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 Rv1322/-:

update plot	correlation	link to info on gene
Rv2793c/truB	(cc=0.4631)	info on Rv2793c/truB
Rv0336/-	(cc=0.4551)	info on Rv0336/-
Rv0830/-	(cc=0.4531)	info on Rv0830/-
Rv0814c/sseC2	(cc=0.4518)	info on Rv0814c/sseC2
Rv2118c/-	(cc=0.4506)	info on Rv2118c/-
Rv1215c/-	(cc=0.4443)	info on Rv1215c/-
Rv0563/htpX	(cc=0.4311)	info on Rv0563/htpX
Rv3098c/-	(cc=0.426)	info on Rv3098c/-
Rv2195/qcrA	(cc=0.4244)	info on Rv2195/qcrA
Rv0833/PE_PGRS13	(cc=0.4135)	info on Rv0833/PE_PGRS13

Correlation of Rv1322/- with Rv0830/-

Normalized LFCs for Rv1322/-:
(description and provenance of datasets)

	Rv1322/-	Rv0830/-
Fe_supp_jason_reseq	-0.049	0.148
low_pH_jason_reseq	1.201	-0.279
NO_jason_reseq	0.827	0.357
B6_jason_reseq	-0.064	0.739
MHCII_jason_reseq	-0.895	0.519
Isoniazid02	-1.106	-1.003
Rifampicin4	-0.333	0.417
Ethambutol3	0.071	0.027
Meropenem3	0.913	-0.343
Vancomycin16	0.751	-0.223
Rv2680_day32	-1.054	0.08
H37Rv_KO_MarP	-0.11	0.042
hypoxia_3wks	0.77	-0.435
hypoxia_6wks	0.365	-0.159
glycerol	-1.3	-0.859
cholesterol	0.116	-0.552
AJ	0.77	0.481
Bibs02	1.652	0.367
Bibs02c	0.787	0.202
BL6	1.305	0.037
BL6a	0.627	0.141
BXD01	0.471	0.167
BXD010	0.425	-0.117
BXD011	-0.33	-0.097
BXD03	-0.388	-0.453
BXD04	-0.053	-0.127
BXD05	1.101	0.288
BXD06	0.597	-0.154
BXD07	-0.488	-0.126
BXD08	1.778	0.018
BXD09	0.131	-0.004
CAST	2.676	0.21
CCcont	-0.248	-0.295
DS01	0.436	-0.258
DS02	1.679	0.274
DS04	0.156	-0.103
DS0c	-0.256	0.204
GP01	1.34	0.444
GP02	1.875	1.298
GP0c	1.32	-0.138
NOD	0.675	0.205
NZO	0.9	0.285
PWK	1.421	0.459
H37Rv_KO_CtpC	2.814	0.477
H37Rv_KO_CtpD	-1.258	0.225
H37Rv_KO_Rv1272	1.315	0.56
H37Rv_KO_SugABC	-0.704	0.499
H37Rv_KO_MbtN	-0.405	-0.078
Trans05	1.981	0.684
macrophage_unactivated	-1.25	0.237
IL1	-0.175	-0.564
Rapamycin	-0.773	-0.292
Tcell	0.57	0.274
GMCSF	0.401	0.185
IFNab	-0.738	-0.19
IFNg	0.422	-0.211
IFNg_GMCSF1	0.424	-0.066
Rv1432_day32	0.859	0.023
Rv1565c_day32	-0.618	0.242
secA2_input	-0.759	-0.204
delta_Rv3594	-2.354	-0.341
delta_Rv3717	-2.318	-0.507
delta_Rv3811	-1.679	-0.656
delta_Rv0954	-1.553	-0.682
PonA1	0.394	-0.446
EccD1_KO	0.868	0.967
EspI_KO	0.208	0.034
PE35_KO	-0.099	-0.067
PPE68_KO	0.208	0.643
glycerol2	-0.247	0.409
lignocerate	-0.241	0.269
oleate	0.829	0.668
phosphatidylcholine	0.573	0.655
acetate	0.063	-0.136
glucAc	-0.779	-0.005
Rv0950ko	1.71	0.28
Rv1096ko	0.157	-0.401
Rv3684ko	0.242	-0.229
delta_otsA_trehalose	-0.667	0.579