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 Rv1155/-:

update plot	correlation	link to info on gene
Rv0435c/-	(cc=0.4411)	info on Rv0435c/-
Rv3649/-	(cc=0.4171)	info on Rv3649/-
Rv1251c/-	(cc=0.4156)	info on Rv1251c/-
Rv0333/-	(cc=0.3964)	info on Rv0333/-
Rv3700c/-	(cc=0.3835)	info on Rv3700c/-
Rv2326c/-	(cc=0.3808)	info on Rv2326c/-
Rv2585c/-	(cc=0.3741)	info on Rv2585c/-
Rv1031/kdpC	(cc=0.354)	info on Rv1031/kdpC
Rv0063/-	(cc=0.3532)	info on Rv0063/-
Rv0532/PE_PGRS6	(cc=0.3515)	info on Rv0532/PE_PGRS6

Correlation of Rv1155/- with Rv3649/-

Normalized LFCs for Rv1155/-:
(description and provenance of datasets)

	Rv1155/-	Rv3649/-
Fe_supp_jason_reseq	-0.442	0.332
low_pH_jason_reseq	-0.524	-0.527
NO_jason_reseq	-0.074	0.286
B6_jason_reseq	0.665	1.045
MHCII_jason_reseq	0.712	1.194
Isoniazid02	0.263	0.469
Rifampicin4	0.057	1.243
Ethambutol3	0.863	1.043
Meropenem3	0.93	0.936
Vancomycin16	0.592	0.95
Rv2680_day32	-0.708	-0.617
H37Rv_KO_MarP	0.042	-0.731
hypoxia_3wks	0.128	0.223
hypoxia_6wks	-0.15	0.077
glycerol	-0.294	0.426
cholesterol	0.302	0.791
AJ	0.124	0.035
Bibs02	0.666	1.252
Bibs02c	0.582	0.621
BL6	0.348	0.773
BL6a	0.291	-0.032
BXD01	-0.28	0.387
BXD010	-0.077	0.588
BXD011	0.064	-0.082
BXD03	-0.261	-0.204
BXD04	0.295	-0.039
BXD05	-0.259	0.041
BXD06	0.473	0.041
BXD07	0.079	0.042
BXD08	0.591	-0.13
BXD09	0.347	-0.29
CAST	0.257	-0.265
CCcont	-0.229	0.257
DS01	-0.284	0.672
DS02	0.039	0.999
DS04	1.583	1.148
DS0c	0.039	0.767
GP01	-0.756	-0.204
GP02	-0.04	-0.386
GP0c	0.019	0.503
NOD	0.854	-0.107
NZO	0.325	-0.095
PWK	0.25	0.119
H37Rv_KO_CtpC	-0.357	-1.203
H37Rv_KO_CtpD	-0.392	0.0
H37Rv_KO_Rv1272	-1.145	0.146
H37Rv_KO_SugABC	0.734	0.117
H37Rv_KO_MbtN	0.228	0.42
Trans05	0.028	0.52
macrophage_unactivated	0.376	-0.537
IL1	-0.05	0.0
Rapamycin	-0.313	0.0
Tcell	-0.081	0.13
GMCSF	0.372	0.401
IFNab	0.218	-0.06
IFNg	0.377	-0.337
IFNg_GMCSF1	0.572	0.305
Rv1432_day32	0.16	0.329
Rv1565c_day32	0.43	-0.463
secA2_input	-0.504	-0.049
delta_Rv3594	-0.024	0.263
delta_Rv3717	-0.32	1.061
delta_Rv3811	0.556	0.97
delta_Rv0954	0.079	0.249
PonA1	-0.15	0.199
EccD1_KO	0.217	1.043
EspI_KO	0.143	-0.148
PE35_KO	0.216	0.487
PPE68_KO	0.109	0.314
glycerol2	0.129	-0.321
lignocerate	-0.413	-0.363
oleate	-1.049	-0.027
phosphatidylcholine	-0.585	-0.258
acetate	0.705	-0.271
glucAc	0.7	0.726
Rv0950ko	0.262	0.443
Rv1096ko	0.745	1.212
Rv3684ko	-0.599	0.704
delta_otsA_trehalose	-1.441	-0.564