Half life values for enzymes of redox and polyamine pathways as provided by Alejandro

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File name:	Half life values for enzymes of redox and polyamine pathways as provided by Alejandro

Description:	The file contains the normalized relative read counts (RPM) of 2 mRNA decay experiments. Columns in blue correspond to experiment 1, columns in violet correspond to experiment 2. The time points are in column headers. The last 3 columns contain parameters and half lives calculated from an exponantial fit of all data points. Normalization was done in 2 steps :first by calculating RPM i.e. reads per million of aligned reads to unique ORFs, second by normalizing this to the total amount of mRNA detected according to northern blot hibridization signal to the splice leader sequence. After that, all time point data were calculated in reference to time point 0.

Remarks:	Experiment 2 is missing time point 60. We discarded this reading since it did not correlate well with it's replicate and showed other indications of being erroneous. Two more measurements will be done, one foreach time points 60 and 120, thus the current file is only preliminary.

Creator:	Abeer Fadda

Technology:	Illumina HiSeq mRNA sequencing

SOP:	Sample preparation for mRNA decay study by Federico Rojas

Gene name	Description	0	5	10	20	30	60	120	0	5	10	20	30	120			HL (min)
Tb09.160.2020	thioredoxin	1	0.4542044233513446	0.1335494095276224	0.12439319187691719	0.09934631969293366	0.07008292985489845	0.014105203013732158	1	0.4271069113909507	0.2503968224485119	0.22190149626370242	0.0967956824834642	0.04631084028513753	0.3804952279908643	-0.024888493295298002	27.85010616496003
Tb09.160.2210	glutaredoxin-like protein	1	0.6423997991206769	0.4767771190660933	0.1876898013028651	0.14237275877493125	0.012201246999425026	0.08254853980168216	1	0.8888242104290992	0.5370490181473813	0.37199320276429004	0.18743163971798069	0.027400580502039706	0.5678606441661213	-0.02639444485244342	26.26110094131335
Tb09.160.4250	tryparedoxin peroxidase	1	0.9741947768646665	0.7546020116952499	0.8333498705084966	0.8810776216007719	0.24759852213059946	0.03493541241927295	1	0.861534629219368	0.8997490699323661	0.9837272185583062	0.9283199586682425	0.01764330061594752	1.3404430763287631	-0.03153183218188783	21.982458125541317
Tb09.v1.0380	spermidine synthase	1	0.8619645259433869	0.7753357999444764	0.5495798206707588	0.36126107049769557	0.016556329715667065	0.014893723214332218	1	0.7552101134364895	0.738552631688722	0.5783087605999466	0.3446163746137475	0.013047895477161764	0.9725564713696743	-0.03837610861100958	18.061945456374147
Tb11.01.5300	ornithine decarboxylase	1	0.8708620893585223	0.9657726525328677	0.7696062378838203	0.17901784423640643	0.03749129278962867	0.014510893823049587	1	0.5031610805401922	0.4958294605810083	0.4235216729764213	0.14107757828235104	0.03535558774456736	0.7758568987739041	-0.03237389822404323	21.410680164712552
Tb11.01.7560	glutathione peroxidase, putative	1	0.6097030496943907	0.35089210010269656	0.11088819394224804	0.04678032867509053	0.1363074221000855	0.021234847049576285	1	0.7266558848971698	0.35782342529983313	0.04450566732972562	0.10589358176157099	0.11145998848287336	0.37062512954726895	-0.02010179555510432	34.48185405427322
Tb11.02.5720	ribonucleoside-diphosphate reductase large chain	1	0.8243147370419067	0.9528340976768613	0.620401062785857	0.3422387534712336	0.04723886435183917	0.012754361505323811	1	0.8446407368369319	0.7261507851006845	0.5085242622709848	0.27894755770234675	0.021997649135440323	0.9936123591448084	-0.035769541394240226	19.378139991237322
Tb11.12.0016	glutathionylspermidine synthetase, putative	1	0.6234893288435315	0.2219486858982917	0.17036458887490832	0.059373762921746696	0.01625520971213721	0.011576416617349653	1	0.7518905085422631	0.4444543598461086	0.24382747744213965	0.07437763480872248	0.019571843215742648	0.47335029225099656	-0.033642448039202764	20.60335144910492
Tb11.47.0012	glutaredoxin, putative	1	0.6151960444018773	0.31652093043438423	0.4257787481385993	0.42190127368898833	0.053839095516316104	0.01533696115978835	1	0.8673806336526856	0.7424640803880846	0.6110812710088364	0.6564426091505313	0.015152394747671726	0.9260710210093749	-0.034876484160901604	19.8743421889125
Tb11.v4.0004	Ribonucleotide reductase R2 subunit	1	0.6618680920209304	0.7540153240650636	0.46016178981621886	0.26211647074664574	0.046484243951028355	0.028874974237020085	1	0.8241498765960291	0.6143957676464273	0.4669462942548611	0.31863641566220374	0.0860252410200295	0.7704697211382491	-0.025750376577378	26.917943451315697
Tb11.v4.0005	Ribonucleotide reductase R2 subunit	1	0.6534982493096837	0.7772453602822571	0.47484862038324943	0.2701206761730164	0.04714318018912541	0.03282703201453162	1	0.7775669130446937	0.5936783744521129	0.4598873137234813	0.3128848558127055	0.07721308862312218	0.7649357905191186	-0.02556160109646961	27.116735682714253
Tb11.v4.0006	Ribonucleotide reductase R2 subunit	1	0.6613167308438345	0.7671343886963112	0.45209247616352205	0.26531180450439157	0.045964524813436505	0.03216902392606562	1	0.8292810442712113	0.5993813543580466	0.48929300976562956	0.3085801103239417	0.08085143723868202	0.7688254365046268	-0.025588711349762507	27.088006546542193
Tb11.v4.0007	Ribonucleotide reductase R2 subunit	1	0.6952080565518081	0.8767241479161458	0.48226627870493727	0.2976097493796967	0.04667117214761436	0.03748246918276365	1	0.7813179552845908	0.618841556385662	0.4527867488655026	0.2886196646367832	0.06929997477647074	0.7850189629409962	-0.02574232958535837	26.926357937480184
Tb927.1.1770	dithiol glutaredoxin 2 (2-C-Grx2)	1	0.6442368599019193	0.5434485019398763	0.10935462088034703	0.1724024672938161	0.03970046863786058	0.0047165932124013975	1	2.7345501071900395	1.1966136882148095	0.20204406962950727	0.09615655147202601	0.12655636419292804	0.7014906501498798	-0.03213298764052328	21.571202413989337
Tb927.10.10390	trypanothione reductase	1	0.8226747695251075	0.7575856429937611	0.6545314295984319	0.34074563903817756	0.039910316020976395	0.021441755415964693	1	0.7717056809664413	0.7834346397836071	0.6591600688052778	0.37366344269336793	0.022551918108674657	0.9809073799353518	-0.033680331660698413	20.580176808911265
Tb927.10.10420	monothiol glutaredoxin, putative	1	0.49747286031255095	0.2846658894288238	0.26838257151526657	0.11281215105722457	0.09861281821453104	0.06086491711404973	1	0.4100688398750169	0.39216561162891933	0.28317821663717574	0.12250433968495467	0.16117988530611593	0.42932087899316923	-0.015324519194572877	45.23125141866903
Tb927.10.12370	gamma-glutamylcysteine synthetase	1	1.2101921602427246	1.0362864357597685	0.6890542288889605	0.3367550491368081	0.128385095815606	0.16653607526869704	1	0.6904139794434179	0.33476530308921637	0.201987259419524	0.14417818439844665	0.06323210885086085	0.6839764961323805	-0.018381052195110995	37.70987499531224
Tb927.2.4370	trypanothione synthetase evidence%3Dinferred from sequence orthology	1	0.7606122292838956	0.570051827649338	0.25530394703058606	0.10504955191525223	0.01941064339861861	0.017013675001905048	1	0.9237416445947819	0.6910244464038436	0.29227485064415215	0.05298420910755637	0.09875827601441872	0.55999203087543	-0.02759054502061253	25.122634585221284
Tb927.3.3760	tryparedoxin	1	0.9121997911550773	1.3649039412477875	1.0714353881247694	0.8341901531429651	0.3727810037600264	0.0068072349048078585	1	0.8100854682935168	0.8632927124256375	0.8864156451921177	0.8473705867489545	0.0036916949778197207	1.729705916457972	-0.04474065480441498	15.492557799836804
Tb927.3.3780	Tryparedoxin	1	0.8994726060357067	1.0926705640749994	1.2441012659719448	0.5463595403976061	0.30823208956998766	0.004469154429702891	1	0.8106001135724318	0.8515381572242974	0.9086166885592211	0.8654341948637104	0.002228107381197061	1.7375679981328551	-0.04858329890589404	14.26719049899376
Tb927.3.4240	thioredoxin, putative	1	0.5865610206817105	0.41431401465350187	0.4085036463485541	0.1615642141571587	0.25107307177018473	0.12292901725235447	1	1.4167217016327198	0.6810187771835534	0.38116950567877916	0.4030787950924315	0.10606676323370208	0.6987036879068659	-0.016517781229802738	41.96369784274126
Tb927.3.5090	tryparedoxin, putative	1	0.8378356042690235	0.3358420167818446	0.23474755913867817	0.09211506462009973	0.005834841523534561	0.003462815797151921	1	0.7331748050868835	0.49809540327581125	0.23391053317835678	0.06463159990275195	0.009448476035186103	0.5924817086579381	-0.04411171369281168	15.713449388680145
Tb927.4.1350	glyoxalase II	1	0.5285736627734486	0.2701016566725876	0.22305342492468538	0.12029463852862096	0.040757173274795555	0.0711134439055874	1	0.5327650702869879	0.4676616286355414	0.19527565744514105	0.13444463608462748	0.02081056746990357	0.47172825163620596	-0.02451775382063948	28.271235025471285
Tb927.4.2450	thioredoxin, putative	1	0.8015517672228396	0.7792710378692259	0.7215131898302266	0.8567051220319356	0.22955914343016284	0.04097004725607443	1	0.8721239643041265	0.8258129024280516	0.9442588113886622	0.7760739431607411	0.010296669082186112	1.2838681567216685	-0.032747889739325235	21.166163257462692
Tb927.5.950	thioredoxin-like protein	1	1.0108827084702205	0.6576518352523381	0.23445259111707611	0.10162562138641594	0.023950425111914832	0.009303649973867829	1	0.7988422593101725	0.6437911864723675	0.24793285920164745	0.11798272028027394	0.007055943476920096	0.7296383485095917	-0.04094726794230234	16.927800446580214
Tb927.5.950	monothiol glutaredoxin 3 (1-C-Grx3)	1	1.010728723803311	0.65603187307956	0.17388731859242557	0.13541397711759284	0.021822244485763	0.008555514768032187	1	0.7976926719883721	0.6417798783467359	0.24341085112692787	0.1131497351373409	0.007091520407362346	0.722226090320995	-0.04122248588494503	16.814783623058776
Tb927.6.4410	S-adenosylmethionine decarboxylase	1	0.49643728179456614	0.408097108578205	0.212368832432576	0.06787957592042762	0.07081224037656551	0.036953097049233885	1	0.42480568880802533	0.258844158433103	0.2461719724175449	0.08874604153313478	0.03269387446266101	0.4324306394477793	-0.024035851978491004	28.83805330388217
Tb927.6.4470	prozyme ,S-adenosylmethionine decarboxylaseregulator	1	0.8600837311541805	1.3105187099177202	0.6883137005658342	0.25955260255312773	0.029750076968690496	0.02732009141886759	1	0.7664903242421132	0.5501740862172704	0.4270167547437025	0.20016971232017355	0.007980751602535837	0.9362182836574031	-0.037243203570634834	18.611373730117872
Tb927.6.4840	S-adenosylmethionine synthetase, putative	1	0.7174325353691778	0.5748417126307651	0.18643744569609508	0.05474282544238945	0.03294194350381023	0.022456920140230686	1	0.7556381677517976	0.4386062761639229	0.1886454693894449	0.05918893885830968	0.03201541511290955	0.4915133729659633	-0.02903953647879634	23.869085550523756
Tb927.7.1120	Glutathione peroxidase-type tryparedoxin peroxidase 1 (cytosolic)	1	0.958518044646933	0.7736579663968188	0.6327154913516075	0.30895274749717017	0.12928986508909515	0.014443186439045883	1	1.0382485433018347	0.8245355778307826	0.611259772991191	0.5451540719672452	0.016974962419635337	1.146594201743743	-0.035635367467275636	19.451102368916786
Tb927.7.1130	Glutathione peroxidase-type tryparedoxin peroxidase 2 (cytosolic)	1	0.8682979235458539	0.738583590823405	0.46076583328574	0.26340357696088207	0.08272747644163504	0.014115246923019437	1	0.8326657765838184	0.7374089955385381	0.5605732520112799	0.47889733478224716	0.01737048135981365	1.0017758847652118	-0.03531331807974783	19.628491975594468
Tb927.7.1140	Glutathione peroxidase-type tryparedoxin peroxidase 3 (mitochondrial)	1	0.888372472850356	0.5795327963569185	0.40775722902685724	0.22900920405783287	0.06394397006807863	0.0191277316660458	1	0.7594091164549427	0.6947557067965985	0.5280793946211226	0.43422274296314894	0.03117283075910017	0.8693093609759939	-0.0313975142383547	22.07649864565418
Tb927.7.4000	glutathione synthetase, putative	1	0.5420558600258082	0.3889883905133945	0.2121439607336851	0.09375879512517085	0.0634196116801965	0.04603389000376472	1	0.6311735251589787	0.32032746655575395	0.12419486896741004	0.07317151100101348	0.02221668689354571	0.44438500195373987	-0.02528602324450096	27.412265418631474
Tb927.8.1910	acetylornithine deacetylase, putative ,metallo-peptidase, Clan MH, Family M18	1	0.6348924960270766	0.5422232502851483	0.22879007762411818	0.15370869565141418	0.06991184927136404	0.06534790563966726	1	0.6070532507075964	0.4362513431375395	0.246722692713781	0.24739299202149573	0.06068584943404767	0.5557445015446225	-0.021145942076742252	32.779205487482905
Tb927.8.1990	peroxidoxin	1	0.9222650606113464	1.1446005508466595	1.0666092455348846	1.0517435744901136	0.9181850402629121	0.19243482555487904	1	0.9019472301752985	0.8156445796976644	0.9140728218850669	0.9334245005875531	0.12117388190145048	1.206595249695688	-0.015306895176011887	45.28332967525687