Additional file 6: Figure S6. of Elucidating tissue specific genes using the Benford distribution

The effect of different technical parameters on the Benford pattern as calculated based on cell line-derived gene expression data described as raw counts. If not mentioned otherwise read length was 100 bp and all reads were used in the analysis. Truncated reads (25 and 50 bp) and lower coverage (30, 50 and 80 % out of the total reads) appear in plot titles. The red line indicates the expected Benford distribution, symbol-marked lines are the distribution observed for three replicates. (PDF 17 kb

[unknown]

原著和名: [記載なし]科名: ショウガ科 = Zingiberaceae採集地: タイ カオヤイ国立公園 (タイ国 カオヤイ国立公園)採集日: 1984/10/13採集者: 萩庭丈壽整理番号: JH015452国立科学博物館整理番号: TNS-VS-96545

Liriope spicata Lour.

原著和名: リウキウヤブラン コヤブラン科名: ユリ科 = Liliaceae採集地: 高知県 横倉山 (土佐 横倉山)採集日: 1965/8/8採集者: 萩庭丈壽整理番号: JH014910国立科学博物館整理番号: TNS-VS-96491

Lycopodium phlegmaria L.

原著和名: ヤウラクヒバ科名: ヒカゲノカズラ科 = Lycopodiaceae採集地: 鹿児島県 屋久島 屋久町 中瀬川中流 (大隅 屋久島 屋久町 中瀬川中流)採集日: 1976/12/22採集者: 古瀬 義整理番号: JH016031国立科学博物館整理番号: TNS-VS-96603

The number of contigs with at least one valid hit obtained using blastX to search the <i>S. pistillata</i> EST library against various proteome libraries.

<p>The number of contigs with at least one valid hit obtained using blastX to search the <i>S. pistillata</i> EST library against various proteome libraries.</p

Functional characterization of <i>S. pistillata</i> transcripts.

<p>A total of 8,667 transcripts were classified into KOG/COG categories, giving rise to a total of 9,769 class assignments (some COGs belong to more than one class). The distribution among the functional classes is given in the central pie chart, with each super category slice broken down into separate pie charts in the corners (poorly characterized and uncharacterized functional categories [R and S] are combined with the uncharacterized category [X] in a separate pie chart at the top left corner). The overall class distribution follows those of other metazoan genomes, with the most abundant functions being signal transduction, protein turnover, translation and transcription.</p

Human Wnt (A) and BMP (B) signaling pathways from KEGG pathways [<b>45</b>].

<p>Sequences found in the <i>Stylophora pistillata</i> EST library based on sequence similarity with equivalent human homologues are labeled with a yellow star.</p

<i>Stylophora pistillata</i> (Esper, 1797) is a member of the “robust” lineage of stony corals.

<p>(A) A colony of <i>S. pistillata</i> growing in the Gulf of Eilat, Israel. (B) A colony in the aquarium at the Centre Scientifique de Monaco. (C) Magnification of a polyp in which the symbiotic dinoflagellates (<i>Symbiodinium</i> sp.) can be observed. (Credits-A: D. Zoccola; B &C: E. Tambutté/CSM).</p

Venn diagram of transcript homologues from the stony coral <i>Stylophora pistillata</i> across taxonomic groups, including diploblasts (A. digitifera, <i>H. magnipapillata, N. vectensis,</i>); protostomes (<i>D. Melanogaster and C. elegans</i>); and deuterostomes (<i>S. Purpuratus, C. intestinalis and H. sapiens</i>).

<p>Venn diagram of transcript homologues from the stony coral <i>Stylophora pistillata</i> across taxonomic groups, including diploblasts (A. digitifera, <i>H. magnipapillata, N. vectensis,</i>); protostomes (<i>D. Melanogaster and C. elegans</i>); and deuterostomes (<i>S. Purpuratus, C. intestinalis and H. sapiens</i>).</p

Flow chart of the experimental procedure.

<p>RNA was extracted from adult colonies of <i>Stylophora pistillata</i> from field and laboratory maintained colonies. The coral colonies were held under the presented treatments. LL – constant illumination; LD –12∶12 h light/dark; DD – constant dark.</p