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cyano.txt sample file for Bio.Cluster documentation.

Browse Source 
Files as distributed in C Clustering Library version 1.52a
http://bonsai.hgc.jp/~mdehoon/software/cluster/cluster-1.52a.tar.gz
This commit is contained in:
Michiel de Hoon
2017-05-05 16:35:37 +01:00
committed by Peter Cock
parent 4ff6e9a5cf
commit 27cbe96534
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The file cyano.txt contains the gene expression data, after preprocessing and
linear spline fitting, of a time-course cDNA microarray experiment of the
cyanobacterium Synechocystis sp PCC 6803 under high light conditions.
This experiment is described in
Yukako Hihara, Ayako Kamei, Minoru Kanehisa, Aaron Kaplan, and Masahiko Ikeuchi:
"DNA Microarray Analysis of Cyanobacterial Gene Expression during Acclimation to
High Light", The Plant Cell, Volume 13, pp. 793-806, April 2001.
The k-means clustering result applied to these data was published in
M.J.L. de Hoon, S. Imoto, S. Miyano:
"Statistical analysis of a small set of time-ordered gene expression data using
linear splines", Bioinformatics, Volume 18, no. 11, pp. 1477-1485,
November 2002.

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gene 0 15min 1hour 6hours 15hours
sll0617 0.0 -0.141164092921 -0.564656371686 -0.219393769051 -0.582969948517
slr0452 0.0 -0.124988599702 -0.499954398807 0.195680498436 0.0781478593432
slr1513 0.0 0.788547158236 0.228594792282 0.255819396258 0.304823683415
sll1471 0.0 -0.770355431265 -1.10115338201 -1.00607440632 -0.834932250086
sll1694 0.0 -0.328239937586 -2.16037133914 -1.184544471 -1.36760041273
sll0430 0.0 2.57611845993 0.920296714116 0.331897478085 0.353984672049
sll0851 0.0 -0.260488607867 -1.04195443147 -0.870951657169 -0.563146663432
sll1260 0.0 0.488375211397 1.03336768086 1.05808458732 1.10257501897
sll1031 0.0 2.22636090218 1.2737708006 1.22441048661 1.13556192142
sll1097 0.0 0.623623937789 1.50986566464 1.39858048748 1.19826716858
slr1853 0.0 -0.625110852947 -0.579158937711 -0.272812836139 0.27861014669
slr1856 0.0 -1.48647925428 -1.15482923751 -0.78849128943 -0.129082982895
sll1807 0.0 -0.00351865963644 1.6220065 1.2103168781 1.40663921545
slr1280 0.0 1.68363550419 0.570482993127 0.452252082077 0.239436442188
sll1578 0.0 -2.08646119875 -4.16618882331 -2.95371220804 -0.771254300567
sll0927 0.0 1.53540350362 0.994485177541 1.06558243705 1.19355750417
sll1028 0.0 2.66231034349 1.02053065748 1.07291269701 1.16720036816
sll0170 0.0 2.49313251019 0.836378625633 -0.181000866758 -0.0686024829202
sll0020 0.0 0.622961311166 0.107769339289 0.00823295222619 -0.170932544487
slr1128 0.0 -0.586091367103 -0.97123113608 -0.33489639532 -0.721672688608
slr1687 0.0 1.53531583449 0.508364720306 0.226540131559 -0.280744128185
slr1986 0.0 -2.46180941179 -3.32064191349 -1.63229875815 -0.376249913875
sll1091 0.0 -2.22018219109 -2.1088225644 -1.36642505311 -0.0301095327889
slr0011 0.0 1.73715425472 0.482870189015 0.589476956697 0.781369138524
sll1816 0.0 0.142823046786 1.37138583483 1.04715754859 1.22776365079
slr1655 0.0 -2.29708296628 -2.79999101137 -2.20032491329 -1.12092593675
slr0839 0.0 0.36757936343 0.316678106928 -0.022663603088 -0.633478681117
sll0262 0.0 0.792040285896 0.692818192651 0.0313375710134 0.309366941681
slr1641 0.0 2.89423066687 0.551559514181 -0.150705464209 -0.21442787406
sll0854 0.0 0.609090206082 0.545338052749 0.120323697197 0.223173714031
slr0151 0.0 -0.989349574879 -0.964206703429 -0.796587560432 -0.494873103037
slr0476 0.0 1.51215261659 0.0821117222648 0.0400809926852 -0.035574320558
sll1614 0.0 0.702656762339 0.0659783997373 0.12124636938 0.220728714738
slr0374 0.0 -0.735627268934 -1.18538074714 -1.38437562074 -1.74256639322
slr0737 0.0 -1.95828768621 -3.25510704118 -2.25413896187 -1.64370116412
slr1718 0.0 0.27148722 0.266555463231 0.233677084773 0.174496003548
slr1604 0.0 2.1572537861 0.725639316761 0.422501046212 -0.123147840775
sll1002 0.0 0.508059527897 0.0824733876347 -0.0882211947902 -0.395471443155
sll0814 0.0 1.8783237838 1.05679078007 0.703832500504 0.0685075972789
sll0521 0.0 1.24736478909 0.245331279252 -0.260997955485 0.203910618354
slr2051 0.0 -2.30444924968 -2.88255028204 -2.19877779485 -0.967987317903
sll1802 0.0 0.654022904601 1.52846049032 1.32249540635 1.58960701188
sll0519 0.0 0.71144846192 0.130603846991 -0.169447274526 0.227932117511
sll1799 0.0 0.772806717851 1.2614816942 1.36702488224 1.55700262072
sll0416 0.0 2.17493062772 1.83773620171 1.00316264737 0.89958779106
slr1459 0.0 -1.84683738354 -1.76706597763 -1.23525660491 -0.277999734026
sll0414 0.0 0.509743056433 0.0513699916594 0.0972244284813 0.179762414761
sll1580 0.0 -2.66568327835 -4.75038508692 -3.05542980829 -1.50909884887
sll1214 0.0 -1.77089540875 -1.69909446506 -1.22042150714 -0.358810182876
sll1096 0.0 1.11463877184 1.76808187333 1.6898020583 1.54889839125
sll1809 0.0 -0.308925470579 1.25214953341 0.755536551289 0.934592129992
slr1793 0.0 -0.188658422905 -0.75463369162 -0.551734332459 -0.652770294667
sll0185 0.0 0.475723926868 1.17385783916 0.25580017747 -0.398252652408
ssl3093 0.0 -1.74156851194 -1.68999525836 -1.34617356779 -0.727294524774
sll1577 0.0 -2.69307453928 -4.01652450572 -2.10165498881 -0.913595745519
sll1801 0.0 0.424986483758 1.69994593503 1.17676212936 1.42075516304
sll1626 0.0 -1.29747066365 -1.42816324407 0.229661068119 0.402910409671
sll0587 0.0 0.101731075535 0.406924302139 0.293220382758 0.0885533278713
sll1745 0.0 -0.481145108669 1.54524431132 1.08885362403 1.32807145143
slr1557 0.0 -0.233123792905 0.38207343775 0.251423195029 0.0162527581309
sll0144 0.0 0.126487813486 0.505951253942 0.577427967822 0.706086052805
ssr2554 0.0 0.13615218811 0.544608752441 0.510697496813 0.449657236683
ssl1533 0.0 -0.976223092984 -1.79120966623 -1.50978457116 -1.00321940003
sll1029 0.0 2.15885601259 1.43436207323 1.39960209915 1.33703414581
slr1834 0.0 -1.22814786087 -4.9125914435 -2.29625008403 -1.3861063113
slr1963 0.0 2.74242625203 2.03564274259 1.1817718736 0.708083394055
slr0642 0.0 0.515146959875 0.216658153529 0.175698434146 0.101970939255
slr1469 0.0 0.15989040024 0.639561600959 0.651815247578 0.673871811492
slr1348 0.0 -0.341259875426 -1.3650395017 -1.48360163296 -0.771117544254
sll0680 0.0 0.468061810654 0.47893279739 0.551406042302 0.681857883143
slr1350 0.0 1.40748598766 0.243441801508 0.297824411515 0.395713109526
slr2067 0.0 -2.32952202122 -3.00737597353 -1.21052938382 -0.165886542092
sll0901 0.0 -0.58063741361 -0.550767565801 -0.351635247076 0.0068029266283
sll1327 0.0 -0.244114184609 0.309923760626 0.433468520609 0.655849088579
slr1237 0.0 0.170112231199 0.680448924797 0.452827162876 0.819425110497
slr0208 0.0 0.989182216723 0.552781664868 0.494996312133 0.390982677209
sll0258 0.0 -1.50076873955 -1.79981911592 -0.640454228214 -0.249419331693
slr2075 0.0 2.42821403418 2.3071326893 1.49992372341 1.47640034609
sll0819 0.0 -2.37808970042 -3.52413199514 -1.84434038376 -1.09948837995
sll1306 0.0 -1.42003698886 -1.37616377635 -1.08367569294 -0.557197142809
sll1712 0.0 -0.86615483627 -0.909858951035 0.101616387622 0.276541138336
sll1743 0.0 -0.0641585219021 1.74757738748 1.27941498138 1.53167033547
sll1579 0.0 -3.24384564456 -4.79909291932 -2.53482033158 -1.30738786253
slr0329 0.0 -1.21518493475 -1.18796085587 -1.00646699667 -0.679778050107
slr1545 0.0 -1.37596809732 -1.20718375614 -0.0819548149425 -0.311131980425
sll0322 0.0 1.31871339578 1.31043011048 1.25520820851 1.15580878497
sll1810 0.0 -1.07577613026 1.36721436079 1.27154453167 1.09933883926
sll1804 0.0 -0.355404076657 1.82391138426 1.66569445792 1.38090399051
slr1835 0.0 -0.852039667525 -3.4081586701 -1.87136872275 -1.14231721195
slr1855 0.0 -2.94512669297 -2.66557104831 -0.801866750577 -0.264637777028