Add all the source codes into the github.

author: root 2012-05-08 18:39:56 -0500
committer: root 2012-05-08 18:39:56 -0500
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+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN">
+<HTML><HEAD><TITLE>HZI Lung M430v2 (Apr08) RMA</TITLE>
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+<P class="title">HZI Lung M430v2 (Apr08) RMA <A HREF="/webqtl/main.py?FormID=editHtml">
+<img src="/images/modify.gif" alt="modify this page" border= 0 valign="middle"></A><BR><BR>Accession number: <A HREF="/webqtl/main.py?FormID=sharinginfo&GN_AccessionId=160">GN160</A></P>
+
+<P class="subtitle">Summary:</P>
+
+<Blockquote>
+<P>
+<P>FINAL database. Error-checked.
+<P>Please cite: <A HREF="http://www.ncbi.nlm.nih.gov/pubmed/21535883">Alberts R, Lu L, Williams RW, Schughart K (2011) Genome-wide analysis of the mouse lung transcriptome reveals novel molecular gene interaction networks and cell-specific expression signatures. Respir Res 12:61</A>
+
+<P>This is the final lung gene expression data set for 57 strains of mice generated using the M430 2.0 Affymetrix array. The data set includes estimates of expression for 8 common inbred strains, 47 BXD strains, and reciprocal F1 hybrids (B6D2F1 and D2B6F1). Data were generated by Klaus Schughart, Lu Lu, and Rob Williams. Arrays were processed by Yan Jiao and Weikuan Gu at the Memphis VA. For questions about these data please contact Prof. Klaus Schughart (Helmholtz Centre for Infection Research, Braunschweig, Germany) at kls@helmholtz-hzi.de. 
+
+<P> This data set was processed using the <a href="http://rmaexpress.bmbolstad.com/" target="_blank" class="fs14">RMA</a> protocol. A total of 2223 probes sets are associated with LRS values greater than 46 (LOD >10).
+
+
+<P class="subtitle">About the cases used to generate this set of data:</P>
+
+<Blockquote>
+
+<P>This is the final HZI Lung data set. Almost all animals are young adults between 50 and 80 days of age. We measured expression in conventional inbred strains, BXD recombinant inbred (RI) strains, reciprocal F1s between C57BL/6J and DBA/2J, and several mutant and knockout lines. We have combined all common strains, F1 hybrids, and mutants into a group called the Mouse Diversity Panel (MDP). Four lines, namely, C57BL/6J (B6), DBA/2J (D2), and the pair of B6D2F1 and D2B6F1 hybrids are common to both the MDP and the BXD set. This is a breakdown of cases that are part of HEIMED:
+
+<OL>
+<LI>47 BXD strains. The first 32 of these strains  are from the Taylor series of BXD strains generated at the Jackson Laboratory by Benjamin A. Taylor. BXD1 through BXD32 were started in the late 1970s, whereas BXD33 through 42 were started in the 1990s. Only one of these strains, BXD24 (know also known as BXD24b), has retinal degeneration (a spontaneous mutation). The other 36 BXD strains (BXD43 and higher) were bred by Lu Lu, Jeremy Peirce, Lee M. Silver, and Robert W. Williams starting in 1997 using B6D2 generation 10 advanced intercross progeny. This modified breeding protocol doubles the number of recombinations per BXD strain and improves mapping resolution (Peirce et al. <a href="http://www.biomedcentral.com/1471-2156/5/7"  target="_blank" class="fs14">2004</a>). All of the Taylor series of BXD strains and many of the new BXD strains are available from the Jackson Laboratory. All of the new BXD strains (BXD43 and higher) are also available directly from <A HREF="mailto:lulu@uthsc.EDU" target="_blank" class="fs14">Lu Lu</A> and colleagues at the University of Tennessee Health Science Center in Memphis, TN, USA.
+
+<LI>10 MDP lines, including some of the most widely used common <I>Mus musculus domesticus</I> inbred strains (e.g., C57BL/6J and 129X1/SvJ), and one inbred but wild-derived representatives this subspecies (WSB/EiJ).
+
+
+<OL>
+<LI><A HREF="http://www.informatics.jax.org/external/festing/mouse/docs/129.shtml" target="_empty" class="fs14">129X1/SvJ </A>
+
+<LI><A HREF="http://www.informatics.jax.org/external/festing/mouse/docs/BALB.shtml" target="_empty" class="fs14">BALB/cByJ</A>: Sequenced by NIEHS; maternal parent of the CXB panel; Phenome Project old group A list. A tyrosinase (<I>Tyr c</I> allele) albino mutant and also a tyrosinase related protein 1 (<I>Tyrp1 b</I>) brown allele mutant. Small brain, not aggressive (JAX Stock Number: <A HREF="http://jaxmice.jax.org/strain/001026.html" target="_empty" class="fs14">001026</A>)
+
+<LI><A HREF="http://www.informatics.jax.org/external/festing/mouse/docs/C57BL.shtml" target="_empty" class="fs14">C57BL/6J</A>: Sequenced by NIH/NHGRI; parental strain of AXB/BXA, BXD, and BXH; Phenome Project A list. Single most widely used inbred strain of mouse. (JAX Stock Number: <A HREF="http://jaxmice.jax.org/strain/000664.html" target="_empty" class="fs14">000664</A>)
+
+<LI><A HREF="http://www.informatics.jax.org/external/festing/mouse/docs/DBA.shtml" target="_empty" class="fs14">DBA/2J</A>: The dilute, brown, agouti (dba) strain is the oldest inbred strain of mouse. Inbreeding was started in 1909 by Little.  A tyrosinase related protein 1 (<I>Tyrp1 b</I>) brown allele mutant. A myosin 5a  (<I>Myo5a d</I>) dilute allele mutant. Sequenced by Perlegen/NIEHS and Celera; paternal parent of the BXD panel; Phenome Project old A group list. (JAX Stock Number: <A HREF="http://jaxmice.jax.org/strain/000671.html" target="_empty" class="fs14">000671</A>)
+
+<LI><A HREF="http://jaxmice.jax.org/strain/001800_2.html" target="_empty" class="fs14">FVB/NJ</A>: Friend's leukemia virus B (FVB) strain. Sequenced by Perlegen/NIEHS and Celera. <I>Tyr</I> c locus albino and a <I>Pdeb6 rd1</I> mutant derived from Swiss mice at NIH. This has been the most common strain used to make transgenic mice due to large and easily injected oocytes; Phenome Project A list (JAX Stock Number: <A HREF="http://jaxmice.jax.org/strain/001800.html" target="_empty" class="fs14">001800</A>).
+
+
+<LI><A HREF="http://www.informatics.jax.org/external/festing/mouse/docs/LP.shtml" target="_empty" class="fs14">LP/J</A>: White-bellied agouit strain with a piebald mutation in the endothelin receptor type B <I>Ednrb</I> gene from at the Jackson Laboratory. Some reduction in melanocytes in choroid of eye due to neural creast migration abnormalities. (JAX Stock Number: <A HREF="http://jaxmice.jax.org/strain/000676.html" target="_empty" class="fs14">000676</A>)
+
+
+
+<LI><A HREF="http://www.informatics.jax.org/external/festing/mouse/docs/SJL.shtml" target="_empty" class="fs14">SJL/J</A>: Swiss Webster inbred strain from Jim Lambert's lab at the Jackson Laboratory. This strain has the retinal degeneration <I>rd1</I> allele in <I>Pde6b</I>. It also carries both the <I>Tyr</I> c albino mutation and the pink-eye dilution mutation in the <I>Oca2</I> or p locus.  Highly aggressive males. (JAX Stock Number: <A HREF="http://jaxmice.jax.org/strain/000686.html" target="_empty" class="fs14">000686</A>)
+
+<LI><A HREF="http://jaxmice.jax.org/strain/001145.html" target="_empty" class="fs14">WSB/EiJ</A>: Watkin Star line B (or "wild son-of-a-bitch") is a wild-derived <I>Mus musculus domesticus</I> inbred strain from samples caught in Maryland, USA. A Collaborative Cross strain sequenced by NIEHS; Phenome Project C list (JAX Stock Number: <A HREF="http://jaxmice.jax.org/strain/001145.html" target="_empty" class="fs14">001145</A>)
+
+<LI>B6D2F1 and D2B6F1 (also listed as BDF1 and DBF1 in some graphs and tables): F1 hybrids generated by crossing C57BL/6J with DBA/2J. These black reciprocal F1 can be used to detect dominance effects. Comparison of the two reciprocal F1s can be used to detect parental origin (imprinting) effects. The D2B6F1 animals are currently available from the Jackson Laboratory as a special order.) (JAX Stock Number for B6D2F1 hybrids obtained from the Jackson Laboratory, aka B6D2F1/J <A HREF="http://jaxmice.jax.org/strain/100006.html" target="_empty" class="fs14">100006</A>)
+</OL>
+
+
+</Blockquote>
+
+
+<P class="subtitle">About the tissue used to generate this set of data:</P>
+
+<Blockquote>
+<P><B>Tissue preparation protocol</B>. Animal were killed by rapid cervical dislocation. Lungs were removed immediately and placed in RNA<I>later</I> at room temperature. Usually lungs from 2 to 4 animals with a common sex, age, and strain were stored in a single tube.
+
+<P>Each array was hybridized with a pool of cRNA from lungs from 2 to 4 animals. RNA was extracted at UTHSC by Zhiping Jia. If tissue was saved for RNA extraction at a later time, eyes were placed directly in <i>RNAlater</i> (Ambion, Inc.) and treated per the manufacturer’s directions.  If eyes were used for immediate RNA extraction then we proceeded immediately to the next steps.<p>
+
+Dissecting and preparing lungs for RNA extraction
+<OL>
+<LI>Place lungs for RNA extraction in RNA STAT-60 (Tel-Test Inc.) and process per manufacturer’s instructions (in brief form below).
+<LI>Store RNA in 75% ethanol at –80 deg. C until use.
+</OL>
+
+<P>Total RNA was extracted with RNA STAT-60 (Tel-Test Inc.) according to the manufacturer's instructions. Briefly we:
+<OL>
+<LI>homogenize tissue samples in the RNA STAT-60 (1 ml/50 to 100 mg tissue)
+<LI>allowed the homogenate to stand for 5 min at room temperature
+<LI>added 0.2 ml of chloroform per 1 ml RNA STAT-60
+<LI>shook the sample vigorously for 15 sec and let the sample sit at room temperature for 3 min
+<LI>centrifuged at 12,000 G for 15 min
+<LI>transfered the aqueous phase to a fresh tube
+<LI>added 0.5 ml of isopropanol per 1 ml RNA STAT-60
+<LI>vortexed and allowed sample to stand at room temperature for 5-10 min
+<LI>centrifuged at 12,000 G for 10-15 min
+<LI>removed the supernatant and washed the RNA pellet with 75% ethanol
+<LI>stored the pellet in 75% ethanol at -80 deg C until use
+</OL>
+
+<P><B>Sample Processing</B>. All samples were processed in the VA Medical Center, Memphis, Rheumatology Disease Research Core Center led by Dr. Weikuan Gu. All arrays were processed by Dr. Yan Jiao. In brief, samples were purified using a standard sodium acetate in alcohol method (recommended by Affymetrix). The RNA quality was checked using a 1% agarose gel. The 18S and 28S bands had to be clear and the 28S band had to be more prominent. RNA concentation was measured using a spectrophotometer. The 260/280 ratios had to be greater than 1.7, and the majority were 1.8 or higher. We used a total of 8 micrograms of RNA as starting amount for cDNA synthesis using a standard Eberwine T7 polymerase method (Superscript II RT, Invitrogen Inc., Affy Part No 900431, GeneChip Expression 3' Amplification One-Cyle cDNA Synthesis Kit). The Affymetrix IVT labeling kit (Affy 900449) was used to generate labeled cRNA. At this point the cRNA was evaluated again using both the 260/280 ratio (values of 2.0 or above were acceptable) and 1% agarose gel inspection of the product (a size range from 200 to 7000 bp is considered suitable for use). We used 45 micrograms of labeled cRNA for fragmentation. Those samples that passed both QC steps (<10% usually fail) were then sheared using a fragmentation buffer included in the Affymetrix GeneChip Sample Cleanup Module (Part No.900371). After fragmentation, samples were either stored at -80 deg. C until use (roughly one third) or were used immediately for hybridization.
+
+
+<P><B>Replication, sex, and sample balance:</B> Our goal was to obtain data for independent biological sample pools for as many lines of mice as possible. We studies both sexes only for the 10 MDP strains and BXD98 (11 strains total). All other strains we sampled only for a single sex pool.
+
+
+
+
+<P><B>Table 1: Lung case IDs, including sample tube ID, strain, age, sex, and source of mice</B>
+<p> FORMAT THIS CORRECTLY
+
+<P>
+Index	RNA_tube_ID	Strain	Age	Sex	F_generation	Batch_ID	Pool_size	Source
+1	R4495LU	C57BL/6J	65	F	 	4	3	UTM RW
+2	R4496LU	C57BL/6J	65	M	 	4	2	UTM RW
+3	R4499LU	DBA/2J	65	F	 	4	3	ORNL
+4	R4500LU	DBA/2J	59	M	 	4	2	JAX
+5	R4486LU	B6D2F1	70	F	 	4	2	UTM RW
+6	R4485LU	B6D2F1	62	M	 	4	5	UTM RW
+7	R4489LU	D2B6F1	61	F	 	4	2	UTM RW
+8	R4490LU	D2B6F1	61	M	 	4	3	UTM RW
+9	R4442LU	BXD1	88	F	 	1	3	UTM RW
+10	R4470LU	BXD2	84	M	152	3	3	UTM RW
+11	R4478LU	BXD6	92	M	161	3	3	UTM RW
+12	R4475LU	BXD9	78	M	132	3	3	UTM RW
+13	R4444LU	BXD12	61	F	 	1	3	ORNL
+14	R4436LU	BXD14	85	F	126	1	2	UTM RW
+15	R4443LU	BXD16	79	F	 	1	5	UTM RW
+16	R4446LU	BXD19	49	F	 	1	3	ORNL
+17	R4445LU	BXD21	50	F	 	1	3	ORNL
+18	R4483LU	BXD22	66	M	 	4	2	UTM RW
+19	R4484LU	BXD25	54	M	135	4	3	UTM RW
+20	R4447LU	BXD27	85	F	 	1	3	UTM RW
+21	R4448LU	BXD31	81	F	124	1	3	UTM RW
+22	R4449LU	BXD32	68	F	 	2	5	ORNL
+23	R4450LU	BXD33	61	F	 	2	2	ORNL
+24	R4437LU	BXD34	58	F	 	1	5	UTM RW
+25	R4438LU	BXD39	63	F	60	1	3	UTM RW
+26	R4439LU	BXD40	54	F	 	1	3	ORNL
+27	R4451LU	BXD42	65	F	 	2	2	UTM RW
+28	R4452LU	BXD43	79	F	33	2	2	UTM RW
+29	R4440LU	BXD45	unk	unk	32	1	2	UTM RW
+30	R4453LU	BXD45	60	F	30	2	4	UTM RW
+31	R4462LU	BXD48	61	F	20	2	3	UTM RW
+32	R4441LU	BXD50	64	F	 	1	4	ORNL
+33	R4460LU	BXD51	81	M	31	2	2	UTM RW
+34	R4454LU	BXD55	80	M	 	2	3	ORNL
+35	R4455LU	BXD56	91	M	 	2	3	ORNL
+36	R4463LU	BXD60	93	M	33	2	2	UTM RW
+37	R4464LU	BXD62	80	M	30	2	2	UTM RW
+38	R4477LU	BXD65	59	F	29	3	3	UTM RW
+39	R4456LU	BXD66	80	F	28	2	3	UTM RW
+40	R4457LU	BXD68	65	F	25	2	4	UTM RW
+41	R4465LU	BXD69	63	M	31	2	5	UTM RW
+42	R4466LU	BXD70	75	M	25	2	3	UTM RW
+43	R4467LU	BXD71	64	M	20	2	4	UTM RW
+44	R4468LU	BXD73	59	M	34	2	3	UTM RW
+45	R4469LU	BXD75	51	M	30	3	4	UTM RW
+46	R4471LU	BXD83	75	M	20	3	2	UTM RW
+47	R4472LU	BXD84	78	M	21	3	2	UTM RW
+48	R4473LU	BXD86	77	M	28	3	3	UTM RW
+49	R4474LU	BXD87	67	M	24	3	3	UTM RW
+50	R4459LU	BXD89	79	F	25	2	2	UTM RW
+51	R4476LU	BXD90	63	M	29	3	3	UTM RW
+52	R4479LU	BXD96	71	M	26	3	3	UTM RW
+53	R4461LU	BXD97	80	M	21	2	3	UTM RW
+54	R4480LU	BXD97	80	M	28	3	3	UTM RW
+55	R4481LU	BXD98	80	M	25	3	2	UTM RW
+56	R4482LU	BXD99	72	M	21	3	2	UTM RW
+57	R4435LU	BXD100	64	F	20	1	2	UTM RW
+58	R4497LU	129X1/SvJ	65	F	 	4	4	JAX
+59	R4498LU	129X1/SvJ	66	M	 	4	4	JAX
+60	R4487LU	BALB/cByJ	91	F	 	4	3	UTM RW
+61	R4488LU	BALB/cByJ	91	M	 	4	2	UTM RW
+62	R4491LU	FVB/NJ	62	F	 	4	5	UTM RW
+63	R4492LU	FVB/NJ	73	M	 	4	3	UTM RW
+64	R4501LU	LP/J	65	F	 	4	4	JAX
+65	R4502LU	LP/J	65	M	 	4	4	JAX
+66	R4503LU	SJL/J	63	F	 	4	4	JAX
+67	R4504LU	SJL/J	65	M	 	4	4	JAX
+68	R4493LU	WSB/EiJ	76	F	 	4	3	UTM RW
+69	R4494LU	WSB/EiJ	76	M	 	4	3	UTM RW
+
+
+
+
+
+<table border="0" cellpadding="0" cellspacing="0" bgcolor="#000000" width="600">
+<tr><td>
+<table width="600" border="0" cellpadding="5" cellspacing="1" align="left">
+<tr bgcolor="royalblue">
+<td><font color=#FFFFFF>Index</font></td><td><font color=#FFFFFF>TubeID</font></td><td><font color=#FFFFFF>Group</font></td><td><font color=#FFFFFF>Strain</font></td><td><font color=#FFFFFF>Age</font></td><td><font color=#FFFFFF>Sex</font></td><td><font color=#FFFFFF>Source</font></td></tr>
+
+<tr bgcolor="#eeeeee"><td>220</td><td>R2368E.1</td><td>GDP</td><td>WSB/EiJ</td><td>67</td><td>F</td><td>UTHSC RW</td></tr>
+<tr bgcolor="#eeeeee"><td>221</td><td>R2547E.1</td><td>GDP</td><td>WSB/EiJ</td><td>67</td><td>M</td><td>UTHSC RW</td></tr>
+</table>
+
+</td>
+</tr>
+</table>
+</Blockquote>
+</p>
+
+<P class="subtitle">About downloading this data set:</P>
+<Blockquote>
+
+
+
+<P>This data set will eventually be available as a bulk download in several formats. Please contact Arthur Centeno or Robert W. Williams for a link to the FTP site associated with this Lung RMA GeneNetwork data set. The data will be available as either strain means or the individual arrays. </P>
+</Blockquote>
+
+
+<P class="subtitle">About the array platfrom:</P>
+<Blockquote>
+<P><B>Affymetrix Mouse Genome 430 2.0 arrays: </B>The <A HREF="http://www.affymetrix.com/support/technical/byproduct.affx?product=moe430-20" target="_blank" class="normal">430 2.0</A> array consists of 992936 25-nucleotide probes that estimate the expression of approximately 39,000 transcripts (many probes overlap and target the same transcript). The array sequences were selected late in 2002 using Unigene Build 107. The array nominally contains the same probe sequences as the old M430A and 430B  array pair. However, we have found that roughy 75000 probes differ between those on A and B arrays and those on the new 430 2.0. </P>
+
+
+</Blockquote>
+
+
+
+<P class="subtitle">About data values and data processing:</P>
+
+<Blockquote>
+<B>Range of Gene Expression in the Lung.</B> Expression of transcripts in the lung and most other GN data sets is measured on a log2 scale. Each unit corresponding approximately to a 2-fold difference in hybridization signal intensity. To simplify comparisons among different data sets and cases, log2 RMA values of each array have been adjusted to an average expression of 8 units and a standard deviation of 2 units (variance stabilized). Values of all 45,101 probe sets in this data set range from a low of 5.04 (<I>Clca2</I>, probe set 1437578_at) to a high of 15.1 (hemaglobin alpha, adult chain 1, <I>Hba-a1</I>, probe set 1428361_x_at). This corresponds to about 10 units or a dynamic range of expression 2^10.
+
+<P>We calibrated this log intensity scale using Affymetrix spike-in control probe sets. (This analysis was done using the very similar HEIMED EYE data.) These 18 control probe sets target exogenous bacterial mRNAs that are added to each sample (a graded dose spike cocktail) during preparation at concentrations of 1.5, 5, 25, and 100 pM. (To find these probe sets, search GN’s ALL search field using the string “AFFX pM”.) A value of 6 or less is equivalent to an mRNA concentration of under 0.4 pM, a value of 8 is equivalent to ~1.5 pM, 9.5 is equivalent to ~5 pM, 11.5 is equivalent to ~25 pM, 13.5 is equivalent to ~100 pM, and a value of 15.5 is equivalent to an mRNA concentration of 400 pM or greater.
+
+<P>This range can be converted to the mRNA molecules per cell in the eye assuming that a value of 8 is equivalent to about 1 mRNA copy per cell (Kanno et al. 2006, see http://www.biomedcentral.com/1471-2164/7/64).
+
+<P>Note that some probe sets with very low expression still provide reliable data. For example, probe set 1445621_at (<I>Kbtbd4 </I>) has expression of only 5.1 units (a value that would be declared as "absent" using conventional Affymetrix procedures), but the values for this transcript are associated with a very strong cis QTL with an LRS of 55 (LOD > 10, high D2 allele). This strong linkage is definitely not due to chance since the probability of the expression data mapping precisely to the location of the parent gene itself is about 10e-12. This indicates a high signal to noise ratio and the detection of significant strain variation of the correct transcript.</P>
+
+<P>The <B>standard errors of the mean</B> for the lung data was computed only for 11 strains. The standard error of such small samples tends to systematically underestimate the population standard error. With n = 2 the underestimate is about 25%, whereas for n = 6 the underestimate is 5%. Gurland and Tripathi (1971) provide a correction and equation for this effect (see Sokal and Rohlf, Biometry, 2nd ed., 1981, p 53 for an equation of the correction factor for small samples of n < 20.)
+
+
+<B>Probe (cell) level data from the CEL file: </B>These CEL values produced by <a target="_blank" class="fs14" href="http://www.affymetrix.com/support/technical/product_updates/gcos_download.affx">GCOS</a> are 75% quantiles from a set of 91 pixel values per cell. The CEL files were processed using the <a href="http://rmaexpress.bmbolstad.com/" target="_blank" class="fs14">RMA</a> protocol. Data were processed as a single batch.
+
+
+<UL>
+
+<LI>Step 1: We added an offset of 1.0 unit to each cell signal to ensure that all values could be logged without generating negative values. We then computed the log base 2 of each cell.
+
+<LI>Step 2: We performed a quantile normalization of the log base 2 values for the total set of arrays  using the same initial steps used by the RMA transform.
+
+<LI>Step 3: We computed the Z scores for each cell value.
+
+<LI>Step 4: We multiplied all Z scores by 2.
+
+<LI>Step 5: We added 8 to the value of all Z scores. The consequence of this simple set of transformations is to produce a set of Z scores that have a mean of 8, a variance of 4, and a standard deviation of 2. The advantage of this modified Z score is that a two-fold difference in expression level corresponds approximately to a 1 unit difference.
+
+<LI>Step 6: Finally, when appropriate, we computed the arithmetic mean of the values for the set of microarrays for each strain. Technical replicates were averaged before computing the mean for independent biological samples.
+
+</UL>
+
+
+
+
+
+<P class="subtitle">Data source acknowledgment:</P>
+<Blockquote>
+
+<P>Data were generated with funds provided by a variety of public and private source to members of the Kidney Consortium. We thank the following sources for financial support of this effort:
+<BR>Klaus Schughart: Grant Support: Helmholtz Centre for Infection Research, Helmholtz Association
+<BR>Robert W. Williams: Grant Support: NIH U01AA013499, P20MH062009, U01AA013499, U01AA013513
+
+</Blockquote>
+
+<P class="subtitle">Information about this text file:</P>
+<Blockquote>
+<P>This text file originally generated by Klaus Schughart 3.2.2009.
+</P></Blockquote>
+
+
+
+
+
+</TR></TABLE>
+</TD>
+</TR>
+<TR>
+<TD align=center bgColor=#ddddff class="solidBorder">
+<!--Start of footer-->
+<TABLE width="90%">
+<script language='JavaScript' src='/javascript/footer.js'></script>
+<TR>
+<TD colspan=3 class="fs12">
+<UL>
+
+</UL>
+</TD>
+</TR>
+</TABLE>
+<!--End of footer-->
+</TD>
+</TR>
+</TABLE>
+<!-- /Footer -->
+<!-- menu script itself. you should not modify this file -->
+<script language="JavaScript" src="/javascript/menu_new.js"></script>
+<!-- items structure. menu hierarchy and links are stored there -->
+<script language="JavaScript" src="/javascript/menu_items.js"></script>
+<!-- files with geometry and styles structures -->
+<script language="JavaScript" src="/javascript/menu_tpl.js"></script>
+<script language="JavaScript">
+<!--//
+// Note where menu initialization block is located in HTML document.
+// Don't try to position menu locating menu initialization block in
+// some table cell or other HTML element. Always put it before </body>
+// each menu gets two parameters (see demo files)
+// 1. items structure
+// 2. geometry structure
+new menu (MENU_ITEMS, MENU_POS);
+// make sure files containing definitions for these variables are linked to the document
+// if you got some javascript error like "MENU_POS is not defined", then you've made syntax
+// error in menu_tpl.js file or that file isn't linked properly.
+
+// also take a look at stylesheets loaded in header in order to set styles
+//-->
+
+</script>
+</BODY>
+</HTML>
+
author	root	2012-05-08 18:39:56 -0500
committer	root	2012-05-08 18:39:56 -0500
commit	ea46f42ee640928b92947bfb204c41a482d80937 (patch)
tree	9b27a4eb852d12539b543c3efee9d2a47ef470f3 /web/dbdoc/HZI_0408_R.html
parent	056b5253fc3857b0444382aa39944f6344dc1ceb (diff)
download	genenetwork2-ea46f42ee640928b92947bfb204c41a482d80937.tar.gz