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 Rv0688/-:

update plot	correlation	link to info on gene
Rv0933/pstB	(cc=0.5353)	info on Rv0933/pstB
Rv0914c/-	(cc=0.5016)	info on Rv0914c/-
Rv3180c/-	(cc=0.4754)	info on Rv3180c/-
Rv3681c/whiB4	(cc=0.4722)	info on Rv3681c/whiB4
Rv2072c/cobL	(cc=0.4715)	info on Rv2072c/cobL
Rv1351/-	(cc=0.4602)	info on Rv1351/-
Rv1708/-	(cc=0.4517)	info on Rv1708/-
Rv1144/-	(cc=0.4339)	info on Rv1144/-
Rv0213c/-	(cc=0.4263)	info on Rv0213c/-
Rv3640c/-	(cc=0.4259)	info on Rv3640c/-

Correlation of Rv0688/- with Rv0213c/-

Normalized LFCs for Rv0688/-:
(description and provenance of datasets)

	Rv0688/-	Rv0213c/-
Fe_supp_jason_reseq	0.412	-0.581
low_pH_jason_reseq	0.994	-0.489
NO_jason_reseq	0.625	0.155
B6_jason_reseq	0.83	-0.017
MHCII_jason_reseq	1.135	1.053
Isoniazid02	0.084	-0.77
Rifampicin4	0.482	0.217
Ethambutol3	-0.495	-0.621
Meropenem3	-0.379	-0.046
Vancomycin16	0.443	-0.05
Rv2680_day32	0.019	0.122
H37Rv_KO_MarP	0.313	0.478
hypoxia_3wks	0.901	0.267
hypoxia_6wks	-0.115	0.0
glycerol	-0.881	0.171
cholesterol	-0.545	0.236
AJ	-0.454	0.684
Bibs02	0.058	0.223
Bibs02c	0.388	1.075
BL6	0.03	0.283
BL6a	-0.293	0.653
BXD01	0.082	0.331
BXD010	0.061	0.277
BXD011	0.118	0.264
BXD03	-0.305	0.085
BXD04	0.049	0.036
BXD05	-0.09	0.039
BXD06	-0.314	0.237
BXD07	-0.218	0.219
BXD08	0.424	0.35
BXD09	-0.777	0.0
CAST	0.145	1.081
CCcont	-0.221	0.38
DS01	0.917	0.676
DS02	0.939	0.632
DS04	0.838	0.52
DS0c	0.731	0.751
GP01	-0.978	-0.851
GP02	-0.86	0.219
GP0c	0.091	-0.326
NOD	0.757	1.539
NZO	-0.257	0.461
PWK	0.24	0.672
H37Rv_KO_CtpC	-0.574	-0.048
H37Rv_KO_CtpD	-0.063	0.637
H37Rv_KO_Rv1272	0.704	0.057
H37Rv_KO_SugABC	0.603	0.964
H37Rv_KO_MbtN	-1.289	-0.529
Trans05	-0.022	0.543
macrophage_unactivated	0.047	-0.287
IL1	-0.475	-0.792
Rapamycin	0.046	0.0
Tcell	-0.469	0.094
GMCSF	-1.505	-0.705
IFNab	-0.973	-0.06
IFNg	-0.615	-0.134
IFNg_GMCSF1	-0.047	-0.031
Rv1432_day32	0.465	0.442
Rv1565c_day32	-0.098	0.239
secA2_input	0.307	0.045
delta_Rv3594	-0.291	-0.48
delta_Rv3717	0.271	-0.395
delta_Rv3811	0.913	-0.287
delta_Rv0954	-0.41	-0.031
PonA1	0.335	-0.083
EccD1_KO	0.286	0.247
EspI_KO	0.328	-0.399
PE35_KO	-0.414	-0.318
PPE68_KO	0.0	-0.182
glycerol2	-0.014	0.248
lignocerate	-0.049	0.192
oleate	-0.189	0.189
phosphatidylcholine	0.28	0.186
acetate	0.186	-0.193
glucAc	-0.301	-0.32
Rv0950ko	0.193	0.419
Rv1096ko	0.555	0.178
Rv3684ko	0.413	0.655
delta_otsA_trehalose	-1.343	-0.306