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 Rv1690/lprJ:

update plot	correlation	link to info on gene
Rv1274/lprB	(cc=0.4838)	info on Rv1274/lprB
Rv3286c/sigF	(cc=0.4691)	info on Rv3286c/sigF
Rv1473/-	(cc=0.4679)	info on Rv1473/-
Rv3202c/-	(cc=0.4677)	info on Rv3202c/-
Rv2467/pepN	(cc=0.4535)	info on Rv2467/pepN
Rv3160c/-	(cc=0.4409)	info on Rv3160c/-
Rv3032/-	(cc=0.4333)	info on Rv3032/-
Rv1347c/mbtK	(cc=0.4256)	info on Rv1347c/mbtK
Rv2199c/-	(cc=0.4239)	info on Rv2199c/-
Rv0574c/-	(cc=0.4135)	info on Rv0574c/-

Correlation of Rv1690/lprJ with Rv3202c/-

Normalized LFCs for Rv1690/lprJ:
(description and provenance of datasets)

	Rv1690/lprJ	Rv3202c/-
Fe_supp_jason_reseq	-0.508	0.191
low_pH_jason_reseq	0.925	0.415
NO_jason_reseq	-0.953	0.273
B6_jason_reseq	-0.403	0.308
MHCII_jason_reseq	0.452	0.629
Isoniazid02	-1.132	-0.013
Rifampicin4	1.042	0.463
Ethambutol3	-1.121	0.198
Meropenem3	-0.151	-0.334
Vancomycin16	-0.451	0.024
Rv2680_day32	-0.476	0.346
H37Rv_KO_MarP	-0.717	-0.305
hypoxia_3wks	-0.275	-0.961
hypoxia_6wks	-2.088	-0.741
glycerol	0.663	1.118
cholesterol	0.726	1.178
AJ	-1.177	0.763
Bibs02	-1.827	0.077
Bibs02c	1.303	0.173
BL6	-0.195	-0.112
BL6a	0.871	0.083
BXD01	-0.132	-0.201
BXD010	0.776	-0.037
BXD011	-0.581	-0.352
BXD03	-1.408	0.513
BXD04	-0.504	-0.275
BXD05	-1.886	-0.039
BXD06	-0.643	-0.25
BXD07	-0.598	-0.02
BXD08	0.143	-0.273
BXD09	-0.713	0.153
CAST	-1.942	0.28
CCcont	0.559	0.696
DS01	0.075	0.433
DS02	-0.786	0.265
DS04	-1.781	-0.056
DS0c	-1.045	0.151
GP01	0.031	0.315
GP02	0.881	0.632
GP0c	0.365	1.049
NOD	0.072	-0.796
NZO	0.535	1.357
PWK	-1.878	0.335
H37Rv_KO_CtpC	-0.314	0.091
H37Rv_KO_CtpD	0.53	0.971
H37Rv_KO_Rv1272	-0.831	0.04
H37Rv_KO_SugABC	0.371	1.266
H37Rv_KO_MbtN	0.362	-0.176
Trans05	-1.832	0.535
macrophage_unactivated	0.735	0.376
IL1	-1.092	-0.878
Rapamycin	-1.129	-0.064
Tcell	1.14	0.261
GMCSF	-1.497	0.412
IFNab	-2.05	0.242
IFNg	-1.376	0.267
IFNg_GMCSF1	0.327	0.374
Rv1432_day32	-0.056	0.469
Rv1565c_day32	1.714	0.035
secA2_input	0.513	0.238
delta_Rv3594	0.346	0.259
delta_Rv3717	-0.195	-0.356
delta_Rv3811	0.457	-0.085
delta_Rv0954	0.123	0.547
PonA1	0.666	-0.22
EccD1_KO	0.428	0.352
EspI_KO	1.991	0.821
PE35_KO	0.986	1.003
PPE68_KO	1.664	0.544
glycerol2	0.797	0.102
lignocerate	0.413	0.235
oleate	0.108	-0.081
phosphatidylcholine	0.353	-0.08
acetate	0.096	0.504
glucAc	-0.149	0.546
Rv0950ko	1.086	0.286
Rv1096ko	1.616	0.682
Rv3684ko	0.927	1.104
delta_otsA_trehalose	3.883	2.473