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 Rv1671/-:

update plot	correlation	link to info on gene
Rv1324/-	(cc=0.5356)	info on Rv1324/-
Rv2359/zur	(cc=0.5191)	info on Rv2359/zur
Rv1431/-	(cc=0.5125)	info on Rv1431/-
Rv1135c/PPE16	(cc=0.5044)	info on Rv1135c/PPE16
Rv3603c/-	(cc=0.4972)	info on Rv3603c/-
Rv2270/lppN	(cc=0.4924)	info on Rv2270/lppN
Rv2907c/rimM	(cc=0.4727)	info on Rv2907c/rimM
Rv2844/-	(cc=0.4713)	info on Rv2844/-
Rv2847c/cysG	(cc=0.4694)	info on Rv2847c/cysG
Rv1896c/-	(cc=0.4664)	info on Rv1896c/-

Correlation of Rv1671/- with Rv1896c/-

Normalized LFCs for Rv1671/-:
(description and provenance of datasets)

	Rv1671/-	Rv1896c/-
Fe_supp_jason_reseq	0.368	0.508
low_pH_jason_reseq	-0.738	-0.095
NO_jason_reseq	0.557	0.845
B6_jason_reseq	-0.21	0.03
MHCII_jason_reseq	0.613	0.458
Isoniazid02	0.224	-0.78
Rifampicin4	-0.089	-0.068
Ethambutol3	1.385	0.512
Meropenem3	-0.343	-0.167
Vancomycin16	0.085	0.13
Rv2680_day32	0.07	0.736
H37Rv_KO_MarP	0.099	-0.042
hypoxia_3wks	-0.355	0.096
hypoxia_6wks	-0.487	-0.326
glycerol	-0.32	-0.177
cholesterol	-0.149	-0.141
AJ	-0.116	0.259
Bibs02	-0.397	0.389
Bibs02c	0.376	-0.364
BL6	0.099	0.701
BL6a	0.329	0.528
BXD01	-0.257	0.043
BXD010	1.104	0.718
BXD011	0.061	0.758
BXD03	-0.562	0.162
BXD04	0.288	0.346
BXD05	0.67	0.991
BXD06	-0.372	0.701
BXD07	0.66	0.36
BXD08	-0.09	0.178
BXD09	0.501	0.0
CAST	0.073	-0.591
CCcont	-0.294	0.348
DS01	0.0	-0.144
DS02	0.268	-0.055
DS04	0.122	0.555
DS0c	-0.108	-0.377
GP01	-0.653	0.647
GP02	-1.386	-0.941
GP0c	-0.541	0.011
NOD	-0.151	0.182
NZO	-0.205	-0.175
PWK	-0.033	0.377
H37Rv_KO_CtpC	0.74	0.535
H37Rv_KO_CtpD	0.729	1.04
H37Rv_KO_Rv1272	1.466	1.069
H37Rv_KO_SugABC	-1.502	0.579
H37Rv_KO_MbtN	1.126	1.0
Trans05	0.355	0.666
macrophage_unactivated	0.139	0.088
IL1	-0.78	0.24
Rapamycin	-1.154	0.427
Tcell	-1.225	-0.528
GMCSF	-0.465	0.673
IFNab	-0.139	-0.26
IFNg	-0.802	0.457
IFNg_GMCSF1	0.047	0.399
Rv1432_day32	1.671	-0.068
Rv1565c_day32	0.256	0.659
secA2_input	0.081	-0.894
delta_Rv3594	0.788	0.228
delta_Rv3717	0.367	-0.108
delta_Rv3811	1.051	0.12
delta_Rv0954	0.611	0.252
PonA1	0.0	-0.165
EccD1_KO	0.895	1.098
EspI_KO	-0.157	0.311
PE35_KO	1.986	1.091
PPE68_KO	2.742	1.286
glycerol2	-0.531	0.213
lignocerate	-0.325	0.776
oleate	-0.163	-0.552
phosphatidylcholine	-0.265	0.287
acetate	-0.63	0.74
glucAc	-0.362	0.685
Rv0950ko	-0.908	0.169
Rv1096ko	-1.233	-0.265
Rv3684ko	-1.569	-0.56
delta_otsA_trehalose	-1.057	-0.533