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 Rv3466/-:

update plot	correlation	link to info on gene
Rv1588c/-	(cc=0.9134)	info on Rv1588c/-
Rv3467/-	(cc=0.7718)	info on Rv3467/-
Rv0094c/-	(cc=0.7296)	info on Rv0094c/-
Rv1756c/-	(cc=0.6593)	info on Rv1756c/-
Rv2649/-	(cc=0.6562)	info on Rv2649/-
Rv3475/-	(cc=0.6538)	info on Rv3475/-
Rv2814c/-	(cc=0.6417)	info on Rv2814c/-
Rv2106/-	(cc=0.6399)	info on Rv2106/-
Rv3326/-	(cc=0.6387)	info on Rv3326/-
Rv0796/-	(cc=0.6385)	info on Rv0796/-

Correlation of Rv3466/- with Rv1588c/-

Normalized LFCs for Rv3466/-:
(description and provenance of datasets)

	Rv3466/-	Rv1588c/-
Fe_supp_jason_reseq	0.194	0.204
low_pH_jason_reseq	-0.049	-0.211
NO_jason_reseq	0.459	0.412
B6_jason_reseq	0.047	-0.14
MHCII_jason_reseq	-0.457	-0.465
Isoniazid02	0.665	0.566
Rifampicin4	0.669	0.593
Ethambutol3	-0.061	0.123
Meropenem3	-0.186	-0.097
Vancomycin16	0.485	0.459
Rv2680_day32	-1.061	-1.031
H37Rv_KO_MarP	-0.161	-0.042
hypoxia_3wks	-0.363	-0.247
hypoxia_6wks	-0.887	-0.712
glycerol	-0.443	-0.585
cholesterol	-0.529	-0.622
AJ	0.398	-0.025
Bibs02	1.02	1.02
Bibs02c	0.925	0.617
BL6	-0.309	-0.476
BL6a	0.931	0.449
BXD01	0.478	0.307
BXD010	-0.058	-0.197
BXD011	-0.315	-0.68
BXD03	0.683	0.444
BXD04	0.511	0.334
BXD05	0.168	0.029
BXD06	0.127	-0.091
BXD07	0.486	0.251
BXD08	0.425	0.241
BXD09	0.331	0.133
CAST	0.287	0.1
CCcont	-0.348	-0.433
DS01	1.177	1.095
DS02	1.478	1.268
DS04	0.885	0.871
DS0c	0.83	0.863
GP01	0.464	0.37
GP02	0.902	0.734
GP0c	0.838	0.593
NOD	-0.29	-0.618
NZO	0.228	-0.09
PWK	0.705	0.705
H37Rv_KO_CtpC	0.896	0.634
H37Rv_KO_CtpD	-0.823	-0.876
H37Rv_KO_Rv1272	0.134	0.031
H37Rv_KO_SugABC	-1.127	-1.193
H37Rv_KO_MbtN	-0.854	-0.758
Trans05	0.678	0.407
macrophage_unactivated	-0.685	-0.739
IL1	-0.697	-0.825
Rapamycin	-1.071	-0.988
Tcell	-0.828	-1.199
GMCSF	-0.573	-0.734
IFNab	-0.656	-0.52
IFNg	-1.382	-0.984
IFNg_GMCSF1	0.33	0.327
Rv1432_day32	-0.073	-0.117
Rv1565c_day32	0.946	0.256
secA2_input	-0.269	0.877
delta_Rv3594	-0.255	-0.535
delta_Rv3717	-0.371	-0.586
delta_Rv3811	-1.139	-1.21
delta_Rv0954	0.249	-0.204
PonA1	-0.274	-0.422
EccD1_KO	-0.247	0.572
EspI_KO	0.433	1.021
PE35_KO	0.557	0.263
PPE68_KO	0.272	0.813
glycerol2	-1.213	-1.265
lignocerate	-0.906	-0.884
oleate	-1.202	-1.221
phosphatidylcholine	-0.84	-1.069
acetate	0.268	0.441
glucAc	-0.348	-0.011
Rv0950ko	-1.146	-0.678
Rv1096ko	-0.283	0.103
Rv3684ko	-0.694	-0.671
delta_otsA_trehalose	0.87	0.576