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 Rv3023c/-:

update plot	correlation	link to info on gene
Rv1047/-	(cc=0.9569)	info on Rv1047/-
Rv2666/-	(cc=0.8829)	info on Rv2666/-
Rv3115/-	(cc=0.8696)	info on Rv3115/-
Rv2512c/-	(cc=0.7659)	info on Rv2512c/-
Rv1199c/-	(cc=0.7634)	info on Rv1199c/-
Rv3187/-	(cc=0.689)	info on Rv3187/-
Rv2279/-	(cc=0.6867)	info on Rv2279/-
Rv1369c/-	(cc=0.6681)	info on Rv1369c/-
Rv1756c/-	(cc=0.6668)	info on Rv1756c/-
Rv2355/-	(cc=0.6589)	info on Rv2355/-

Correlation of Rv3023c/- with Rv1369c/-

Normalized LFCs for Rv3023c/-:
(description and provenance of datasets)

	Rv3023c/-	Rv1369c/-
Fe_supp_jason_reseq	-0.908	-0.436
low_pH_jason_reseq	-0.186	-0.5
NO_jason_reseq	-0.155	-0.016
B6_jason_reseq	-0.704	-0.552
MHCII_jason_reseq	-0.428	-0.197
Isoniazid02	-1.075	-0.083
Rifampicin4	0.257	0.964
Ethambutol3	-0.631	0.497
Meropenem3	-0.294	-0.14
Vancomycin16	-0.82	-0.032
Rv2680_day32	0.098	0.464
H37Rv_KO_MarP	-0.222	-0.255
hypoxia_3wks	-0.215	0.638
hypoxia_6wks	-0.785	0.096
glycerol	0.234	-0.636
cholesterol	-0.17	0.142
AJ	0.931	1.469
Bibs02	1.028	1.211
Bibs02c	1.42	1.726
BL6	0.027	0.272
BL6a	0.809	1.04
BXD01	0.532	0.665
BXD010	0.523	0.901
BXD011	0.257	0.789
BXD03	0.679	0.778
BXD04	0.743	0.556
BXD05	0.952	1.125
BXD06	0.575	0.563
BXD07	0.823	0.83
BXD08	0.328	0.571
BXD09	0.453	0.818
CAST	0.762	1.341
CCcont	0.065	0.234
DS01	0.366	1.117
DS02	0.985	1.054
DS04	0.528	1.196
DS0c	0.837	1.394
GP01	0.433	1.283
GP02	0.489	1.423
GP0c	0.32	0.802
NOD	0.688	1.443
NZO	0.578	1.195
PWK	0.466	1.222
H37Rv_KO_CtpC	1.194	0.94
H37Rv_KO_CtpD	0.662	0.859
H37Rv_KO_Rv1272	0.747	0.513
H37Rv_KO_SugABC	1.049	0.781
H37Rv_KO_MbtN	0.437	0.682
Trans05	1.11	0.914
macrophage_unactivated	0.268	-0.78
IL1	0.925	-0.412
Rapamycin	0.638	-0.448
Tcell	-1.039	-1.685
GMCSF	0.85	-0.385
IFNab	0.29	-0.792
IFNg	0.032	-0.502
IFNg_GMCSF1	0.688	-0.66
Rv1432_day32	-0.402	0.464
Rv1565c_day32	0.253	0.011
secA2_input	-0.139	0.283
delta_Rv3594	0.104	-0.028
delta_Rv3717	-0.37	-0.079
delta_Rv3811	0.0	-0.15
delta_Rv0954	-0.056	0.428
PonA1	-0.716	0.128
EccD1_KO	-0.408	0.539
EspI_KO	0.083	1.158
PE35_KO	1.0	1.146
PPE68_KO	0.278	0.768
glycerol2	-1.386	-0.951
lignocerate	-1.078	-0.695
oleate	-1.171	-1.201
phosphatidylcholine	-1.104	-0.845
acetate	0.685	0.191
glucAc	-0.081	-0.059
Rv0950ko	0.0	0.106
Rv1096ko	-0.489	-0.311
Rv3684ko	-0.301	-0.337
delta_otsA_trehalose	-0.437	0.144