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 Rv2262c/-:

update plot	correlation	link to info on gene
Rv0940c/-	(cc=0.4887)	info on Rv0940c/-
Rv1664/pks9	(cc=0.4783)	info on Rv1664/pks9
Rv0397A/-	(cc=0.4751)	info on Rv0397A/-
Rv1947/-	(cc=0.4718)	info on Rv1947/-
Rv1726/-	(cc=0.469)	info on Rv1726/-
Rv3664c/dppC	(cc=0.4551)	info on Rv3664c/dppC
Rv3150/nuoF	(cc=0.4482)	info on Rv3150/nuoF
Rv3397c/phyA	(cc=0.4447)	info on Rv3397c/phyA
Rv3116/moeB2	(cc=0.44)	info on Rv3116/moeB2
Rv2345/-	(cc=0.4363)	info on Rv2345/-

Correlation of Rv2262c/- with Rv2345/-

Normalized LFCs for Rv2262c/-:
(description and provenance of datasets)

	Rv2262c/-	Rv2345/-
Fe_supp_jason_reseq	-0.979	-0.019
low_pH_jason_reseq	0.082	-0.962
NO_jason_reseq	0.252	-0.053
B6_jason_reseq	-0.033	-0.063
MHCII_jason_reseq	-0.1	0.065
Isoniazid02	-1.061	-1.199
Rifampicin4	0.915	0.509
Ethambutol3	-0.904	-1.019
Meropenem3	-1.549	-1.409
Vancomycin16	-0.517	-0.655
Rv2680_day32	-0.793	-0.466
H37Rv_KO_MarP	0.172	-0.02
hypoxia_3wks	0.439	0.032
hypoxia_6wks	-0.146	0.257
glycerol	0.328	0.192
cholesterol	-0.804	-0.086
AJ	0.061	0.0
Bibs02	-0.221	-0.278
Bibs02c	-1.356	-0.205
BL6	1.454	0.138
BL6a	-0.089	0.118
BXD01	0.885	0.14
BXD010	0.554	0.141
BXD011	0.066	-0.262
BXD03	-0.098	-0.04
BXD04	0.461	0.291
BXD05	0.209	0.374
BXD06	0.323	0.147
BXD07	0.591	0.238
BXD08	0.598	0.434
BXD09	0.207	0.199
CAST	0.374	-0.225
CCcont	0.574	0.024
DS01	0.14	0.0
DS02	0.978	-0.498
DS04	0.85	-0.142
DS0c	0.555	-0.057
GP01	-0.211	0.277
GP02	-0.539	0.072
GP0c	-0.41	0.147
NOD	-0.735	0.265
NZO	-0.605	-0.237
PWK	-0.296	-0.058
H37Rv_KO_CtpC	0.684	0.373
H37Rv_KO_CtpD	-0.298	0.605
H37Rv_KO_Rv1272	0.552	0.291
H37Rv_KO_SugABC	-0.301	0.767
H37Rv_KO_MbtN	0.611	0.628
Trans05	0.788	0.501
macrophage_unactivated	0.193	-0.114
IL1	0.062	0.338
Rapamycin	0.31	0.473
Tcell	0.694	0.039
GMCSF	0.108	0.599
IFNab	0.124	0.311
IFNg	-0.35	0.216
IFNg_GMCSF1	0.031	0.182
Rv1432_day32	-0.147	0.194
Rv1565c_day32	0.466	0.175
secA2_input	-0.631	0.233
delta_Rv3594	-0.281	0.271
delta_Rv3717	-0.257	0.055
delta_Rv3811	0.37	0.352
delta_Rv0954	-0.048	0.371
PonA1	-0.756	-0.321
EccD1_KO	-0.187	0.704
EspI_KO	0.451	0.767
PE35_KO	-0.055	0.429
PPE68_KO	-0.598	0.176
glycerol2	0.165	0.277
lignocerate	-0.212	0.284
oleate	0.242	0.702
phosphatidylcholine	0.261	0.153
acetate	-0.332	-0.462
glucAc	-0.638	-0.232
Rv0950ko	-0.317	0.434
Rv1096ko	0.422	-0.567
Rv3684ko	-0.383	-0.54
delta_otsA_trehalose	1.545	0.582