cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.76238.v1
title: Molecular characterization, tissue expression and sequence variability of the barramundi () myostatin gene-9

description: E shown in normal capital letters and deduced amino acid translation is reported in bolded single-letter code. Putative proteolytic and glycosilation sites are boxed and conserved cysteines underlined. Star represents STOP codon. This figure shows the upper quartile, for the full image please see Additional file .<b>Copyright information:</b>Taken from "Molecular characterization, tissue expression and sequence variability of the barramundi () myostatin gene"http://www.biomedcentral.com/1471-2164/9/82BMC Genomics 2008;9():82-82.Published online 19 Feb 2008PMCID:PMC2292173.
DOI: 10.6084/m9.figshare.76209.v1
title: Mining metadata from unidentified ITS sequences in GenBank: A case study in ()-3

description: represents climate according to the KÃ¶ppen-Geiger climate classification (modified from [28]); main climate A = equatorial, B = arid, C = warm temperate, D = snow, E = polar; precipitation W = desert, S = steppe, f = fully humid, s = summer dry w = winter dry, m = monsoonal; temperature h = hot arid, k = cold arid, a = hot summer, b = warm summer, c = cool summer, d = extremely continental, F = polar frost, T = polar tundra. Black symbols represent studies with unidentified sequences, white symbols represent studies with fully identified sequences, and grey symbols represent studies with both unidentified and fully identified sequences. Circles represent studies for which the coordinates were given in the paper in which they were published, diamonds represent studies where the location had to be inferred from the locality given in the paper, and squares represent studies where the location was not available beyond the country/state level. The numbers correspond to the number given to each study in the Additional file .<b>Copyright information:</b>Taken from "Mining metadata from unidentified ITS sequences in GenBank: A case study in ()"http://www.biomedcentral.com/1471-2148/8/50BMC Evolutionary Biology 2008;8():50-50.Published online 18 Feb 2008PMCID:PMC2275786.
DOI: 10.6084/m9.figshare.76207.v1
title: Mining metadata from unidentified ITS sequences in GenBank: A case study in ()-1

description: 105 species for the interspecific similarity (white bars) and 53 species for the intraspecific similarity (black bars).<b>Copyright information:</b>Taken from "Mining metadata from unidentified ITS sequences in GenBank: A case study in ()"http://www.biomedcentral.com/1471-2148/8/50BMC Evolutionary Biology 2008;8():50-50.Published online 18 Feb 2008PMCID:PMC2275786.
DOI: 10.6084/m9.figshare.76208.v1
title: Mining metadata from unidentified ITS sequences in GenBank: A case study in ()-2

description: Dentified sequences associated with each clade. As no fully identified ITS sequences representing species in the clade were available, this clade was excluded.<b>Copyright information:</b>Taken from "Mining metadata from unidentified ITS sequences in GenBank: A case study in ()"http://www.biomedcentral.com/1471-2148/8/50BMC Evolutionary Biology 2008;8():50-50.Published online 18 Feb 2008PMCID:PMC2275786.
DOI: 10.6084/m9.figshare.76206.v1
title: Mining metadata from unidentified ITS sequences in GenBank: A case study in ()-0

description: Ive alignment group (Additional file ). These are based on ITS and partial LSU with jackknife support reported above the branches. When only accession numbers are given, the corresponding sequence represents an unidentified GenBank sequence; when both an accession number and a species name are given, the entry corresponds to an fully identified GenBank sequence; and when a voucher is given in parenthesis, the sequence corresponds to a sequence added in this study (Additional file ). a) The /complex, b) The , , and complex (in this study collectively referred to as s. l.), and c) the /complex.<b>Copyright information:</b>Taken from "Mining metadata from unidentified ITS sequences in GenBank: A case study in ()"http://www.biomedcentral.com/1471-2148/8/50BMC Evolutionary Biology 2008;8():50-50.Published online 18 Feb 2008PMCID:PMC2275786.
DOI: 10.6084/m9.figshare.76132.v1
title: () Immunoblot showing levels of wild-type and mutant TSC1-FLAG proteins and endogenous TSC2 in 97-1 cell lines

description: () Measurement of TSC1 RNA levels by real time RTâ€“PCR analysis of wild-type and mutant TSC1-FLAG mRNA transcript levels in 97-1 cell lines. RTâˆ’ve is reverse transcriptase-negative control, NTC is no template control. TSC1 expression is standardized to SDHA and normalized to the 97-1 Neo cell line.<b>Copyright information:</b>Taken from "Bladder tumour-derived somatic missense mutations cause loss of function via distinct mechanisms"Human Molecular Genetics 2008;17(13):2006-2017.Published online 7 Apr 2008PMCID:PMC2427143.Â© The Author 2008
DOI: 10.6084/m9.figshare.76110.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-6

description: Mall white colouration in the wild type eye is an artefact due to reflected light. C-F: Haematoxylin and Eosin stained sections of wild type (C,E) and -/- (D,F) adult eyes showing degeneration of the mutant lens, with vacuolation and loss of surface epithelium. Scale bars in E,F = 5 Î¼m; C,D = 15 Î¼m.<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.76111.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-7

description: Sed to confirm targeting by Southern blotting. The TkneopolyA cassette replaces exon 3 in the targeted allele while the HSV TK cassette allows negative selection with Gancyclovir. B. Southern analysis of DNA from wild type, heterozygous and homozygous embryos using 5' and 3' external probes to confirm targeting. Digestion with HI gave a 16 kb wild type band with the 5'external probe and 14 kb targeted allele with the 5' probe, while digestion with RI gave a 14 kb wild type band and 8.5 kb targeted band with the 3' probe. C. Western blotting of whole cell lysates and conditioned media from homozygous and wild type E13.5 PEFs, using an anti-NOV antibody (59.3). Although NOV protein is readily detectable in wild type PEF whole cell lysates, no NOV protein can be detected in homozygous PEFs. Conditioned medium from wild type PEFs contains high levels of secreted NOV, whereas that from -/- PEFs contains trace amounts of mutant NOV protein lacking the VWD domain.<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.76108.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-4

description: A subset of cells near the origins of the great vessels at E16.5. C-F: Haematoxylin and Eosin stained sections of wild type (C,D) and -/- (E,F) E13.5 embryonic hearts showing abnormal expansion of the endocardial cushions (EC) and delay in fusion of the septum (S) in the mutant mouse (arrow). G-M: Haematoxylin and Eosin stained sections of wild type (G, J) and -/- (H, I, K) adult hearts, showing accumulation of blood in the sub-endothelial space between the right ventricle and septum (H) and hypertrophy of the septum near the origins of the great vessels, (H, I, K). Areas of calcification on the septal wall of the right ventricle (K, L), stain with Von Kossa (M). There is no associated fibrosis. Scale bars in A,D,F = 20 Î¼m; B,L = 10 Î¼m; C,E = 50 Î¼m; G,H,I = 1 mm; J,K = 50 Î¼m; M = 5 Î¼m.<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.76109.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-5

description: embryos. B, C: photographs of wild type (B) and -/- (C) body walls, showing thinning and transparency in the mutant. D-I: Haematoxylin and Eosin stained sections of adult skin from wild type (D, G), +/- (E, H) and -/- (F, I) mice showing atrophy of subcutaneous muscles in +/- and -/- mice, with arrow heads marking the residual muscle layer. Histology of the subcutaneous adipose tissue in wild type (J) and -/- (K) showing large mature fat cells in the wild type in contrast to the mixture of large (mature) and small (immature) fat cells in the mutant. L, M: Haematoxylin and Eosin stained section of adult intercostal muscles in wild type (L) and -/- (M) mice showing muscle atrophy and transdifferentiation to fat in the mutant. Scale bars in A = 20 Î¼m; D-F = 50 Î¼m; G-M = 10 Î¼m.<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.76105.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-1

description: Arsal cartilage elements (white arrow) and elongation of the digits in -/-. Note increased intensity of Alizarin red staining and thickening of the tibia in -/- compared to wild type. C. Knee abnormalities in -/- compared with wild type, including flattening of the patella. D. Malformation of the wrist elements in -/- compared to wild type. E. Dislocation of hip (arrow) in -/- compared to wild type. F. Kinking of tail with compression of the vertebral body (arrow) in -/- embryo. G-J: Adult skeletons. Overgrowth of the appendicular skeleton in -/-, and to a lesser extent in +/-, compared to wild type (+/+) littermate. H. Overgrowth of the axial skeleton in -/- compared to wild type, with increased length of individual vertebral bodies. I. Frontal view of right (upper panel) and left (lower panel) knee joints from -/- and wild type (+/+) littermates showing abnormal patella (P) and grossly enlarged medial meniscus (arrow head) in mutant compared with wild type. J. Lateral view of knee showing flattening of patella in -/-. F: femur; T: tibia and P: patella.<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.76107.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-3

description: Nd 9 days (B, F) in culture showing enhanced cartilage differentiation in -/- cells, with the dashed line in B and F marking the extent of the micromass. Alkaline phosphatase staining after 5 days (C, G) and 9 days (D, H) in culture showing enhanced osteoblast differentiation in -/- cells. I-L: Morphology of monolayer PEF cultures derived from wild type (I, J) and -/- (K,L) embryos with (I, K) and without (J, L) phase contrast. Alkaline phosphatase staining after 10 days in culture (I, J, K, L) showing osteoblast differentiation in the -/- PEFs but not in the wild type PEFs. Scale bar in I-N = 10 Î¼m. M: Semi quantitative RT-PCR of mRNA from wild type (+/+) and -/- PEFs using primers for alkaline phosphatase, collagen I and osteocalcin. Two fold serial dilutions of cDNA were used and normalised to .<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.76104.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-0

description: Sed to confirm targeting by Southern blotting. The TkneopolyA cassette replaces exon 3 in the targeted allele while the HSV TK cassette allows negative selection with Gancyclovir. B. Southern analysis of DNA from wild type, heterozygous and homozygous embryos using 5' and 3' external probes to confirm targeting. Digestion with HI gave a 16 kb wild type band with the 5'external probe and 14 kb targeted allele with the 5' probe, while digestion with RI gave a 14 kb wild type band and 8.5 kb targeted band with the 3' probe. C. Western blotting of whole cell lysates and conditioned media from homozygous and wild type E13.5 PEFs, using an anti-NOV antibody (59.3). Although NOV protein is readily detectable in wild type PEF whole cell lysates, no NOV protein can be detected in homozygous PEFs. Conditioned medium from wild type PEFs contains high levels of secreted NOV, whereas that from -/- PEFs contains trace amounts of mutant NOV protein lacking the VWD domain.<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.76106.v1
title: Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene-2

description: the mesenchyme of the joints adjacent to the cartilage elements, but no expression in condensing cartilage. B. High expression in the mesenchyme overlying the cartilage elements (arrow) and in the digital tendons (arrow head). C-G. Skeletal staining with Alizarin red and Alcian blue of E16.5 +/-, -/- and wild type (+/+) embryos. C. Wild type forefoot showing ossification of digits (arrow). D. No ossification in -/- digits (arrow), but intense staining with Alizarin red of the radius and ulna indicating increased bone mineralization. E-G Vertebrae and rib cages of wild type (E), -/- (F) and +/- (G) showing delay in ossification of the vertebrae in the mutant embryos. No ossification is present in the -/- embryo, and whilst ossification is taking place in the +/- embryo (G), it is not occurring in the ordered, sequential manner observed in the wild type. Thoracic vertebrae numbered 1â€“13. H-Q. Histological sections of E16.5 wild type and -/- embryos. H, J, L, N, P: wild type; I, K, M, O, Q: -/- littermate. H, I: Haematoxylin and Eosin stained sections showing expanded perichondrium and periosteum in -/- and a thicker bone collar (arrow head) compared to the wild type. o: ossified bone; h: hypertrophic cartilage; ph: pre-hypertrophic cartilage; c: columnar chondroctyes. J, K: Haematoxylin and Eosin stained sections at higher magnification at the junction of pre-hypertrophic/hypertrophic chondrocytes, adjacent to the border of the perichondrium/periosteum, showing abnormal morphology of chondrocytes and matrix in the mutant (K). L, M: Alcian blue staining of cartilage, showing expansion of the cartilage element and blurring of its borders in the -/- embryo (M) compared to wild type (L). N, O: PCNA staining showing a sharp demarcation (black dashed line) between proliferating chondrocytes and pre-hypertrophic chondroctes in the wild type (N), but not in the -/- mutant (black dashed line) (O). P, Q: Von Kossa staining for mineralised bone showing a shorter and thicker bone collar (indicated by the black bar) in the pre-hypertrophic/hypertrophoic zone of the -/- mutant (Q) compared to wild type (P). Scale bars in A B = 20 Î¼m; H,I,N,O,P,Q = 10 Î¼m; J-M = 5 Î¼m.<b>Copyright information:</b>Taken from "Abnormal skeletal and cardiac development, cardiomyopathy, muscle atrophy and cataracts in mice with a targeted disruption of the () gene"http://www.biomedcentral.com/1471-213X/8/18BMC Developmental Biology 2008;8():18-18.Published online 20 Feb 2008PMCID:PMC2275724.
DOI: 10.6084/m9.figshare.75988.v1
title: Detection of natural infection with in healthy wild-caught Chacma baboons () by ESAT-6 and CFP-10 IFN-? ELISPOT tests following a tuberculosis outbreak-2

description: <b>Copyright information:</b>Taken from "Detection of natural infection with in healthy wild-caught Chacma baboons () by ESAT-6 and CFP-10 IFN-Î³ ELISPOT tests following a tuberculosis outbreak"http://www.biomedcentral.com/1471-2180/8/27BMC Microbiology 2008;8():27-27.Published online 7 Feb 2008PMCID:PMC2275275.
DOI: 10.6084/m9.figshare.12922151
title: tomato SV matrix

description: Genotyping of SVs identified between genomes of <i>Solanum lycopersicum</i> Heinz 1706 and <i>S. </i><i>pimpinellifolium</i> LA2093 in a collection of 597 tomato accessions
DOI: 10.6084/m9.figshare.75359.v1
title: The correlation between latitude and minor allele frequency of the SNPs () g

description: 144G&gt;C, () g.784C&gt;T, and () g.885A&gt;G. Correlation coefficients for each graph can be found in Table 15.<b>Copyright information:</b>Taken from "Prevalence of common disease-associated variants in Asian Indians"http://www.biomedcentral.com/1471-2156/9/13BMC Genetics 2008;9():13-13.Published online 4 Feb 2008PMCID:PMC2267478.
DOI: 10.6084/m9.figshare.75323.v1
title: () Representative EPR spectra obtained from control (NCX-4040, A2780 cDDP cells) and NCX-4040 treatment (100 ?M for both A2780 WT and A2780 cDDP) groups

description: The cells were incubated with NCX-4040 in the presence of spin trap (MGD)Fe. Also shown is an EPR spectrum of an authentic complex of NO with Fe(MGD)obtained by adding SNAP (an NO donor) to spin trap. () Time-course of nitric oxide release by NCX-4040 in A2780 WT, A2780 cDDP, and A2780 cDDP cells treated with 1 mM buthionine sulfoximine (BSO) for 24 h. () Representative DAF-FM DA fluorescence images of untreated (control) and treated (1, 2 or 4 hours) with NCX-4040 (100 Î¼M). () Quantitative results on the DAF-FM DA fluorescence data. *p &lt; 0.01 Control group.<b>Copyright information:</b>Taken from "NCX-4040, a nitric oxide-releasing aspirin, sensitizes drug-resistant human ovarian xenograft tumors to cisplatin by depletion of cellular thiols"http://www.translational-medicine.com/content/6/1/9Journal of Translational Medicine 2008;6():9-9.Published online 26 Feb 2008PMCID:PMC2267444.
DOI: 10.6084/m9.figshare.75064.v1
title: () PPAR? mRNA relative expression in pooled liver samples from analyzed groups normalized to GAPDH expression

description: Results are expressed as mean Â± SEM percentage of mean values obtained from equal numbers of C57BL/6J and C3He/6J mice. *P &lt; 0.05. (). SCARB1 mRNA relative expression in liver samples from analyzed groups normalized to GAPDH expression. *P &lt; 0.05 (). ChIP with a PPARÎ³ antibody of study groups was used to amplify a SCARB1 promoter fragment. ChIP figures percentages indicate increments or decrements regarding C57BL/6J mice fed HFHC diet. Data of C57BL/6J mice fed chow diet was established as 100%.<b>Copyright information:</b>Taken from "Rosiglitazone but not losartan prevents Nrf-2 dependent CD36 gene expression up-regulation in an atherosclerosis model"http://www.cardiab.com/content/7/1/3Cardiovascular Diabetology 2008;7():3-3.Published online 26 Feb 2008PMCID:PMC2266907.
DOI: 10.6084/m9.figshare.74833.v1
title: Phylogenetic and comparative gene expression analysis of barley () WRKY transcription factor family reveals putatively retained functions between monocots and dicots-5

description: N bold letters, the amino acids forming the zinc-finger motif are displayed in grey, gaps are marked with dashes.<b>Copyright information:</b>Taken from "Phylogenetic and comparative gene expression analysis of barley () WRKY transcription factor family reveals putatively retained functions between monocots and dicots"http://www.biomedcentral.com/1471-2164/9/194BMC Genomics 2008;9():194-194.Published online 28 Apr 2008PMCID:PMC2390551.
DOI: 10.6084/m9.figshare.74216.v1
title: Distribution of evolutionary rates () for various strains overlaid on a phylogenetic tree using as reference for genome comparisons

description: <b>Copyright information:</b>Taken from "The impact of horizontal gene transfer in shaping operons and protein interaction networks â€“ direct evidence of preferential attachment"http://www.biomedcentral.com/1471-2148/8/23BMC Evolutionary Biology 2008;8():23-23.Published online 24 Jan 2008PMCID:PMC2259305. genes evolve slower than and genes (P-value &lt; 0.001).
DOI: 10.6084/m9.figshare.73994.v1
title: Pyrosequencing as a method for SNP identification in the rhesus macaque ()-1

description: Ng numbers of variable SNPs in each population.<b>Copyright information:</b>Taken from "Pyrosequencing as a method for SNP identification in the rhesus macaque ()"http://www.biomedcentral.com/1471-2164/9/256BMC Genomics 2008;9():256-256.Published online 29 May 2008PMCID:PMC2443142.
DOI: 10.6084/m9.figshare.73642.v1
title: Differential regulation of insulin-like growth factor binding protein-1 and -2 by insulin in the baboon () endometrium-6

description: <b>Copyright information:</b>Taken from "Differential regulation of insulin-like growth factor binding protein-1 and -2 by insulin in the baboon () endometrium"http://www.rbej.com/content/6/1/6Reproductive biology and endocrinology : RB&E 2008;6():6-6.Published online 31 Jan 2008PMCID:PMC2254421.sed by western blotting for IGFBP-1 (A) and IGFBP-2 (B), and by ELISA for IGFBP-1 (C) after 24 h incubation. 14 d E: Treatment with estradiol for 14 days; 14 d E+P: Treatment with estradiol for 14 days followed by treatment with estradiol plus progesterone for 14 days; 14 d P: Treatment with estradiol for 14 days followed by treatment with progesterone alone for 14 days. These treatments represent the late follicular, mid secretory and late secretory stages of the cycle, respectively. Values above each band in A and B represent their optical density. Open bars: + Insulin; Closed bars: - Insulin.
DOI: 10.6084/m9.figshare.73641.v1
title: Differential regulation of insulin-like growth factor binding protein-1 and -2 by insulin in the baboon () endometrium-5

description: <b>Copyright information:</b>Taken from "Differential regulation of insulin-like growth factor binding protein-1 and -2 by insulin in the baboon () endometrium"http://www.rbej.com/content/6/1/6Reproductive biology and endocrinology : RB&E 2008;6():6-6.Published online 31 Jan 2008PMCID:PMC2254421.explants (n = 2) at day 10 post-ovulation. Media samples were analysed after 24 h (D-1) and 48 h (D-2) incubation by western blotting for IGFBP-1 (A) and IGFBP-2 (B), and by ELISA for IGFBP-1 (C). Values above each band in A and B represent their optical density. PF: Proteolytic fragment of IGFBP-1. Open and closed bars in C represent IGFBP-1 levels released by explants from two different animals in the absence of insulin.