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 Rv2585c/-:

update plot	correlation	link to info on gene
Rv1035c/-	(cc=0.5171)	info on Rv1035c/-
Rv1773c/-	(cc=0.495)	info on Rv1773c/-
Rv0825c/-	(cc=0.4934)	info on Rv0825c/-
Rv1587c/-	(cc=0.4886)	info on Rv1587c/-
Rv0402c/mmpL1	(cc=0.4785)	info on Rv0402c/mmpL1
Rv3509c/ilvX	(cc=0.456)	info on Rv3509c/ilvX
Rv3649/-	(cc=0.4399)	info on Rv3649/-
Rv0646c/lipG	(cc=0.4322)	info on Rv0646c/lipG
Rv3695/-	(cc=0.4307)	info on Rv3695/-
Rv1767/-	(cc=0.4245)	info on Rv1767/-

Correlation of Rv2585c/- with Rv3649/-

Normalized LFCs for Rv2585c/-:
(description and provenance of datasets)

	Rv2585c/-	Rv3649/-
Fe_supp_jason_reseq	0.229	0.332
low_pH_jason_reseq	-1.047	-0.527
NO_jason_reseq	-0.798	0.286
B6_jason_reseq	0.492	1.045
MHCII_jason_reseq	0.212	1.194
Isoniazid02	0.028	0.469
Rifampicin4	0.615	1.243
Ethambutol3	0.924	1.043
Meropenem3	0.945	0.936
Vancomycin16	0.127	0.95
Rv2680_day32	0.151	-0.617
H37Rv_KO_MarP	-0.913	-0.731
hypoxia_3wks	-0.514	0.223
hypoxia_6wks	-0.505	0.077
glycerol	-0.092	0.426
cholesterol	0.846	0.791
AJ	0.519	0.035
Bibs02	0.616	1.252
Bibs02c	0.358	0.621
BL6	0.356	0.773
BL6a	0.505	-0.032
BXD01	0.008	0.387
BXD010	0.812	0.588
BXD011	0.672	-0.082
BXD03	0.487	-0.204
BXD04	0.17	-0.039
BXD05	0.746	0.041
BXD06	0.481	0.041
BXD07	0.367	0.042
BXD08	0.305	-0.13
BXD09	0.441	-0.29
CAST	0.143	-0.265
CCcont	-0.558	0.257
DS01	0.217	0.672
DS02	0.109	0.999
DS04	0.617	1.148
DS0c	-0.099	0.767
GP01	0.3	-0.204
GP02	0.091	-0.386
GP0c	-0.276	0.503
NOD	0.628	-0.107
NZO	0.298	-0.095
PWK	1.131	0.119
H37Rv_KO_CtpC	-1.125	-1.203
H37Rv_KO_CtpD	-0.715	0.0
H37Rv_KO_Rv1272	-0.278	0.146
H37Rv_KO_SugABC	0.296	0.117
H37Rv_KO_MbtN	0.583	0.42
Trans05	0.476	0.52
macrophage_unactivated	0.316	-0.537
IL1	-0.374	0.0
Rapamycin	-0.246	0.0
Tcell	-0.632	0.13
GMCSF	1.17	0.401
IFNab	0.351	-0.06
IFNg	0.436	-0.337
IFNg_GMCSF1	1.144	0.305
Rv1432_day32	1.643	0.329
Rv1565c_day32	0.433	-0.463
secA2_input	-0.719	-0.049
delta_Rv3594	0.805	0.263
delta_Rv3717	0.75	1.061
delta_Rv3811	0.516	0.97
delta_Rv0954	0.185	0.249
PonA1	0.369	0.199
EccD1_KO	0.628	1.043
EspI_KO	0.408	-0.148
PE35_KO	-0.327	0.487
PPE68_KO	0.067	0.314
glycerol2	-0.342	-0.321
lignocerate	-0.704	-0.363
oleate	0.312	-0.027
phosphatidylcholine	-0.668	-0.258
acetate	-0.432	-0.271
glucAc	-0.641	0.726
Rv0950ko	0.576	0.443
Rv1096ko	1.27	1.212
Rv3684ko	1.238	0.704
delta_otsA_trehalose	-0.21	-0.564