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 Rv3020c/esxS:

update plot	correlation	link to info on gene
Rv3398c/idsA1	(cc=0.5563)	info on Rv3398c/idsA1
Rv1984c/cfp21	(cc=0.5411)	info on Rv1984c/cfp21
Rv1831/-	(cc=0.5351)	info on Rv1831/-
Rv1918c/PPE35	(cc=0.5215)	info on Rv1918c/PPE35
Rv0647c/-	(cc=0.5091)	info on Rv0647c/-
Rv1521/fadD25	(cc=0.4911)	info on Rv1521/fadD25
Rv1787/PPE25	(cc=0.4902)	info on Rv1787/PPE25
Rv1949c/-	(cc=0.4875)	info on Rv1949c/-
Rv1482c/-	(cc=0.4861)	info on Rv1482c/-
Rv2339/mmpL9	(cc=0.4809)	info on Rv2339/mmpL9

Correlation of Rv3020c/esxS with Rv1521/fadD25

Normalized LFCs for Rv3020c/esxS:
(description and provenance of datasets)

	Rv3020c/esxS	Rv1521/fadD25
Fe_supp_jason_reseq	-0.174	1.408
low_pH_jason_reseq	-0.077	-0.495
NO_jason_reseq	-1.436	0.0
B6_jason_reseq	-2.341	0.444
MHCII_jason_reseq	-1.579	0.125
Isoniazid02	-0.776	-0.183
Rifampicin4	0.222	0.133
Ethambutol3	-0.471	0.322
Meropenem3	0.086	0.081
Vancomycin16	-0.172	0.379
Rv2680_day32	-0.756	0.161
H37Rv_KO_MarP	-0.494	0.0
hypoxia_3wks	0.997	0.698
hypoxia_6wks	1.43	0.576
glycerol	-2.85	-0.404
cholesterol	-0.657	-0.35
AJ	-1.052	0.274
Bibs02	-2.448	0.539
Bibs02c	-0.212	-0.537
BL6	-1.966	0.492
BL6a	0.865	0.408
BXD01	1.258	0.906
BXD010	1.112	1.149
BXD011	1.23	0.802
BXD03	-0.226	1.018
BXD04	0.73	1.19
BXD05	0.239	0.952
BXD06	0.531	0.737
BXD07	0.177	0.688
BXD08	1.232	1.121
BXD09	0.718	0.668
CAST	0.332	0.052
CCcont	-1.026	0.478
DS01	-0.19	0.027
DS02	0.457	0.0
DS04	1.348	-0.045
DS0c	-0.984	-0.05
GP01	0.297	0.634
GP02	0.286	1.092
GP0c	-0.132	0.726
NOD	0.609	0.524
NZO	0.22	-0.023
PWK	0.978	-0.59
H37Rv_KO_CtpC	0.71	1.032
H37Rv_KO_CtpD	0.954	1.28
H37Rv_KO_Rv1272	1.691	1.45
H37Rv_KO_SugABC	-0.883	0.767
H37Rv_KO_MbtN	2.472	1.982
Trans05	1.533	1.332
macrophage_unactivated	1.001	0.505
IL1	0.377	0.552
Rapamycin	-0.503	0.703
Tcell	0.482	0.404
GMCSF	1.022	0.129
IFNab	0.067	0.72
IFNg	1.296	0.476
IFNg_GMCSF1	1.323	0.531
Rv1432_day32	1.443	0.169
Rv1565c_day32	0.0	0.313
secA2_input	1.094	-0.762
delta_Rv3594	-1.104	0.515
delta_Rv3717	-0.617	-0.225
delta_Rv3811	-0.491	0.0
delta_Rv0954	-2.474	-0.127
PonA1	-1.08	-0.18
EccD1_KO	0.855	0.033
EspI_KO	-0.773	0.314
PE35_KO	0.665	0.347
PPE68_KO	0.061	0.65
glycerol2	-1.344	-0.149
lignocerate	-1.34	-0.496
oleate	-0.02	0.067
phosphatidylcholine	-0.734	-0.045
acetate	-1.829	-0.308
glucAc	-1.868	-0.773
Rv0950ko	0.983	0.193
Rv1096ko	-1.592	-1.194
Rv3684ko	-0.976	-0.793
delta_otsA_trehalose	-1.151	0.144