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 Rv1597/-:

update plot	correlation	link to info on gene
Rv0893c/-	(cc=0.4394)	info on Rv0893c/-
Rv3469c/mhpE	(cc=0.4028)	info on Rv3469c/mhpE
Rv1676/-	(cc=0.3995)	info on Rv1676/-
Rv2821c/-	(cc=0.3926)	info on Rv2821c/-
Rv3758c/proV	(cc=0.386)	info on Rv3758c/proV
Rv3127/-	(cc=0.3805)	info on Rv3127/-
Rv0495c/-	(cc=0.3782)	info on Rv0495c/-
Rv2769c/PE27	(cc=0.3748)	info on Rv2769c/PE27
Rv1103c/mazE3	(cc=0.3741)	info on Rv1103c/mazE3
Rv2641/cadI	(cc=0.3727)	info on Rv2641/cadI

Correlation of Rv1597/- with Rv2641/cadI

Normalized LFCs for Rv1597/-:
(description and provenance of datasets)

	Rv1597/-	Rv2641/cadI
Fe_supp_jason_reseq	0.224	0.081
low_pH_jason_reseq	0.736	1.027
NO_jason_reseq	0.394	0.299
B6_jason_reseq	0.115	0.081
MHCII_jason_reseq	0.094	0.111
Isoniazid02	0.589	0.281
Rifampicin4	0.081	-0.428
Ethambutol3	-0.178	0.567
Meropenem3	0.737	3.128
Vancomycin16	0.305	0.066
Rv2680_day32	0.675	-0.412
H37Rv_KO_MarP	0.817	-0.106
hypoxia_3wks	0.12	0.044
hypoxia_6wks	0.14	0.106
glycerol	0.805	0.506
cholesterol	0.036	0.314
AJ	-0.328	-0.318
Bibs02	1.02	-0.266
Bibs02c	-0.08	-0.305
BL6	1.072	0.291
BL6a	-0.491	-0.159
BXD01	0.11	0.445
BXD010	0.315	0.612
BXD011	-0.041	0.176
BXD03	0.146	-0.054
BXD04	0.297	0.409
BXD05	0.05	0.158
BXD06	0.174	-0.107
BXD07	0.165	0.011
BXD08	0.391	0.749
BXD09	0.324	0.428
CAST	-0.41	1.323
CCcont	0.467	0.388
DS01	0.626	-0.084
DS02	0.258	0.285
DS04	0.887	0.469
DS0c	0.738	0.225
GP01	0.336	0.84
GP02	0.621	0.007
GP0c	0.551	0.166
NOD	-1.009	0.208
NZO	-0.156	-0.363
PWK	-0.566	-0.125
H37Rv_KO_CtpC	0.366	-0.75
H37Rv_KO_CtpD	0.472	0.593
H37Rv_KO_Rv1272	1.026	-0.034
H37Rv_KO_SugABC	-0.327	0.72
H37Rv_KO_MbtN	0.323	0.055
Trans05	0.36	0.595
macrophage_unactivated	-0.704	-0.107
IL1	-0.273	-0.323
Rapamycin	-0.341	-0.12
Tcell	-0.218	0.124
GMCSF	-0.309	-0.544
IFNab	-0.614	-0.393
IFNg	-0.329	-0.404
IFNg_GMCSF1	-0.408	-0.031
Rv1432_day32	0.708	-0.038
Rv1565c_day32	0.655	1.332
secA2_input	-0.985	-0.385
delta_Rv3594	-0.096	-0.704
delta_Rv3717	0.403	-0.126
delta_Rv3811	0.381	-0.4
delta_Rv0954	0.441	0.698
PonA1	0.631	1.33
EccD1_KO	0.467	-0.296
EspI_KO	0.1	-1.58
PE35_KO	0.298	-0.543
PPE68_KO	-0.698	-1.353
glycerol2	0.434	0.793
lignocerate	0.654	1.277
oleate	-0.149	0.509
phosphatidylcholine	0.723	1.196
acetate	0.46	0.818
glucAc	0.612	0.41
Rv0950ko	0.19	0.507
Rv1096ko	-0.283	0.618
Rv3684ko	-0.884	-0.688
delta_otsA_trehalose	0.585	2.781