distinguish clear cell from chromophobe renal cell carcinoma
Cited by: 28
Author(s): Ariel A. Williams, Julian P T Higgins, Hongjuan Zhao, Börje Ljungberg, James D. Brooks
Software Mentions: 1
Published: over 15 years ago

10.1186/1472-6882-13-206

Qingfei Xiaoyan Wan alleviates asthma through multi-target network regulation
Cited by: 15
Author(s): Zhen Zhao, Yingbo Miao, Pengwei Pan, Bin-Feng Cheng, Gang Bai, Hong Wu
Software Mentions: 1
Published: over 11 years ago

10.1186/s12906-015-0672-x

Uygur Medicine Xipayi Kui Jie’an Affects Gene Expression profiles in intestinal tissue Lesions in a Rat Model of Ulcerative Colitis
Cited by: 6
Author(s): Kurexi Yunusi, Jingping Zhang, Li Zhong, Gulinisha Mosha, Ajiguli Nuermaimaiti, Mairipaiti Abudula, Halmurat Upur
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12906-018-2343-1

The effects of yoga and quiet rest on subjective levels of anxiety and physiological correlates: a 2-way crossover randomized trial
Cited by: 12
Author(s): Kembra Albracht‐Schulte, Jacalyn J. Robert-McComb
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-213X-8-21

Expression profiling of circulating non-red blood cells in embryonic blood
Cited by: 18
Author(s): Brendan A.S. McIntyre, Cantas Alev, Hiroshi Tarui, Lars Martin Jakt, Guojun Sheng
Software Mentions: 1
Published: almost 17 years ago

10.1186/1471-213X-9-5

Gene expression profiles during early differentiation of mouse embryonic stem cells
Cited by: 46
Author(s): Fiona C. Mansergh, Carl S. Daly, Anna L Hurley, Michael A. Wride, Susan Hunter, Martin Evans
Software Mentions: 1
Published: about 16 years ago

10.1186/1471-213X-7-90

Alterations in transcript abundance of bovine oocytes recovered at growth and dominance phases of the first follicular wave
Cited by: 51
Author(s): Nasser Ghanem, Michael Hölker, F. Rings, Danyel Jennen, Ernst Tholen, Marc‐André Sirard, H. Torner, W. Kanitz, K. Schellander, Dawit Tesfaye
Software Mentions: 1
Published: over 17 years ago

10.1186/s12901-016-0029-1

Tinnitus- related distress: evidence from fMRI of an emotional stroop task
Cited by: 22
Author(s): Dennis Golm, Carsten Schmidt‐Samoa, Peter Dechent, Birgit Kröner‐Herwig
Software Mentions: 1
Published: about 9 years ago

10.1186/1472-6785-11-5

Wildlife translocation: the conservation implications of pathogen exposure and genetic heterozygosity
Cited by: 22
Author(s): Walter M. Boyce, Mara E. Weisenberger, M. C. T. Penedo, Christine K. Johnson
Software Mentions: 1
Published: about 14 years ago

10.1186/s12862-021-01801-0

Molecular evolutionary analysis of human primary microcephaly genes
Cited by: 4
Author(s): Nashaiman Pervaiz, Hongen Kang, Yīmíng Bào, Amir Ali Abbasi
Software Mentions: 1
Published: almost 4 years ago

10.1186/1472-6823-11-7

Gene-chip studies of adipogenesis-regulated microRNAs in mouse primary adipocytes and human obesity
Cited by: 110
Author(s): Pernille Keller, Valentina Gburcik, Nataša Petrović, Iain J. Gallagher, Jan Nedergaard, Barbara Cannon, James A. Timmons
Software Mentions: 1
Published: almost 14 years ago

10.1186/1471-2148-7-S1-S12

FlowerPower: clustering proteins into domain architecture classes for phylogenomic inference of protein function
Cited by: 48
Author(s): Nandini Krishnamurthy, D. Brown, Kimmen Sjölander
Software Mentions: 1
Published: about 18 years ago

10.1186/s12862-015-0280-x

Looking for adaptive footprints in the HSP90AA1 ovine gene
Cited by: 9
Author(s): Judit Salces-Ortiz, Claudette Hajaj Gonzalez, Marta Rodriguez Martinez, T. Mayoral, J.H. Calvo, M. Serrano
Software Mentions: 1
Published: about 10 years ago

10.1186/s12862-015-0439-5

Molecular and phenotypic distinction of the very recently evolved insular subspecies Mus musculus helgolandicus ZIMMERMANN, 1953
Cited by: 20
Author(s): Hiba Babiker, Diethard Tautz
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2148-11-113

Altered gene expression and ecological divergence in sibling allopolyploids of Dactylorhiza (Orchidaceae)
Cited by: 60
Author(s): Ovidiu Paun, Richard M. Bateman, Michael F. Fay, Javier A. Luna, Justin Moat, Mikael Hedrén, Mark W. Chase
Software Mentions: 1
Published: almost 14 years ago

10.1186/1471-2148-9-276

Genomic signatures of local directional selection in a high gene flow marine organism; the Atlantic cod (Gadus morhua)
Cited by: 205
Author(s): Einar Eg Nielsen, Jakob Hemmer‐Hansen, Nina Aagaard Poulsen, Volker Loeschcke, Thomas Moen, Torild Johansen, Christian Mittelholzer, Geir-Lasse Taranger, Rob Ogden, Gary R. Carvalho
Software Mentions: 1
Published: about 16 years ago

10.1186/1471-2148-8-313

Protein evolution in deep sea bacteria: an analysis of amino acids substitution rates
Cited by: 33
Author(s): Stefano Campanaro, Laura Treu, Giorgio Valle
Software Mentions: 1
Published: about 17 years ago

10.1186/1471-2148-13-160

Localized versus generalist phenotypes in a broadly distributed tropical mammal: how is intraspecific variation distributed across disparate environments?
Cited by: 11
Author(s): Diego F. Alvarado‐Serrano, Lucía Luna, L. Lacey Knowles
Software Mentions: 1
Published: about 12 years ago

10.1186/s12862-015-0448-4

Past climate change on Sky Islands drives novelty in a core developmental gene network and its phenotype
Cited by: 34
Author(s): Marie-Julie Favé, Robert A. Johnson, Stefan P. Cover, Stephan Handschuh, Brian Metscher, Gerd B. Müller, Shyamalika Gopalan, Ehab Abouheif
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2148-8-190

Evolution of SET-domain protein families in the unicellular and multicellular Ascomycota fungi
Cited by: 39
Author(s): Chendhore S. Veerappan, Zoya Avramova, Etsuko N. Moriyama
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2148-14-147

Adaptive evolution and divergent expression of heat stress transcription factors in grasses
Cited by: 26
Author(s): Zefeng Yang, Yifan Wang, Yun Gao, Yong Zhou, Enying Zhang, Yunyun Hu, Yuan Yuan, Chenwu Xu
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-230X-7-24

Gene expression changes associated with Barrett's esophagus and Barrett's-associated adenocarcinoma cell lines after acid or bile salt exposure
Cited by: 14
Author(s): Hao Ying, Sumita Sood, George Triadafilopoulos, Jong Hyeok Kim, Zheng Wang, Peyman Sahbaie, M. Bishr Omary, Anson W. Lowe
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2156-6-S1-S5

Comparison of single-nucleotide polymorphisms and microsatellites in detecting quantitative trait loci for alcoholism: The Collaborative Study on the Genetics of Alcoholism
Cited by: 4
Author(s): Helen Kim, Carolyn M. Hutter, Stephanie A. Monks, Karen L. Edwards
Software Mentions: 1
Published: about 19 years ago

10.1186/1471-2156-10-7

Landscape genomics and biased FST approaches reveal single nucleotide polymorphisms under selection in goat breeds of North-East Mediterranean
Cited by: 51
Author(s): Lorraine Pariset, Stéphane Joost, Paolo Ajmone‐Marsan, Alessio Valentini
Software Mentions: 1
Published: about 16 years ago

10.1186/s12863-017-0546-y

LAIT: a local ancestry inference toolkit
Cited by: 5
Author(s): Daniel Hui, Zhou Fang, Jerome Lin, Qing Duan, Yun Li, Ming Hu, Wei Chen
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-6-81

Genome-wide localization of mobile elements: experimental, statistical and biological considerations
Cited by: 4
Author(s): Betsy Martinez‐Vaz, Yang Xie, Wei Pan, Arkady B. Khodursky
Software Mentions: 1
Published: over 19 years ago

10.1186/1471-2164-9-506

Changes induced by dietary energy intake and divergent selection for muscle fat content in rainbow trout (Oncorhynchus mykiss), assessed by transcriptome and proteome analysis of the liver
Cited by: 56
Author(s): Catherine Ines Kolditz, Gilles Pabœuf, Maïena Borthaire, Diane Esquerré, Magali SanCristobal, Florence Lefèvre, Françoise Médale
Software Mentions: 1
Published: over 16 years ago

10.1186/1471-2164-12-S3-S24

A robust tool for discriminative analysis and feature selection in paired samples impacts the identification of the genes essential for reprogramming lung tissue to adenocarcinoma
Cited by: 15
Author(s): Swee Heng Toh, Philip Prathipati, Efthimios Motakis, Chee Keong Kwoh, Surya Pavan Yenamandra, Vladimir A. Kuznetsov
Software Mentions: 1
Published: about 13 years ago

10.1186/1471-2164-15-849

Stage-specific differential gene expression in Leishmania infantum: from the foregut of Phlebotomus perniciosus to the human phagocyte
Cited by: 24
Author(s): Pedro J. Alcolea, Ana Alonso, Manuel J. Gómez, Marina Postigo, Ricardo Molina, Maribel Jiménez, Vicente Larraga
Software Mentions: 1
Published: about 11 years ago

10.1186/1471-2164-11-526

Comparative transcriptional profiling of the limbal epithelial crypt demonstrates its putative stem cell niche characteristics
Cited by: 72
Author(s): Bina Kulkarni, Patrick J. Tighe, Imran Mohammed, Aaron M. Yeung, Desmond G. Powe, Andrew Hopkinson, Vijay Shanmuganathan, Harminder S Dua
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2164-8-347

Abundance and functional diversity of riboswitches in microbial communities
Cited by: 54
Author(s): Marat D. Kazanov, Alexey G. Vitreschak, Mikhail S. Gelfand
Software Mentions: 1
Published: about 18 years ago

10.1186/1471-2164-13-306

Let-7b regulates the expression of the growth hormone receptor gene in deletion-type dwarf chickens
Cited by: 58
Author(s): Senjie Lin, Hongmei Li, Heping Mu, Wen Luo, Ying Li, Xiaoyun Jia, Sibing Wang, Xiaojun Jia, Qinghua Nie, Yugu Li, Xiquan Zhang
Software Mentions: 1
Published: about 13 years ago

10.1186/1471-2164-6-64

Gene expression profile of cervical tissue compared to exfoliated cells: Impact on biomarker discovery
Cited by: 22
Author(s): Martin Steinau, Daisy R. Lee, Mangalathu S. Rajeevan, Suzanne D. Vernon, Mack T. Ruffin, Elizabeth R. Unger
Software Mentions: 1
Published: almost 20 years ago

10.1186/s12864-016-3003-9

De novo SNP discovery and genetic linkage mapping in poplar using restriction site associated DNA and whole-genome sequencing technologies
Cited by: 32
Author(s): Mohaddeseh Mousavi, Chunfa Tong, Fenxiang Liu, Shentong Tao, Jiyan Wu, Huogen Li, Jisen Shi
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-017-3995-9

Integrated analysis of mRNA-seq and miRNA-seq reveals the potential roles of sex-biased miRNA-mRNA pairs in gonad tissue of dark sleeper (Odontobutis potamophila)
Cited by: 29
Author(s): Cheng Zhao, Guosong Zhang, Shaowu Yin, Zecheng Li, Qintao Wang, Shuqiao Chen, Guoqin Zhou
Software Mentions: 1
Published: over 7 years ago

10.1186/s12864-019-5440-8

Experimental validation of in silico predicted RAD locus frequencies using genomic resources and short read data from a model marine mammal
Cited by: 3
Author(s): David L. J. Vendrami, Jaume Forcada, Joseph I. Hoffman
Software Mentions: 1
Published: about 6 years ago

10.1186/s12864-020-07321-3

Genome-wide association analysis reveals genetic variations and candidate genes associated with salt tolerance related traits in Gossypium hirsutum
Cited by: 23
Author(s): Peng Xu, Qi Guo, Shu Meng, Xianggui Zhang, Zhenzhen Xu, Wangzhen Guo, Xinlian Shen
Software Mentions: 1
Published: about 4 years ago

10.1186/1471-2164-11-264

Global transcriptome analysis of spore formation in Myxococcus xanthus reveals a locus necessary for cell differentiation
Cited by: 61
Author(s): Frank-Dietrich Müller, Anke Treuner-Lange, Johann Heider, Stuart Huntley, Penelope I. Higgs
Software Mentions: 1
Published: almost 15 years ago

10.1186/1471-2164-10-66

Differential gene expression in ADAM10 and mutant ADAM10 transgenic mice
Cited by: 34
Author(s): Claudia Prinzen, Dietrich Trümbach, Wolfgang Wurst, Kristina Endres, Rolf Postina, Falk Fahrenholz
Software Mentions: 1
Published: about 16 years ago

10.1186/1471-2164-7-47

Identification of rat lung – prominent genes by a parallel DNA microarray hybridization
Cited by: 22
Author(s): Zhongming Chen, Jiwang Chen, Tingting Weng, Nili Jin, Lin Liu
Software Mentions: 1
Published: almost 19 years ago

10.1186/1471-2164-14-147

Comparison of the global gene expression of choroid plexus and meninges and associated vasculature under control conditions and after pronounced hyperthermia or amphetamine toxicity
Cited by: 21
Author(s): John F. Bowyer, Tucker A. Patterson, U.T. Saini, Joseph P. Hanig, M. Joy Thomas, Luísa Camacho, Nysia I. George, James J. Chen
Software Mentions: 1
Published: about 12 years ago

10.1186/1471-2164-12-160

Comparative transcriptome profiling of amyloid precursor protein family members in the adult cortex
Cited by: 41
Author(s): Dorothee Aydin, М. А. Филиппов, Jakob Andreas Tschäpe, Norbert Gretz, Marco Prinz, Roland Eils, Benedikt Brors, Ulrike Müller
Software Mentions: 1
Published: almost 14 years ago