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 Rv1482c/-

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

	Rv3020c/esxS	Rv1482c/-
Fe_supp_jason_reseq	-0.174	0.286
low_pH_jason_reseq	-0.077	-0.639
NO_jason_reseq	-1.436	0.417
B6_jason_reseq	-2.341	-0.856
MHCII_jason_reseq	-1.579	-1.002
Isoniazid02	-0.776	-0.009
Rifampicin4	0.222	0.173
Ethambutol3	-0.471	1.923
Meropenem3	0.086	1.896
Vancomycin16	-0.172	0.305
Rv2680_day32	-0.756	0.067
H37Rv_KO_MarP	-0.494	0.024
hypoxia_3wks	0.997	0.231
hypoxia_6wks	1.43	-0.013
glycerol	-2.85	-0.257
cholesterol	-0.657	-0.321
AJ	-1.052	0.039
Bibs02	-2.448	-0.729
Bibs02c	-0.212	-0.061
BL6	-1.966	0.836
BL6a	0.865	0.509
BXD01	1.258	0.713
BXD010	1.112	0.887
BXD011	1.23	0.125
BXD03	-0.226	0.825
BXD04	0.73	0.434
BXD05	0.239	0.979
BXD06	0.531	0.276
BXD07	0.177	0.398
BXD08	1.232	0.348
BXD09	0.718	0.482
CAST	0.332	-0.264
CCcont	-1.026	0.1
DS01	-0.19	-0.732
DS02	0.457	-0.452
DS04	1.348	0.427
DS0c	-0.984	-0.222
GP01	0.297	-0.306
GP02	0.286	0.225
GP0c	-0.132	0.286
NOD	0.609	-0.187
NZO	0.22	0.477
PWK	0.978	1.599
H37Rv_KO_CtpC	0.71	0.9
H37Rv_KO_CtpD	0.954	0.273
H37Rv_KO_Rv1272	1.691	0.552
H37Rv_KO_SugABC	-0.883	0.339
H37Rv_KO_MbtN	2.472	0.431
Trans05	1.533	1.091
macrophage_unactivated	1.001	-0.36
IL1	0.377	0.344
Rapamycin	-0.503	-0.144
Tcell	0.482	0.551
GMCSF	1.022	0.605
IFNab	0.067	0.121
IFNg	1.296	0.224
IFNg_GMCSF1	1.323	0.842
Rv1432_day32	1.443	1.348
Rv1565c_day32	0.0	0.619
secA2_input	1.094	-0.791
delta_Rv3594	-1.104	-0.552
delta_Rv3717	-0.617	-0.644
delta_Rv3811	-0.491	-0.761
delta_Rv0954	-2.474	-0.652
PonA1	-1.08	0.016
EccD1_KO	0.855	1.181
EspI_KO	-0.773	0.65
PE35_KO	0.665	0.875
PPE68_KO	0.061	0.873
glycerol2	-1.344	-0.328
lignocerate	-1.34	-0.412
oleate	-0.02	0.388
phosphatidylcholine	-0.734	-0.146
acetate	-1.829	-0.818
glucAc	-1.868	-0.968
Rv0950ko	0.983	0.323
Rv1096ko	-1.592	0.036
Rv3684ko	-0.976	0.35
delta_otsA_trehalose	-1.151	-1.002