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 Rv1904/-:

update plot	correlation	link to info on gene
Rv3767c/-	(cc=0.4995)	info on Rv3767c/-
Rv2268c/cyp128	(cc=0.4679)	info on Rv2268c/cyp128
Rv0338c/-	(cc=0.4656)	info on Rv0338c/-
Rv2443/dctA	(cc=0.4579)	info on Rv2443/dctA
Rv1372/-	(cc=0.4402)	info on Rv1372/-
Rv1770/-	(cc=0.4373)	info on Rv1770/-
Rv0320/-	(cc=0.436)	info on Rv0320/-
Rv3839/-	(cc=0.431)	info on Rv3839/-
Rv2090/-	(cc=0.4169)	info on Rv2090/-
Rv2431c/PE25	(cc=0.4042)	info on Rv2431c/PE25

Correlation of Rv1904/- with Rv3767c/-

Normalized LFCs for Rv1904/-:
(description and provenance of datasets)

	Rv1904/-	Rv3767c/-
Fe_supp_jason_reseq	-0.229	0.193
low_pH_jason_reseq	-0.962	-0.873
NO_jason_reseq	-0.675	0.186
B6_jason_reseq	-0.878	-1.172
MHCII_jason_reseq	-0.527	-0.275
Isoniazid02	-0.476	-0.432
Rifampicin4	-0.19	-0.712
Ethambutol3	-0.139	-0.612
Meropenem3	-0.285	-0.315
Vancomycin16	-0.491	-0.154
Rv2680_day32	0.919	1.048
H37Rv_KO_MarP	0.097	0.656
hypoxia_3wks	0.195	0.578
hypoxia_6wks	-0.09	0.43
glycerol	0.336	0.803
cholesterol	2.757	0.445
AJ	0.736	0.0
Bibs02	0.254	0.881
Bibs02c	-0.12	-0.576
BL6	0.867	0.572
BL6a	0.451	0.05
BXD01	0.113	0.448
BXD010	-0.15	1.214
BXD011	0.31	0.379
BXD03	0.358	0.051
BXD04	0.133	0.047
BXD05	0.481	0.387
BXD06	0.367	0.397
BXD07	0.549	0.689
BXD08	-0.413	0.409
BXD09	0.478	0.277
CAST	0.355	-0.347
CCcont	-0.517	0.555
DS01	-0.034	-0.221
DS02	0.555	0.958
DS04	-0.687	-0.076
DS0c	-0.077	0.517
GP01	0.336	0.107
GP02	0.741	-0.846
GP0c	-0.042	0.323
NOD	0.952	0.535
NZO	0.572	0.263
PWK	0.399	0.344
H37Rv_KO_CtpC	0.487	0.795
H37Rv_KO_CtpD	0.476	0.537
H37Rv_KO_Rv1272	0.993	1.329
H37Rv_KO_SugABC	-0.662	0.685
H37Rv_KO_MbtN	0.325	0.665
Trans05	0.138	1.657
macrophage_unactivated	0.335	1.042
IL1	-0.214	0.572
Rapamycin	0.381	0.325
Tcell	0.163	-0.228
GMCSF	0.689	-0.631
IFNab	0.012	0.689
IFNg	0.361	0.703
IFNg_GMCSF1	0.6	1.037
Rv1432_day32	0.321	1.914
Rv1565c_day32	0.145	0.813
secA2_input	-0.352	-0.216
delta_Rv3594	-0.531	-0.148
delta_Rv3717	-0.122	-0.813
delta_Rv3811	-0.22	0.077
delta_Rv0954	-0.771	-0.298
PonA1	0.067	0.23
EccD1_KO	-0.059	-1.036
EspI_KO	0.362	-0.137
PE35_KO	-0.321	-0.286
PPE68_KO	-1.005	-1.008
glycerol2	-0.21	-0.27
lignocerate	-0.242	-0.22
oleate	0.102	0.145
phosphatidylcholine	-0.22	-0.091
acetate	-0.342	-0.465
glucAc	-0.079	-0.429
Rv0950ko	0.7	0.0
Rv1096ko	-0.802	-0.944
Rv3684ko	-0.691	0.567
delta_otsA_trehalose	2.548	2.161