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 Rv2585c/-:

update plot	correlation	link to info on gene
Rv1035c/-	(cc=0.5171)	info on Rv1035c/-
Rv1773c/-	(cc=0.495)	info on Rv1773c/-
Rv0825c/-	(cc=0.4934)	info on Rv0825c/-
Rv1587c/-	(cc=0.4886)	info on Rv1587c/-
Rv0402c/mmpL1	(cc=0.4785)	info on Rv0402c/mmpL1
Rv3509c/ilvX	(cc=0.456)	info on Rv3509c/ilvX
Rv3649/-	(cc=0.4399)	info on Rv3649/-
Rv0646c/lipG	(cc=0.4322)	info on Rv0646c/lipG
Rv3695/-	(cc=0.4307)	info on Rv3695/-
Rv1767/-	(cc=0.4245)	info on Rv1767/-

Correlation of Rv2585c/- with Rv0402c/mmpL1

Normalized LFCs for Rv2585c/-:
(description and provenance of datasets)

	Rv2585c/-	Rv0402c/mmpL1
Fe_supp_jason_reseq	0.229	-0.098
low_pH_jason_reseq	-1.047	-0.151
NO_jason_reseq	-0.798	-0.284
B6_jason_reseq	0.492	0.084
MHCII_jason_reseq	0.212	0.146
Isoniazid02	0.028	-0.105
Rifampicin4	0.615	-0.138
Ethambutol3	0.924	0.152
Meropenem3	0.945	0.327
Vancomycin16	0.127	0.18
Rv2680_day32	0.151	0.708
H37Rv_KO_MarP	-0.913	0.473
hypoxia_3wks	-0.514	0.064
hypoxia_6wks	-0.505	-0.203
glycerol	-0.092	-0.867
cholesterol	0.846	0.52
AJ	0.519	0.39
Bibs02	0.616	0.619
Bibs02c	0.358	0.69
BL6	0.356	0.112
BL6a	0.505	0.686
BXD01	0.008	0.337
BXD010	0.812	0.354
BXD011	0.672	0.717
BXD03	0.487	0.325
BXD04	0.17	0.219
BXD05	0.746	0.265
BXD06	0.481	0.321
BXD07	0.367	0.233
BXD08	0.305	0.307
BXD09	0.441	0.229
CAST	0.143	0.42
CCcont	-0.558	0.017
DS01	0.217	0.135
DS02	0.109	0.038
DS04	0.617	0.045
DS0c	-0.099	-0.025
GP01	0.3	0.205
GP02	0.091	-0.055
GP0c	-0.276	-0.137
NOD	0.628	0.529
NZO	0.298	0.374
PWK	1.131	0.32
H37Rv_KO_CtpC	-1.125	-0.235
H37Rv_KO_CtpD	-0.715	0.213
H37Rv_KO_Rv1272	-0.278	0.142
H37Rv_KO_SugABC	0.296	0.314
H37Rv_KO_MbtN	0.583	-0.025
Trans05	0.476	-0.024
macrophage_unactivated	0.316	-0.177
IL1	-0.374	-0.024
Rapamycin	-0.246	-0.298
Tcell	-0.632	0.075
GMCSF	1.17	0.121
IFNab	0.351	-0.345
IFNg	0.436	0.243
IFNg_GMCSF1	1.144	0.239
Rv1432_day32	1.643	1.897
Rv1565c_day32	0.433	0.316
secA2_input	-0.719	-0.318
delta_Rv3594	0.805	0.049
delta_Rv3717	0.75	-0.028
delta_Rv3811	0.516	0.288
delta_Rv0954	0.185	0.123
PonA1	0.369	0.351
EccD1_KO	0.628	0.174
EspI_KO	0.408	-0.106
PE35_KO	-0.327	0.28
PPE68_KO	0.067	0.198
glycerol2	-0.342	0.308
lignocerate	-0.704	0.363
oleate	0.312	0.432
phosphatidylcholine	-0.668	0.437
acetate	-0.432	0.013
glucAc	-0.641	-0.081
Rv0950ko	0.576	0.32
Rv1096ko	1.27	0.739
Rv3684ko	1.238	0.671
delta_otsA_trehalose	-0.21	-0.726