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 Rv0500/proC:

update plot	correlation	link to info on gene
Rv2927c/-	(cc=0.5319)	info on Rv2927c/-
Rv0821c/phoY2	(cc=0.4574)	info on Rv0821c/phoY2
Rv2751/-	(cc=0.4485)	info on Rv2751/-
Rv3922c/-	(cc=0.4361)	info on Rv3922c/-
Rv2530c/vapC39	(cc=0.4292)	info on Rv2530c/vapC39
Rv1418/lprH	(cc=0.429)	info on Rv1418/lprH
Rv0364/-	(cc=0.4256)	info on Rv0364/-
Rv0926c/-	(cc=0.4228)	info on Rv0926c/-
Rv3841/bfrB	(cc=0.418)	info on Rv3841/bfrB
Rv1720c/vapC12	(cc=0.4063)	info on Rv1720c/vapC12

Correlation of Rv0500/proC with Rv2530c/vapC39

Normalized LFCs for Rv0500/proC:
(description and provenance of datasets)

	Rv0500/proC	Rv2530c/vapC39
Fe_supp_jason_reseq	-0.415	2.021
low_pH_jason_reseq	-0.44	1.586
NO_jason_reseq	0.583	-0.281
B6_jason_reseq	-0.292	-0.538
MHCII_jason_reseq	-0.257	-0.217
Isoniazid02	0.0	0.546
Rifampicin4	-0.341	0.474
Ethambutol3	-0.153	-0.089
Meropenem3	0.497	-0.053
Vancomycin16	-0.698	1.305
Rv2680_day32	0.0	1.701
H37Rv_KO_MarP	0.553	-0.165
hypoxia_3wks	-1.388	0.187
hypoxia_6wks	-1.013	-0.228
glycerol	0.0	1.463
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.973	3.566
BXD01	0.0	3.731
BXD010	0.543	3.969
BXD011	0.35	2.955
BXD03	0.907	1.849
BXD04	0.236	2.75
BXD05	0.975	3.385
BXD06	0.469	3.49
BXD07	0.851	3.809
BXD08	1.096	2.491
BXD09	1.753	3.016
CAST	0.0	0.23
CCcont	0.0	0.285
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.533
DS0c	0.0	0.0
GP01	0.0	1.43
GP02	0.0	2.139
GP0c	0.0	3.221
NOD	0.0	0.225
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	4.288
H37Rv_KO_CtpD	0.0	5.372
H37Rv_KO_Rv1272	0.0	0.495
H37Rv_KO_SugABC	0.0	0.272
H37Rv_KO_MbtN	0.0	0.437
Trans05	0.131	4.469
macrophage_unactivated	0.884	2.5
IL1	-0.658	0.492
Rapamycin	0.0	0.411
Tcell	-0.349	2.9
GMCSF	0.0	-1.735
IFNab	0.0	1.587
IFNg	1.376	-0.294
IFNg_GMCSF1	1.386	3.086
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.218
secA2_input	0.545	0.294
delta_Rv3594	0.211	1.667
delta_Rv3717	0.174	0.635
delta_Rv3811	0.721	2.214
delta_Rv0954	0.627	1.858
PonA1	0.437	3.233
EccD1_KO	-1.273	-2.684
EspI_KO	0.87	1.241
PE35_KO	-1.129	0.823
PPE68_KO	-0.579	-0.106
glycerol2	-0.369	-0.42
lignocerate	-0.32	-1.112
oleate	-0.373	1.036
phosphatidylcholine	-0.368	0.366
acetate	-0.437	-1.44
glucAc	-0.272	-3.978
Rv0950ko	1.049	0.691
Rv1096ko	0.38	0.513
Rv3684ko	-0.452	-0.305
delta_otsA_trehalose	-0.133	-0.503