TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0443/-:

update plot	correlation	link to info on gene
Rv3435c/-	(cc=0.5662)	info on Rv3435c/-
Rv0572c/-	(cc=0.5626)	info on Rv0572c/-
Rv3077/-	(cc=0.532)	info on Rv3077/-
Rv0551c/fadD8	(cc=0.5279)	info on Rv0551c/fadD8
Rv2787/-	(cc=0.5235)	info on Rv2787/-
Rv3406/-	(cc=0.5187)	info on Rv3406/-
Rv0754/PE_PGRS11	(cc=0.4883)	info on Rv0754/PE_PGRS11
Rv2086/-	(cc=0.4875)	info on Rv2086/-
Rv0342/iniA	(cc=0.469)	info on Rv0342/iniA
Rv2679/echA15	(cc=0.4687)	info on Rv2679/echA15

Correlation of Rv0443/- with Rv0342/iniA

Normalized LFCs for Rv0443/-:
(description and provenance of datasets)

	Rv0443/-	Rv0342/iniA
Fe_supp_jason_reseq	-1.07	-0.583
low_pH_jason_reseq	-0.992	-0.781
NO_jason_reseq	0.16	0.795
B6_jason_reseq	-0.502	0.252
MHCII_jason_reseq	0.258	0.5
Isoniazid02	-0.627	-2.219
Rifampicin4	0.227	0.33
Ethambutol3	-0.689	-2.382
Meropenem3	-0.012	-1.242
Vancomycin16	-0.172	-0.7
Rv2680_day32	-0.776	-0.18
H37Rv_KO_MarP	0.395	0.368
hypoxia_3wks	-0.295	-0.112
hypoxia_6wks	-0.144	-0.535
glycerol	0.553	0.532
cholesterol	0.29	0.446
AJ	0.158	0.765
Bibs02	0.087	0.009
Bibs02c	0.562	-0.656
BL6	0.1	-0.238
BL6a	0.175	-0.331
BXD01	0.004	-0.119
BXD010	0.329	-0.076
BXD011	-0.44	0.106
BXD03	0.317	0.207
BXD04	0.387	0.058
BXD05	-0.138	0.414
BXD06	-0.28	0.387
BXD07	-0.296	-0.097
BXD08	-0.211	0.05
BXD09	-0.376	-0.062
CAST	0.402	0.322
CCcont	0.14	-0.276
DS01	0.007	-0.477
DS02	0.402	0.221
DS04	0.526	-0.646
DS0c	0.135	0.489
GP01	0.036	0.527
GP02	1.148	0.28
GP0c	0.277	0.068
NOD	1.097	0.042
NZO	0.22	0.549
PWK	0.372	0.517
H37Rv_KO_CtpC	0.201	0.207
H37Rv_KO_CtpD	-0.256	-0.05
H37Rv_KO_Rv1272	-0.224	0.588
H37Rv_KO_SugABC	-0.028	0.512
H37Rv_KO_MbtN	-0.392	0.24
Trans05	-0.004	0.793
macrophage_unactivated	-0.417	-0.429
IL1	-0.16	-0.35
Rapamycin	-0.623	0.147
Tcell	-0.248	-0.081
GMCSF	0.639	-0.312
IFNab	-0.417	0.239
IFNg	0.425	-0.155
IFNg_GMCSF1	-0.101	0.176
Rv1432_day32	0.24	0.186
Rv1565c_day32	0.401	0.39
secA2_input	0.567	0.564
delta_Rv3594	-0.037	-0.509
delta_Rv3717	0.0	-0.352
delta_Rv3811	-0.132	-0.495
delta_Rv0954	-0.109	-0.351
PonA1	0.139	-0.163
EccD1_KO	0.145	0.023
EspI_KO	-0.248	-0.522
PE35_KO	-0.405	-0.292
PPE68_KO	-0.541	-0.659
glycerol2	0.335	0.423
lignocerate	0.71	0.66
oleate	0.293	0.461
phosphatidylcholine	0.371	0.391
acetate	0.336	0.632
glucAc	0.532	0.381
Rv0950ko	0.157	0.286
Rv1096ko	0.507	0.531
Rv3684ko	-0.662	0.311
delta_otsA_trehalose	2.564	1.165