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Work published with BioMed Central, Chemistry Central and SpringerOpen by researchers at University of Illinois at Urbana-Champaign

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	1.	Research Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.) Ray Ming, Robert VanBuren, Yanling Liu, Mei Yang, Yuepeng Han, Lei-Ting Li, Qiong Zhang, Min-Jeong Kim, Michael C Schatz, Michael Campbell, Jingping Li, John E Bowers, Haibao Tang, Eric Lyons, Ann A Ferguson, Giuseppe Narzisi, David R Nelson, Crysten E Blaby-Haas, Andrea R Gschwend, Yuannian Jiao, Joshua P Der, Fanchang Zeng, Jennifer Han, Xiang Jia Min, Karen A Hudson, Ratnesh Singh, Aleel K Grennan, Steven J Karpowicz, Jennifer R Watling, Kikukatsu Ito et al. Genome Biology 2013, 14:R41 (10 May 2013) Abstract \| Provisional PDF \| PubMed \| Editor’s summary The genome of the long-living, slowly evolving sacred lotus reveals the genetic mechanisms underlying its adaptation to limited nutrient availability
	2.	Research Intermittent fasting combined with calorie restriction is effective for weight loss and cardio-protection in obese women Monica C Klempel, Cynthia M Kroeger, Surabhi Bhutani, John F Trepanowski, Krista A Varady Nutrition Journal 2012, 11:98 (21 November 2012) Abstract \| Full text \| PDF \| PubMed
	3.	Research article Real-time interactive data mining for chemical imaging information: application to automated histopathology David Mayerich, Michael Walsh, Matthew Schulmerich, Rohit Bhargava BMC Bioinformatics 2013, 14:156 (8 May 2013) Abstract \| Provisional PDF \| PubMed
	4.	Research article Compression-based distance (CBD): a simple, rapid, and accurate method for microbiota composition comparison Fang Yang, Nicholas Chia, Bryan A White, Lawrence B Schook BMC Bioinformatics 2013, 14:136 (23 April 2013) Abstract \| Provisional PDF \| PubMed
	5.	Research Contribution of transcriptional regulation to natural variations in Arabidopsis Wenqiong J Chen, Sherman H Chang, Matthew E Hudson, Wai-King Kwan, Jingqiu Li, Bram Estes, Daniel Knoll, Liang Shi, Tong Zhu Genome Biology 2005, 6:R32 (15 March 2005) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Among five accessions 7,508 probe sets with no detectable genomic sequence variations were identified on the basis of the comparative genomic hybridization to the Arabidopsis GeneChip microarray, and used for accession-specific transcriptome analysis, identifying 60 genes that were differentially expressed in different accession backgrounds in an organ-dependent manner. Correlation analysis of expression patterns of these 7,508 genes between pairs of accessions identified a group of 65 highly plastic genes with distinct expression patterns in each accession.
	6.	Research Looking at the label and beyond: the effects of calorie labels, health consciousness, and demographics on caloric intake in restaurants Brenna Ellison, Jayson L Lusk, David Davis International Journal of Behavioral Nutrition and Physical Activity 2013, 10:21 (8 February 2013) Abstract \| Full text \| PDF \| PubMed
	7.	Research Premetazoan genome evolution and the regulation of cell differentiation in the choanoflagellate Salpingoeca rosetta Stephen R Fairclough, Zehua Chen, Eric Kramer, Qiandong Zeng, Sarah Young, Hugh M Robertson, Emina Begovic, Daniel J Richter, Carsten Russ, M Jody Westbrook, Gerard Manning, B Franz Lang, Brian Haas, Chad Nusbaum, Nicole King Genome Biology 2013, 14:R15 (18 February 2013) Abstract \| Provisional PDF \| PubMed \| Editor’s summary Genome sequencing of Salpingoeca rosetta reveals insights into the genome composition of the metazoan ancestor and the evolution of multicellularity
	8.	Database The RAST Server: Rapid Annotations using Subsystems Technology Ramy K Aziz, Daniela Bartels, Aaron A Best, Matthew DeJongh, Terrence Disz, Robert A Edwards, Kevin Formsma, Svetlana Gerdes, Elizabeth M Glass, Michael Kubal, Folker Meyer, Gary J Olsen, Robert Olson, Andrei L Osterman, Ross A Overbeek, Leslie K McNeil, Daniel Paarmann, Tobias Paczian, Bruce Parrello, Gordon D Pusch, Claudia Reich, Rick Stevens, Olga Vassieva, Veronika Vonstein, Andreas Wilke, Olga Zagnitko BMC Genomics 2008, 9:75 (8 February 2008) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| F1000 Biology
	9.	Research Trust mechanisms for cloud computing Jingwei Huang, David M Nicol Journal of Cloud Computing: Advances, Systems and Applications 2013, 2:9 (24 April 2013) Abstract \| Provisional PDF
	10.	Research article Validation of patient determined disease steps (PDDS) scale scores in persons with multiple sclerosis Yvonne C Learmonth, Robert W Motl, Brian M Sandroff, John H Pula, Diego Cadavid BMC Neurology 2013, 13:37 (25 April 2013) Abstract \| Full text \| PDF \| PubMed
	11.	Methodology article **In situ hybridization protocol for enhanced detection of gene expression in the planarian Schmidtea mediterranea** Ryan S King, Phillip A Newmark BMC Developmental Biology 2013, 13:8 (12 March 2013) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Modification of multiple steps in in situ hybridization methods for the freshwater planarian Schmidtea mediterranea greatly increase signal detection and may prove useful for whole-mount fluorescent in situ hybridization (FISH) in other model organisms
	12.	Research Extranuclear ERalpha is associated with regression of T47D PKCalpha-overexpressing, tamoxifen-resistant breast cancer Bethany Perez White, Mary Ellen Molloy, Huiping Zhao, Yiyun Zhang, Debra A Tonetti Molecular Cancer 2013, 12:34 (1 May 2013) Abstract \| Provisional PDF \| PubMed
	13.	Review Biofilm reactors for industrial bioconversion processes: employing potential of enhanced reaction rates Nasib Qureshi, Bassam A Annous, Thaddeus C Ezeji, Patrick Karcher, Ian S Maddox Microbial Cell Factories 2005, 4:24 (25 August 2005) Abstract \| Full text \| PDF \| PubMed
	14.	Research Interleukin-1 beta converting enzyme is necessary for development of depression-like behavior following intracerebroventricular administration of lipopolysaccharide to mice Marcus A Lawson, Robert H McCusker, Keith W Kelley Journal of Neuroinflammation 2013, 10:54 (1 May 2013) Abstract \| Provisional PDF \| PubMed
	15.	Research article Giant viruses coexisted with the cellular ancestors and represent a distinct supergroup along with superkingdoms Archaea, Bacteria and Eukarya Arshan Nasir, Kyung Kim, Gustavo Caetano-Anolles BMC Evolutionary Biology 2012, 12:156 (24 August 2012) Abstract \| Full text \| PDF \| PubMed \| 1 comment
	16.	Research article *Genomic deletion of CNGB3* is identical by descent in multiple canine breeds and causes achromatopsia** Connie Y Yeh, Orly Goldstein, Anna V Kukekova, Debbie Holley, Amy M Knollinger, Heather J Huson, Susan E Pearce-Kelling, Gregory M Acland, András M Komáromy BMC Genetics 2013, 14:27 (20 April 2013) Abstract \| Full text \| PDF \| PubMed
	17.	Technical Note The bench scientist's guide to statistical analysis of RNA-Seq data Craig R Yendrek, Elizabeth A Ainsworth, Jyothi Thimmapuram BMC Research Notes 2012, 5:506 (14 September 2012) Abstract \| Full text \| PDF \| PubMed
	18.	Research article *RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome* Andrew J Severin, Jenna L Woody, Yung-Tsi Bolon, Bindu Joseph, Brian W Diers, Andrew D Farmer, Gary J Muehlbauer, Rex T Nelson, David Grant, James E Specht, Michelle A Graham, Steven B Cannon, Gregory D May, Carroll P Vance, Randy C Shoemaker BMC Plant Biology 2010, 10:160 (5 August 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	19.	Research article Microcollinearity between autopolyploid sugarcane and diploid sorghum genomes Jianping Wang, Bruce Roe, Simone Macmil, Qingyi Yu, Jan E Murray, Haibao Tang, Cuixia Chen, Fares Najar, Graham Wiley, John Bowers, Marie-Anne Van Sluys, Daniel S Rokhsar, Matthew E Hudson, Stephen P Moose, Andrew H Paterson, Ray Ming BMC Genomics 2010, 11:261 (23 April 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Using the sorghum genome as a template for assembling genic information from autopolyploid sugarcane reveals a high level of synteny between the two genomes, although numerous small-scale chromosomal rearrangements and sugarcane-specific genes were identified.
	20.	Research Effects of protein intake and gender on body composition changes: a randomized clinical weight loss trial Ellen M Evans, Mina C Mojtahedi, Matthew P Thorpe, Rudy J Valentine, Penny M Kris-Etherton, Donald K Layman Nutrition & Metabolism 2012, 9:55 (12 June 2012) Abstract \| Full text \| PDF \| PubMed
	21.	Research Enzymatic corn wet milling: engineering process and cost model Edna C Ramírez, David B Johnston, Andrew J McAloon, Vijay Singh Biotechnology for Biofuels 2009, 2:2 (21 January 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	22.	Review Life at the extreme: lessons from the genome Dong-Ha Oh, Maheshi Dassanayake, Hans J Bohnert, John M Cheeseman Genome Biology 2012, 13:241 (6 March 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary High-throughput studies are providing insights into how extremophile plants adapt to life in places where most plant species cannot survive
	23.	Research Leucine content of dietary proteins is a determinant of postprandial skeletal muscle protein synthesis in adult rats Layne E Norton, Gabriel J Wilson, Donald K Layman, Christopher J Moulton, Peter J Garlick Nutrition & Metabolism 2012, 9:67 (20 July 2012) Abstract \| Full text \| PDF \| PubMed
	24.	Research Collaborative development of the Arrowsmith two node search interface designed for laboratory investigators Neil R Smalheiser, Vetle I Torvik, Amanda Bischoff-Grethe, Lauren B Burhans, Michael Gabriel, Ramin Homayouni, Alireza Kashef, Maryann E Martone, Guy A Perkins, Diana L Price, Andrew C Talk, Ruth West Journal of Biomedical Discovery and Collaboration 2006, 1:8 (3 July 2006) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	25.	Research Follicle-stimulating hormone responsiveness in antral follicles from aryl hydrocarbon receptor knockout mice Isabel Hernández-Ochoa, Liying Gao, Jackye Peretz, Mallikarjuna S Basavarajappa, Stacey L Bunting, Bethany N Karman, Tessie Paulose, Jodi A Flaws Reproductive Biology and Endocrinology 2013, 11:26 (1 April 2013) Abstract \| Full text \| PDF \| PubMed